All pairs of domain combinations at the superfamily level are listed here.
The identification of domain pairs does not account for the possibility of non-contiguous domains. Inserted, or interlaced, domains are seen as having a simple pair ordering.
The links below permit the addition or removal of specific sets of domain combination pairs.
Change the list of genome two-letter codes in the 'Include genomes' box to include domain-pairs from those genomes.
Change the list of genomes in the 'Exclude genomes' box to exclude domain-pairs from those genomes.
List of all two-letter genome codes.
| Superfamily (N) | Superfamily (C) | Number of occurrances | Number unique | |
|---|
| P-loop containing nucleoside triphosphate hydrolases | P-loop containing nucleoside triphosphate hydrolases | 41 | 20 |  |
| beta-beta-alpha zinc fingers | beta-beta-alpha zinc fingers | 27 | 10 | |
| Glucocorticoid receptor-like (DNA-binding domain) | Nuclear receptor ligand-binding domain | 25 | 5 | |
| Ribonuclease H-like | DNA/RNA polymerases | 25 | 15 | |
| Actin-like ATPase domain | Actin-like ATPase domain | 24 | 9 | |
| RNA-binding domain, RBD | RNA-binding domain, RBD | 21 | 10 | |
| Immunoglobulin | Immunoglobulin | 20 | 18 | |
| Nucleotidyltransferase | PAP/OAS1 substrate-binding domain | 17 | 8 | |
| PDZ domain-like | PDZ domain-like | 14 | 12 | |
| RING/U-box | RING/U-box | 14 | 7 | |
| EGF/Laminin | EGF/Laminin | 13 | 12 | |
| C2 domain (Calcium/lipid-binding domain, CaLB) | C2 domain (Calcium/lipid-binding domain, CaLB) | 12 | 5 | |
| Homeodomain-like | Homeodomain-like | 12 | 8 | |
| Glucocorticoid receptor-like (DNA-binding domain) | Glucocorticoid receptor-like (DNA-binding domain) | 12 | 7 | |
| Retrovirus zinc finger-like domains | Acid proteases | 12 | 3 | |
| HAD-like | Calcium ATPase, transmembrane domain M | 11 | 8 | |
| Nicotinic receptor ligand binding domain-like | Neurotransmitter-gated ion-channel transmembrane pore | 11 | 4 | |
| TPR-like | TPR-like | 11 | 7 | |
| Cyclin-like | Cyclin-like | 10 | 5 | |
| Metal cation-transporting ATPase, ATP-binding domain N | HAD-like | 10 | 7 | |
| C-type lectin-like | C-type lectin-like | 10 | 5 | |
| Concanavalin A-like lectins/glucanases | Concanavalin A-like lectins/glucanases | 10 | 6 | |
| Ribonuclease H-like | Chromo domain-like | 10 | 3 | |
| Immunoglobulin | Fibronectin type III | 10 | 10 | |
| DNase I-like | DNA/RNA polymerases | 10 | 3 | |
| P-loop containing nucleoside triphosphate hydrolases | Translation proteins | 9 | 5 | |
| ARM repeat | ARM repeat | 9 | 8 | |
| Acid proteases | DNA/RNA polymerases | 9 | 5 | |
| Fibronectin type III | Fibronectin type III | 9 | 9 | |
| CCCH zinc finger | CCCH zinc finger | 9 | 6 | |
| Nucleotidylyl transferase | Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 8 | 6 | |
| Metal cation-transporting ATPase, ATP-binding domain N | Calcium ATPase, transmembrane domain M | 8 | 5 | |
| BPTI-like | BPTI-like | 8 | 8 | |
| Voltage-gated potassium channels | Voltage-gated potassium channels | 8 | 4 | |
| ABC transporter transmembrane region | P-loop containing nucleoside triphosphate hydrolases | 8 | 6 | |
| TRAF domain-like | POZ domain | 8 | 4 | |
| DBL homology domain (DH-domain) | PH domain-like | 8 | 7 | |
| Acyl-CoA dehydrogenase NM domain-like | Acyl-CoA dehydrogenase C-terminal domain-like | 7 | 4 | |
| FYVE/PHD zinc finger | FYVE/PHD zinc finger | 7 | 7 | |
| Calcium ATPase, transduction domain A | Metal cation-transporting ATPase, ATP-binding domain N | 7 | 4 | |
| PAZ domain | Ribonuclease H-like | 7 | 3 | |
| EF-hand | EF-hand | 7 | 6 | |
| Ubiquitin-like | PH domain-like | 7 | 4 | |
| Protein kinase-like (PK-like) | Nucleotide cyclase | 7 | 6 | |
| Calcium ATPase, transduction domain A | Calcium ATPase, transmembrane domain M | 7 | 4 | |
| FAD/NAD(P)-binding domain | FAD-linked reductases, C-terminal domain | 7 | 6 | |
| Thioredoxin-like | GST C-terminal domain-like | 7 | 2 | |
| Calcium ATPase, transduction domain A | HAD-like | 7 | 4 | |
| Multidrug efflux transporter AcrB transmembrane domain | Multidrug efflux transporter AcrB transmembrane domain | 7 | 3 | |
| Second domain of FERM | PH domain-like | 7 | 4 | |
| Thioredoxin-like | Thioredoxin-like | 7 | 6 | |
| SNARE-like | Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor | 7 | 2 | |
| ARM repeat | Protein kinase-like (PK-like) | 7 | 6 | |
| SH2 domain | Protein kinase-like (PK-like) | 6 | 4 | |
| Translation proteins | EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain | 6 | 2 | |
| NAD(P)-binding Rossmann-fold domains | 6-phosphogluconate dehydrogenase C-terminal domain-like | 6 | 3 | |
| Tubulin nucleotide-binding domain-like | Tubulin C-terminal domain-like | 6 | 4 | |
| Ubiquitin-like | Second domain of FERM | 6 | 3 | |
| WD40 repeat-like | WD40 repeat-like | 6 | 4 | |
| GroEL-intermediate domain like | GroEL apical domain-like | 6 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain | 6 | 2 | |
| GroEL equatorial domain-like | GroEL-intermediate domain like | 6 | 1 | |
| HSP40/DnaJ peptide-binding domain | HSP40/DnaJ peptide-binding domain | 6 | 5 | |
| GroEL equatorial domain-like | GroEL apical domain-like | 6 | 1 | |
| PAP/OAS1 substrate-binding domain | PAP/Archaeal CCA-adding enzyme, C-terminal domain | 6 | 4 | |
| Ribosomal protein S5 domain 2-like | Ribonuclease PH domain 2-like | 6 | 2 | |
| Eukaryotic type KH-domain (KH-domain type I) | Eukaryotic type KH-domain (KH-domain type I) | 6 | 6 | |
| Spectrin repeat | Spectrin repeat | 5 | 5 | |
| SH3-domain | SH2 domain | 5 | 5 | |
| "Winged helix" DNA-binding domain | "Winged helix" DNA-binding domain | 5 | 5 | |
| E set domains | E set domains | 5 | 5 | |
| TSP-1 type 1 repeat | TSP-1 type 1 repeat | 5 | 5 | |
| POZ domain | Voltage-gated potassium channels | 5 | 3 | |
| (Trans)glycosidases | Glycosyl hydrolase domain | 5 | 4 | |
| Transducin (alpha subunit), insertion domain | P-loop containing nucleoside triphosphate hydrolases | 5 | 3 | |
| Cadherin-like | Cadherin-like | 5 | 5 | |
| Chaperone J-domain | HSP40/DnaJ peptide-binding domain | 5 | 4 | |
| LDL receptor-like module | LDL receptor-like module | 5 | 5 | |
| C2 domain (Calcium/lipid-binding domain, CaLB) | Protein kinase-like (PK-like) | 5 | 5 | |
| Leukotriene A4 hydrolase N-terminal domain | Metalloproteases ("zincins"), catalytic domain | 5 | 4 | |
| Growth factor receptor domain | EGF/Laminin | 5 | 5 | |
| Ankyrin repeat | Ankyrin repeat | 5 | 5 | |
| Nucleic acid-binding proteins | P-loop containing nucleoside triphosphate hydrolases | 5 | 1 | |
| PriA/YqbF domain | GINS helical bundle-like | 4 | 2 | |
| Metalloproteases ("zincins"), catalytic domain | Spermadhesin, CUB domain | 4 | 3 | |
| GroES-like | NAD(P)-binding Rossmann-fold domains | 4 | 2 | |
| Class II aaRS and biotin synthetases | Class II aaRS ABD-related | 4 | 4 | |
| Nucleic acid-binding proteins | Nucleic acid-binding proteins | 4 | 4 | |
| PH domain-like | PDZ domain-like | 4 | 4 | |
| Hairpin loop containing domain-like | Hairpin loop containing domain-like | 4 | 4 | |
| PH domain-like | SH3-domain | 4 | 4 | |
| Thiamin diphosphate-binding fold (THDP-binding) | Thiamin diphosphate-binding fold (THDP-binding) | 4 | 3 | |
| P-loop containing nucleoside triphosphate hydrolases | Chromo domain-like | 4 | 4 | |
| vWA-like | beta-sandwich domain of Sec23/24 | 4 | 4 | |
| ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | Ribosomal protein S5 domain 2-like | 4 | 4 | |
| TATA-box binding protein-like | TATA-box binding protein-like | 4 | 2 | |
| Cysteine-rich domain | Cysteine-rich domain | 4 | 4 | |
| ARM repeat | Formin homology 2 domain (FH2 domain) | 4 | 4 | |
| Nucleotide-diphospho-sugar transferases | Ricin B-like lectins | 4 | 2 | |
| Acid proteases | Ribonuclease H-like | 4 | 3 | |
| Nucleic acid-binding proteins | Class II aaRS and biotin synthetases | 4 | 2 | |
| RING/U-box | B-box zinc-binding domain | 4 | 2 | |
| POZ domain | Skp1 dimerisation domain-like | 4 | 2 | |
| P-loop containing nucleoside triphosphate hydrolases | Sec63 N-terminal domain-like | 4 | 4 | |
| Chromo domain-like | Chromo domain-like | 4 | 4 | |
| Ypt/Rab-GAP domain of gyp1p | Ypt/Rab-GAP domain of gyp1p | 4 | 3 | |
| Thiolase-like | Thiolase-like | 4 | 2 | |
| SH3-domain | P-loop containing nucleoside triphosphate hydrolases | 4 | 4 | |
| Metallo-dependent hydrolases | Composite domain of metallo-dependent hydrolases | 4 | 4 | |
| Plus3-like | Plus3-like | 4 | 4 | |
| P-loop containing nucleoside triphosphate hydrolases | post-AAA+ oligomerization domain-like | 4 | 1 | |
| "Winged helix" DNA-binding domain | E2F-DP heterodimerization region | 3 | 2 | |
| beta-sandwich domain of Sec23/24 | Zn-finger domain of Sec23/24 | 3 | 3 | |
| ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | HSP90 C-terminal domain | 3 | 3 | |
| Retrovirus zinc finger-like domains | DNA/RNA polymerases | 3 | 2 | |
| CRAL/TRIO N-terminal domain | CRAL/TRIO domain | 3 | 3 | |
| P-loop containing nucleoside triphosphate hydrolases | TGS-like | 3 | 2 | |
| (Trans)glycosidases | Galactose-binding domain-like | 3 | 3 | |
| Sec63 N-terminal domain-like | E set domains | 3 | 3 | |
| Ribosomal protein S5 domain 2-like | HSP90 C-terminal domain | 3 | 3 | |
| NAD(P)-binding Rossmann-fold domains | Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain | 3 | 2 | |
| Cation efflux protein transmembrane domain-like | Cation efflux protein cytoplasmic domain-like | 3 | 2 | |
| Protein kinase-like (PK-like) | Immunoglobulin | 3 | 3 | |
| Growth factor receptor domain | Growth factor receptor domain | 3 | 3 | |
| Cysteine proteinases | Ubiquitin-like | 3 | 3 | |
| beta-sandwich domain of Sec23/24 | Helical domain of Sec23/24 | 3 | 3 | |
| P-loop containing nucleoside triphosphate hydrolases | PH domain-like | 3 | 3 | |
| CoA-dependent acyltransferases | CoA-dependent acyltransferases | 3 | 2 | |
| RING/U-box | Ubiquitin-like | 3 | 1 | |
| Spermadhesin, CUB domain | Spermadhesin, CUB domain | 3 | 3 | |
| P-loop containing nucleoside triphosphate hydrolases | Smc hinge domain | 3 | 2 | |
| Plakin repeat | Plakin repeat | 3 | 3 | |
| Lipovitellin-phosvitin complex; beta-sheet shell regions | Lipovitellin-phosvitin complex, superhelical domain | 3 | 2 | |
| F-box domain | RNI-like | 3 | 2 | |
| Actin-like ATPase domain | Heat shock protein 70kD (HSP70), C-terminal subdomain | 3 | 3 | |
| Riboflavin synthase domain-like | Ferredoxin reductase-like, C-terminal NADP-linked domain | 3 | 3 | |
| Translation proteins SH3-like domain | Nucleic acid-binding proteins | 3 | 2 | |
| P-loop containing nucleoside triphosphate hydrolases | "Winged helix" DNA-binding domain | 3 | 3 | |
| Fibronectin type III | Pectin lyase-like | 3 | 2 | |
| NAD(P)-binding Rossmann-fold domains | LDH C-terminal domain-like | 3 | 1 | |
| CRAL/TRIO domain | Supernatant protein factor (SPF), C-terminal domain | 3 | 3 | |
| ArfGap/RecO-like zinc finger | Ankyrin repeat | 3 | 3 | |
| (Trans)glycosidases | (Trans)glycosidases | 3 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Concanavalin A-like lectins/glucanases | 3 | 3 | |
| PDZ domain-like | P-loop containing nucleoside triphosphate hydrolases | 3 | 3 | |
| FAD/NAD(P)-binding domain | FAD/NAD(P)-binding domain | 3 | 3 | |
| Cysteine-rich domain | PH domain-like | 3 | 3 | |
| (Phosphotyrosine protein) phosphatases II | (Phosphotyrosine protein) phosphatases II | 3 | 3 | |
| SMAD MH1 domain | SMAD/FHA domain | 3 | 3 | |
| Cysteine-rich domain | GTPase activation domain, GAP | 3 | 2 | |
| DnaJ/Hsp40 cysteine-rich domain | HSP40/DnaJ peptide-binding domain | 3 | 3 | |
| Ubiquitin-like | PDZ domain-like | 3 | 3 | |
| C2 domain (Calcium/lipid-binding domain, CaLB) | ARM repeat | 3 | 3 | |
| Complement control module/SCR domain | Complement control module/SCR domain | 3 | 3 | |
| Zn-finger domain of Sec23/24 | vWA-like | 3 | 3 | |
| L27 domain | PDZ domain-like | 3 | 3 | |
| F-box domain | WD40 repeat-like | 3 | 3 | |
| Single hybrid motif | CoA-dependent acyltransferases | 3 | 3 | |
| Periplasmic binding protein-like I | Periplasmic binding protein-like II | 3 | 3 | |
| Ubiquitin-like | Protein kinase-like (PK-like) | 3 | 3 | |
| Retrovirus zinc finger-like domains | Retrovirus zinc finger-like domains | 3 | 3 | |
| Concanavalin A-like lectins/glucanases | EGF/Laminin | 3 | 2 | |
| DPP6 N-terminal domain-like | alpha/beta-Hydrolases | 3 | 2 | |
| Glutathione synthetase ATP-binding domain-like | Succinyl-CoA synthetase domains | 3 | 2 | |
| Invertebrate chitin-binding proteins | Invertebrate chitin-binding proteins | 3 | 3 | |
| N-terminal domain of alpha and beta subunits of F1 ATP synthase | P-loop containing nucleoside triphosphate hydrolases | 3 | 2 | |
| Thiamin diphosphate-binding fold (THDP-binding) | TK C-terminal domain-like | 3 | 2 | |
| WW domain | WW domain | 3 | 3 | |
| Cysteine-rich domain | Protein kinase-like (PK-like) | 3 | 3 | |
| NAD(P)-binding Rossmann-fold domains | Succinyl-CoA synthetase domains | 3 | 3 | |
| SH2 domain | SH2 domain | 2 | 2 | |
| vWA-like | vWA-like | 2 | 2 | |
| "Winged helix" DNA-binding domain | Sec63 N-terminal domain-like | 2 | 2 | |
| Chaperone J-domain | P-loop containing nucleoside triphosphate hydrolases | 2 | 2 | |
| ARM repeat | TPR-like | 2 | 2 | |
| FAD-binding/transporter-associated domain-like | FAD-linked oxidases, C-terminal domain | 2 | 1 | |
| S-adenosylmethionine synthetase | S-adenosylmethionine synthetase | 2 | 1 | |
| Ubiquitin-like | ARM repeat | 2 | 2 | |
| Tricorn protease domain 2 | WD40 repeat-like | 2 | 2 | |
| ENTH/VHS domain | GAT-like domain | 2 | 2 | |
| (Trans)glycosidases | Carbohydrate-binding domain | 2 | 1 | |
| Calponin-homology domain, CH-domain | EB1 dimerisation domain-like | 2 | 2 | |
| Translational machinery components | L30e-like | 2 | 2 | |
| UDP-Glycosyltransferase/glycogen phosphorylase | UDP-Glycosyltransferase/glycogen phosphorylase | 2 | 2 | |
| lambda repressor-like DNA-binding domains | Homeodomain-like | 2 | 2 | |
| vWA-like | EGF/Laminin | 2 | 2 | |
| C2 domain (Calcium/lipid-binding domain, CaLB) | GTPase activation domain, GAP | 2 | 2 | |
| Voltage-gated potassium channels | cAMP-binding domain-like | 2 | 2 | |
| Aminopeptidase/glucanase lid domain | Zn-dependent exopeptidases | 2 | 1 | |
| Helical domain of Sec23/24 | C-terminal, gelsolin-like domain of Sec23/24 | 2 | 2 | |
| Ubiquitin-like | Acid proteases | 2 | 1 | |
| Protein kinase-like (PK-like) | PH domain-like | 2 | 2 | |
| Flavoproteins | Riboflavin synthase domain-like | 2 | 2 | |
| P-loop containing nucleoside triphosphate hydrolases | Ribosomal protein S5 domain 2-like | 2 | 2 | |
| p53-like transcription factors | DNA-binding protein LAG-1 (CSL) | 2 | 1 | |
| Ribonuclease H-like | Retrovirus zinc finger-like domains | 2 | 2 | |
| Second domain of FERM | Moesin tail domain | 2 | 1 | |
| SAM/Pointed domain | SAM/Pointed domain | 2 | 1 | |
| Protease propeptides/inhibitors | Zn-dependent exopeptidases | 2 | 2 | |
| Protein kinase-like (PK-like) | RING/U-box | 2 | 2 | |
| EF-G C-terminal domain-like | Ribosomal protein S5 domain 2-like | 2 | 2 | |
| Creatinase/aminopeptidase | "Winged helix" DNA-binding domain | 2 | 2 | |
| RNA-binding domain, RBD | RING/U-box | 2 | 2 | |
| PH domain-like | FYVE/PHD zinc finger | 2 | 2 | |
| Spectrin repeat | EF-hand | 2 | 2 | |
| Aminoacid dehydrogenase-like, N-terminal domain | NAD(P)-binding Rossmann-fold domains | 2 | 2 | |
| POZ domain | POZ domain | 2 | 2 | |
| PA domain | Transferrin receptor-like dimerisation domain | 2 | 1 | |
| Bactericidal permeability-increasing protein, BPI | Bactericidal permeability-increasing protein, BPI | 2 | 2 | |
| Formate/glycerate dehydrogenase catalytic domain-like | NAD(P)-binding Rossmann-fold domains | 2 | 2 | |
| PreATP-grasp domain | Glutathione synthetase ATP-binding domain-like | 2 | 2 | |
| FnI-like domain | FnI-like domain | 2 | 2 | |
| L domain-like | PDZ domain-like | 2 | 2 | |
| P-loop containing nucleoside triphosphate hydrolases | C-terminal domain of alpha and beta subunits of F1 ATP synthase | 2 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Bromodomain | 2 | 2 | |
| Phospholipase D/nuclease | Phospholipase D/nuclease | 2 | 2 | |
| BAR/IMD domain-like | SH3-domain | 2 | 2 | |
| alpha-catenin/vinculin-like | alpha-catenin/vinculin-like | 2 | 2 | |
| PreATP-grasp domain | Rudiment single hybrid motif | 2 | 2 | |
| L domain-like | Outer arm dynein light chain 1 | 2 | 2 | |
| dsRNA-binding domain-like | Ribosomal protein S5 domain 2-like | 2 | 2 | |
| Multidrug resistance efflux transporter EmrE | Multidrug resistance efflux transporter EmrE | 2 | 2 | |
| Rap30/74 interaction domains | "Winged helix" DNA-binding domain | 2 | 2 | |
| Ribosomal L11/L12e N-terminal domain | Ribosomal protein L11, C-terminal domain | 2 | 2 | |
| N-terminal domain of alpha and beta subunits of F1 ATP synthase | C-terminal domain of alpha and beta subunits of F1 ATP synthase | 2 | 1 | |
| SAP domain | RNA-binding domain, RBD | 2 | 2 | |
| Cullin homology domain | "Winged helix" DNA-binding domain | 2 | 1 | |
| Rhodanese/Cell cycle control phosphatase | Rhodanese/Cell cycle control phosphatase | 2 | 2 | |
| NAD(P)-binding Rossmann-fold domains | Trypsin-like serine proteases | 2 | 2 | |
| PDZ domain-like | "Winged helix" DNA-binding domain | 2 | 2 | |
| Transcription factor IIA (TFIIA), alpha-helical domain | Transcription factor IIA (TFIIA), beta-barrel domain | 2 | 2 | |
| Acyl-CoA dehydrogenase C-terminal domain-like | Acyl-CoA dehydrogenase C-terminal domain-like | 2 | 2 | |
| SH3-domain | DBL homology domain (DH-domain) | 2 | 2 | |
| Integrin domains | EGF/Laminin | 2 | 2 | |
| Cullin repeat-like | Cullin homology domain | 2 | 1 | |
| beta-sandwich domain of Sec23/24 | C-terminal, gelsolin-like domain of Sec23/24 | 2 | 2 | |
| Surp module (SWAP domain) | Surp module (SWAP domain) | 2 | 2 | |
| Galactose mutarotase-like | (Trans)glycosidases | 2 | 2 | |
| RING/U-box | Cysteine proteinases | 2 | 2 | |
| Glutathione synthetase ATP-binding domain-like | Rudiment single hybrid motif | 2 | 2 | |
| Flavoproteins | Ferredoxin reductase-like, C-terminal NADP-linked domain | 2 | 2 | |
| Single hybrid motif | Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex | 2 | 2 | |
| Thiamin diphosphate-binding fold (THDP-binding) | DHS-like NAD/FAD-binding domain | 2 | 1 | |
| vWA-like | Helical domain of Sec23/24 | 2 | 2 | |
| ARM repeat | Subdomain of clathrin and coatomer appendage domain | 2 | 1 | |
| ARM repeat | Clathrin adaptor appendage domain | 2 | 1 | |
| Thiamin pyrophosphokinase, catalytic domain | Thiamin pyrophosphokinase, substrate-binding domain | 2 | 1 | |
| Voltage-gated potassium channels | Small-conductance potassium channel | 2 | 2 | |
| PIN domain-like | 5' to 3' exonuclease, C-terminal subdomain | 2 | 2 | |
| Clc chloride channel | CBS-domain pair | 2 | 2 | |
| SH3-domain | Protein kinase-like (PK-like) | 2 | 2 | |
| ValRS/IleRS/LeuRS editing domain | Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 2 | 2 | |
| ACP-like | NAD(P)-binding Rossmann-fold domains | 2 | 2 | |
| DNA-binding protein LAG-1 (CSL) | E set domains | 2 | 1 | |
| Galactose mutarotase-like | Glycosyl hydrolase domain | 2 | 2 | |
| Nucleic acid-binding proteins | Eukaryotic type KH-domain (KH-domain type I) | 2 | 2 | |
| Ran binding protein zinc finger-like | Ran binding protein zinc finger-like | 2 | 2 | |
| Clathrin adaptor appendage domain | Subdomain of clathrin and coatomer appendage domain | 2 | 1 | |
| Zn-dependent exopeptidases | Transferrin receptor-like dimerisation domain | 2 | 1 | |
| FKBP-like | FKBP-like | 2 | 2 | |
| CRAL/TRIO N-terminal domain | Supernatant protein factor (SPF), C-terminal domain | 2 | 2 | |
| ABC transporter transmembrane region | ABC transporter transmembrane region | 2 | 2 | |
| CCCH zinc finger | RNA-binding domain, RBD | 2 | 2 | |
| ValRS/IleRS/LeuRS editing domain | Nucleotidylyl transferase | 2 | 2 | |
| PDZ domain-like | SH3-domain | 2 | 2 | |
| Translation initiation factor 2 beta, aIF2beta, N-terminal domain | Zinc-binding domain of translation initiation factor 2 beta | 2 | 2 | |
| SAM/Pointed domain | "Winged helix" DNA-binding domain | 2 | 1 | |
| TPR-like | RING/U-box | 2 | 2 | |
| Heat shock protein 70kD (HSP70), peptide-binding domain | Heat shock protein 70kD (HSP70), C-terminal subdomain | 2 | 2 | |
| Phosphoglucomutase, first 3 domains | Phosphoglucomutase, first 3 domains | 2 | 2 | |
| PH domain-like | SH2 domain | 2 | 2 | |
| SNARE fusion complex | SNARE fusion complex | 2 | 1 | |
| Actin-like ATPase domain | Heat shock protein 70kD (HSP70), peptide-binding domain | 2 | 2 | |
| Ubiquitin-like | Moesin tail domain | 2 | 1 | |
| HMG-box | HMG-box | 2 | 2 | |
| Domain of the SRP/SRP receptor G-proteins | P-loop containing nucleoside triphosphate hydrolases | 2 | 2 | |
| F1F0 ATP synthase subunit C | F1F0 ATP synthase subunit C | 2 | 2 | |
| PLC-like phosphodiesterases | C2 domain (Calcium/lipid-binding domain, CaLB) | 2 | 2 | |
| Cullin repeat-like | "Winged helix" DNA-binding domain | 2 | 1 | |
| PreATP-grasp domain | Single hybrid motif | 2 | 2 | |
| RING/U-box | WD40 repeat-like | 2 | 2 | |
| Class II aaRS and biotin synthetases | Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) | 2 | 2 | |
| Ankyrin repeat | FabD/lysophospholipase-like | 2 | 1 | |
| Translation proteins | Ribosomal protein S5 domain 2-like | 2 | 2 | |
| PH domain-like | Moesin tail domain | 2 | 1 | |
| PH domain-like | Ankyrin repeat | 2 | 2 | |
| PA domain | Zn-dependent exopeptidases | 2 | 1 | |
| DNA clamp | DNA clamp | 2 | 2 | |
| Ribonuclease H-like | Restriction endonuclease-like | 2 | 1 | |
| SNARE-like | SNARE fusion complex | 2 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Ankyrin repeat | 2 | 2 | |
| Folate-binding domain | Aminomethyltransferase beta-barrel domain | 2 | 2 | |
| Glutathione synthetase ATP-binding domain-like | Single hybrid motif | 2 | 2 | |
| Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain | Nucleotidylyl transferase | 2 | 2 | |
| Translation proteins | EF-G C-terminal domain-like | 2 | 2 | |
| MFS general substrate transporter | MFS general substrate transporter | 2 | 2 | |
| (Trans)glycosidases | Chitinase insertion domain | 2 | 1 | |
| ARID-like | ARM repeat | 2 | 2 | |
| Peripheral subunit-binding domain of 2-oxo acid dehydrogenase complex | CoA-dependent acyltransferases | 2 | 2 | |
| PH domain-like | ArfGap/RecO-like zinc finger | 2 | 2 | |
| "Winged helix" DNA-binding domain | E set domains | 2 | 2 | |
| vWA-like | SPOC domain-like | 2 | 2 | |
| P-loop containing nucleoside triphosphate hydrolases | EF-G C-terminal domain-like | 2 | 2 | |
| Chaperone J-domain | DnaJ/Hsp40 cysteine-rich domain | 2 | 2 | |
| DNA ligase/mRNA capping enzyme, catalytic domain | Nucleic acid-binding proteins | 2 | 2 | |
| Restriction endonuclease-like | DNA/RNA polymerases | 2 | 1 | |
| vWA-like | C-terminal, gelsolin-like domain of Sec23/24 | 2 | 2 | |
| Periplasmic binding protein-like I | Nucleotide cyclase | 2 | 2 | |
| Sec63 N-terminal domain-like | Sec63 N-terminal domain-like | 2 | 2 | |
| Cysteine-rich DNA binding domain, (DM domain) | Cysteine-rich DNA binding domain, (DM domain) | 2 | 2 | |
| Ubiquitin-like | C2 domain (Calcium/lipid-binding domain, CaLB) | 2 | 2 | |
| C2 domain (Calcium/lipid-binding domain, CaLB) | Cysteine-rich domain | 2 | 2 | |
| RNA-binding domain, RBD | Cyclophilin-like | 2 | 2 | |
| Ribonuclease H-like | beta-beta-alpha zinc fingers | 2 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Retrovirus zinc finger-like domains | 2 | 2 | |
| EF-G C-terminal domain-like | EF-G C-terminal domain-like | 2 | 2 | |
| Rudiment single hybrid motif | Single hybrid motif | 2 | 2 | |
| cAMP-binding domain-like | cAMP-binding domain-like | 2 | 2 | |
| Periplasmic binding protein-like I | Protein kinase-like (PK-like) | 2 | 2 | |
| NagB/RpiA/CoA transferase-like | NagB/RpiA/CoA transferase-like | 2 | 1 | |
| p53-like transcription factors | E set domains | 2 | 1 | |
| LuxS/MPP-like metallohydrolase | LuxS/MPP-like metallohydrolase | 2 | 2 | |
| P-loop containing nucleoside triphosphate hydrolases | E set domains | 2 | 2 | |
| Cysteine proteinases | Calpain large subunit, middle domain (domain III) | 2 | 2 | |
| F-box domain | Pectin lyase-like | 1 | 1 | |
| PRP4-like | Functional domain of the splicing factor Prp18 | 1 | 1 | |
| ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | Type II DNA topoisomerase | 1 | 1 | |
| RNA-binding domain, RBD | dsRNA-binding domain-like | 1 | 1 | |
| Spectrin repeat | WW domain | 1 | 1 | |
| Sema domain | MFS general substrate transporter | 1 | 1 | |
| EF-hand | RNA-binding domain, RBD | 1 | 1 | |
| UBA-like | DNase I-like | 1 | 1 | |
| Chromo domain-like | SET domain | 1 | 1 | |
| Eukaryotic RPB5 N-terminal domain | RPB5-like RNA polymerase subunit | 1 | 1 | |
| Histone-fold | PH domain-like | 1 | 1 | |
| Histone H3 K4-specific methyltransferase SET7/9 N-terminal domain | Histone H3 K4-specific methyltransferase SET7/9 N-terminal domain | 1 | 1 | |
| SH3-domain | Trypsin-like serine proteases | 1 | 1 | |
| TPR-like | Protein kinase-like (PK-like) | 1 | 1 | |
| Protein kinase-like (PK-like) | PDZ domain-like | 1 | 1 | |
| Bromodomain | Bromodomain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Metallo-dependent hydrolases | 1 | 1 | |
| Dcp2 domain-like | Nudix | 1 | 1 | |
| PH domain-like | BSD domain-like | 1 | 1 | |
| Fumarylacetoacetate hydrolase, FAH, N-terminal domain | FAH | 1 | 1 | |
| Spectrin repeat | SH3-domain | 1 | 1 | |
| FAD/NAD(P)-binding domain | 4Fe-4S ferredoxins | 1 | 1 | |
| CCCH zinc finger | Retrovirus zinc finger-like domains | 1 | 1 | |
| Cysteine proteinases | PDZ domain-like | 1 | 1 | |
| DBL homology domain (DH-domain) | Ras GEF | 1 | 1 | |
| Acyl-CoA dehydrogenase NM domain-like | Acyl-CoA dehydrogenase NM domain-like | 1 | 1 | |
| PRTase-like | PRTase-like | 1 | 1 | |
| Methylglyoxal synthase-like | Metallo-dependent hydrolases | 1 | 1 | |
| MgtE membrane domain-like | MgtE membrane domain-like | 1 | 1 | |
| Trefoil | (Trans)glycosidases | 1 | 1 | |
| MIT domain | MIT domain | 1 | 1 | |
| Glucocorticoid receptor-like (DNA-binding domain) | AN1-like Zinc finger | 1 | 1 | |
| Nqo1 middle domain-like | Nqo1C-terminal domain-like | 1 | 1 | |
| Aconitase iron-sulfur domain | LeuD/IlvD-like | 1 | 1 | |
| Ankyrin repeat | Eukaryotic type KH-domain (KH-domain type I) | 1 | 1 | |
| Galactose-binding domain-like | Galactose-binding domain-like | 1 | 1 | |
| Ribosomal L27 protein-like | Nucleic acid-binding proteins | 1 | 1 | |
| Translation proteins SH3-like domain | Translation proteins SH3-like domain | 1 | 1 | |
| RuvA domain 2-like | SH2 domain | 1 | 1 | |
| Zn-dependent exopeptidases | Carboxypeptidase regulatory domain-like | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | EF-hand | 1 | 1 | |
| Family A G protein-coupled receptor-like | CCCH zinc finger | 1 | 1 | |
| UDP-Glycosyltransferase/glycogen phosphorylase | Tubulin nucleotide-binding domain-like | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | beta-beta-alpha zinc fingers | 1 | 1 | |
| FF domain | FF domain | 1 | 1 | |
| beta-beta-alpha zinc fingers | Tetrahydrobiopterin biosynthesis enzymes-like | 1 | 1 | |
| Serine protease inhibitors | Serine protease inhibitors | 1 | 1 | |
| SH2 domain | (Phosphotyrosine protein) phosphatases II | 1 | 1 | |
| cAMP-binding domain-like | Protein kinase-like (PK-like) | 1 | 1 | |
| Ankyrin repeat | Protein kinase-like (PK-like) | 1 | 1 | |
| Tex N-terminal region-like | RuvA domain 2-like | 1 | 1 | |
| TATA-box binding protein-like | PX domain | 1 | 1 | |
| Coiled-coil domain of nucleotide exchange factor GrpE | Head domain of nucleotide exchange factor GrpE | 1 | 1 | |
| Translation initiation factor 2 beta, aIF2beta, N-terminal domain | ARM repeat | 1 | 1 | |
| Skp1 dimerisation domain-like | FtsH protease domain-like | 1 | 1 | |
| Heme-dependent peroxidases | Heme-dependent peroxidases | 1 | 1 | |
| Outer arm dynein light chain 1 | PDZ domain-like | 1 | 1 | |
| PUG domain-like | Ubiquitin-like | 1 | 1 | |
| KA1-like | NAP-like | 1 | 1 | |
| Spermadhesin, CUB domain | C-type lectin-like | 1 | 1 | |
| Thioredoxin-like | Vacuolar ATP synthase subunit C | 1 | 1 | |
| Complement control module/SCR domain | EGF/Laminin | 1 | 1 | |
| RNA-binding domain, RBD | Ran binding protein zinc finger-like | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Cysteine-rich domain | 1 | 1 | |
| Homeodomain-like | 4'-phosphopantetheinyl transferase | 1 | 1 | |
| Mitochondrial carrier | Glucocorticoid receptor-like (DNA-binding domain) | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain | 1 | 1 | |
| N-terminal, heterodimerisation domain of RBP7 (RpoE) | Nucleic acid-binding proteins | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Pepsin inhibitor-3 | 1 | 1 | |
| EF-hand | SAP domain | 1 | 1 | |
| PH domain-like | HMG-box | 1 | 1 | |
| Actin-like ATPase domain | Metalloproteases ("zincins"), catalytic domain | 1 | 1 | |
| Regulator of G-protein signaling, RGS | Ubiquitin-like | 1 | 1 | |
| ARM repeat | Tubulin C-terminal domain-like | 1 | 1 | |
| cAMP-binding domain-like | FabD/lysophospholipase-like | 1 | 1 | |
| Cyclin-like | PIN domain-like | 1 | 1 | |
| ssDNA-binding transcriptional regulator domain | BRCT domain | 1 | 1 | |
| TPR-like | Ankyrin repeat | 1 | 1 | |
| WW domain | EF-hand | 1 | 1 | |
| alpha-helical ferredoxin | Nucleotide-binding domain | 1 | 1 | |
| Arp2/3 complex subunits | Arp2/3 complex subunits | 1 | 1 | |
| Ribosomal protein L6 | Ribosomal protein L6 | 1 | 1 | |
| beta-beta-alpha zinc fingers | RNA-binding domain, RBD | 1 | 1 | |
| Calponin-homology domain, CH-domain | Cysteine-rich domain | 1 | 1 | |
| RNA-binding domain, RBD | MFPT repeat-like | 1 | 1 | |
| PAP/Archaeal CCA-adding enzyme, C-terminal domain | Isochorismatase-like hydrolases | 1 | 1 | |
| Nucleotidylyl transferase | Nucleotidylyl transferase | 1 | 1 | |
| Ribonuclease H-like | Nucleic acid-binding proteins | 1 | 1 | |
| "Winged helix" DNA-binding domain | HRDC-like | 1 | 1 | |
| Indigoidine synthase A-like | Ribokinase-like | 1 | 1 | |
| BAR/IMD domain-like | GTPase activation domain, GAP | 1 | 1 | |
| Calponin-homology domain, CH-domain | DBL homology domain (DH-domain) | 1 | 1 | |
| E set domains | Glycosyl hydrolase domain | 1 | 1 | |
| TPR-like | Clavaminate synthase-like | 1 | 1 | |
| Protein kinase-like (PK-like) | PX domain | 1 | 1 | |
| L domain-like | SH3-domain | 1 | 1 | |
| WW domain | RING/U-box | 1 | 1 | |
| Nqo1 FMN-binding domain-like | Nqo1C-terminal domain-like | 1 | 1 | |
| beta-beta-alpha zinc fingers | Cytidine deaminase-like | 1 | 1 | |
| Rudiment single hybrid motif | Aldolase | 1 | 1 | |
| L domain-like | Ribosomal proteins S24e, L23 and L15e | 1 | 1 | |
| EGF/Laminin | Immunoglobulin | 1 | 1 | |
| PH domain-like | "Winged helix" DNA-binding domain | 1 | 1 | |
| Chromo domain-like | Ankyrin repeat | 1 | 1 | |
| Ubiquitin-like | Zn-binding ribosomal proteins | 1 | 1 | |
| EGF/Laminin | Spermadhesin, CUB domain | 1 | 1 | |
| FYVE/PHD zinc finger | SAICAR synthase-like | 1 | 1 | |
| POZ domain | Galactose-binding domain-like | 1 | 1 | |
| Glutathione synthetase ATP-binding domain-like | post-HMGL domain-like | 1 | 1 | |
| DNA/RNA polymerases | SGNH hydrolase | 1 | 1 | |
| Regulator of G-protein signaling, RGS | Protein kinase-like (PK-like) | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | HRDC-like | 1 | 1 | |
| Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) | ThrRS/AlaRS common domain | 1 | 1 | |
| L domain-like | DNase I-like | 1 | 1 | |
| SH3-domain | SH3-domain | 1 | 1 | |
| Thioredoxin-like | Six-hairpin glycosidases | 1 | 1 | |
| Pre-PUA domain | PUA domain-like | 1 | 1 | |
| ISP domain | FAD/NAD(P)-binding domain | 1 | 1 | |
| Chaperone J-domain | Formin homology 2 domain (FH2 domain) | 1 | 1 | |
| FAD/NAD(P)-binding domain | Aminomethyltransferase beta-barrel domain | 1 | 1 | |
| PP2C-like | PP2C-like | 1 | 1 | |
| Kelch motif | Galactose oxidase, central domain | 1 | 1 | |
| Eukaryotic type KH-domain (KH-domain type I) | Retrovirus zinc finger-like domains | 1 | 1 | |
| UDP-Glycosyltransferase/glycogen phosphorylase | Tubulin C-terminal domain-like | 1 | 1 | |
| Actin-like ATPase domain | Spermadhesin, CUB domain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Ribonuclease H-like | 1 | 1 | |
| Thioesterase/thiol ester dehydrase-isomerase | Thioesterase/thiol ester dehydrase-isomerase | 1 | 1 | |
| PDZ domain-like | C2 domain (Calcium/lipid-binding domain, CaLB) | 1 | 1 | |
| Zn-finger domain of Sec23/24 | C-terminal, gelsolin-like domain of Sec23/24 | 1 | 1 | |
| Family A G protein-coupled receptor-like | FAD/NAD(P)-binding domain | 1 | 1 | |
| UBC-like | Endosomal sorting complex assembly domain | 1 | 1 | |
| LEM domain | RNA-binding domain, RBD | 1 | 1 | |
| Lissencephaly-1 protein (Lis-1, PAF-AH alpha) N-terminal domain | WD40 repeat-like | 1 | 1 | |
| ARID-like | FYVE/PHD zinc finger | 1 | 1 | |
| Tex N-terminal region-like | Nucleic acid-binding proteins | 1 | 1 | |
| Ubiquitin-like | Cap-Gly domain | 1 | 1 | |
| Immunoglobulin | (Phosphotyrosine protein) phosphatases II | 1 | 1 | |
| Acetyl-CoA synthetase-like | NagB/RpiA/CoA transferase-like | 1 | 1 | |
| RNA-binding domain, RBD | SET domain | 1 | 1 | |
| Trefoil | Glycosyl hydrolase domain | 1 | 1 | |
| beta-beta-alpha zinc fingers | GIY-YIG endonuclease | 1 | 1 | |
| Trefoil | Galactose mutarotase-like | 1 | 1 | |
| BEACH domain | WD40 repeat-like | 1 | 1 | |
| Sema domain | Immunoglobulin | 1 | 1 | |
| CRAL/TRIO domain | GTPase activation domain, GAP | 1 | 1 | |
| Glutathione synthetase ATP-binding domain-like | Thioredoxin-like | 1 | 1 | |
| L domain-like | Protein kinase-like (PK-like) | 1 | 1 | |
| Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 | Folate-binding domain | 1 | 1 | |
| Leukotriene A4 hydrolase N-terminal domain | ARM repeat | 1 | 1 | |
| WW domain | Hect, E3 ligase catalytic domain | 1 | 1 | |
| Ankyrin repeat | SAM/Pointed domain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 | 1 | 1 | |
| PH domain-like | Ypt/Rab-GAP domain of gyp1p | 1 | 1 | |
| Hermes dimerisation domain | Ribonuclease H-like | 1 | 1 | |
| Immunoglobulin | Concanavalin A-like lectins/glucanases | 1 | 1 | |
| Bet v1-like | NAD(P)-binding Rossmann-fold domains | 1 | 1 | |
| Aldolase | post-HMGL domain-like | 1 | 1 | |
| POZ domain | Homeodomain-like | 1 | 1 | |
| RNA-binding domain, RBD | NAD kinase/diacylglycerol kinase-like | 1 | 1 | |
| Ribonuclease H-like | GTPase activation domain, GAP | 1 | 1 | |
| EGF/Laminin | NAD(P)-binding Rossmann-fold domains | 1 | 1 | |
| RNA-binding domain, RBD | SPOC domain-like | 1 | 1 | |
| Ribosomal L27 protein-like | Eukaryotic type KH-domain (KH-domain type I) | 1 | 1 | |
| DNA/RNA polymerases | Plexin repeat | 1 | 1 | |
| Glu-tRNAGln amidotransferase C subunit | TAFH domain-like | 1 | 1 | |
| Cap-Gly domain | L domain-like | 1 | 1 | |
| HMA, heavy metal-associated domain | Metal cation-transporting ATPase, ATP-binding domain N | 1 | 1 | |
| 4'-phosphopantetheinyl transferase | 4'-phosphopantetheinyl transferase | 1 | 1 | |
| FYVE/PHD zinc finger | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| EGF/Laminin | YWTD domain | 1 | 1 | |
| Thioredoxin-like | Galactose-binding domain-like | 1 | 1 | |
| BRCT domain | BRCT domain | 1 | 1 | |
| FMN-linked oxidoreductases | 4Fe-4S ferredoxins | 1 | 1 | |
| Nucleotide-diphospho-sugar transferases | Nucleotide-diphospho-sugar transferases | 1 | 1 | |
| NAD(P)-binding Rossmann-fold domains | Citrate synthase | 1 | 1 | |
| Acetyl-CoA synthetase-like | NAD(P)-binding Rossmann-fold domains | 1 | 1 | |
| Class II aaRS and biotin synthetases | C-terminal domain of ProRS | 1 | 1 | |
| Protein kinase-like (PK-like) | Chaperone J-domain | 1 | 1 | |
| Starch-binding domain-like | Cna protein B-type domain | 1 | 1 | |
| DBL homology domain (DH-domain) | FYVE/PHD zinc finger | 1 | 1 | |
| RING/U-box | UBA-like | 1 | 1 | |
| beta-Galactosidase/glucuronidase domain | (Trans)glycosidases | 1 | 1 | |
| 2Fe-2S ferredoxin-like | alpha-helical ferredoxin | 1 | 1 | |
| RNA-binding domain, RBD | PABC (PABP) domain | 1 | 1 | |
| FYVE/PHD zinc finger | Bromodomain | 1 | 1 | |
| Zinc beta-ribbon | Zinc beta-ribbon | 1 | 1 | |
| Second domain of FERM | PDZ domain-like | 1 | 1 | |
| Zinc beta-ribbon | Cyclin-like | 1 | 1 | |
| Obg GTP-binding protein N-terminal domain | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| Calponin-homology domain, CH-domain | Spectrin repeat | 1 | 1 | |
| Heat shock protein 70kD (HSP70), C-terminal subdomain | Nicotinic receptor ligand binding domain-like | 1 | 1 | |
| F-box domain | PAZ domain | 1 | 1 | |
| Apolipoprotein | Carbonic anhydrase | 1 | 1 | |
| FAD/NAD(P)-binding domain | Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain | 1 | 1 | |
| SAM/Pointed domain | PH domain-like | 1 | 1 | |
| vWA-like | Integrin beta tail domain | 1 | 1 | |
| C2 domain (Calcium/lipid-binding domain, CaLB) | vWA-like | 1 | 1 | |
| Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 | Elongation factor TFIIS domain 2 | 1 | 1 | |
| STAT | p53-like transcription factors | 1 | 1 | |
| HMA, heavy metal-associated domain | HAD-like | 1 | 1 | |
| Nucleotidylyl transferase | Ribosomal protein L25-like | 1 | 1 | |
| Integrin domains | Integrin domains | 1 | 1 | |
| GTPase activation domain, GAP | SH3-domain | 1 | 1 | |
| PDZ domain-like | BAR/IMD domain-like | 1 | 1 | |
| Enolase N-terminal domain-like | Enolase C-terminal domain-like | 1 | 1 | |
| Acetyl-CoA synthetase-like | SH2 domain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | CYTH-like phosphatases | 1 | 1 | |
| FMN-linked oxidoreductases | dsRNA-binding domain-like | 1 | 1 | |
| MAST3 pre-PK domain-like | Protein kinase-like (PK-like) | 1 | 1 | |
| ClpP/crotonase | ClpP/crotonase | 1 | 1 | |
| Actin-like ATPase domain | Neurotransmitter-gated ion-channel transmembrane pore | 1 | 1 | |
| Fibronectin type III | (Phosphotyrosine protein) phosphatases II | 1 | 1 | |
| POZ domain | Galactose oxidase, central domain | 1 | 1 | |
| Succinyl-CoA synthetase domains | Citrate synthase | 1 | 1 | |
| WW domain | Kelch motif | 1 | 1 | |
| RNA-binding domain, RBD | RNI-like | 1 | 1 | |
| SNARE-like | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| Histone-fold | DBL homology domain (DH-domain) | 1 | 1 | |
| Amyloid beta a4 protein copper binding domain (domain 2) | CAPPD, an extracellular domain of amyloid beta A4 protein | 1 | 1 | |
| Multiheme cytochromes | Multiheme cytochromes | 1 | 1 | |
| ENTH/VHS domain | RNA-binding domain, RBD | 1 | 1 | |
| Eukaryotic type KH-domain (KH-domain type I) | Tudor/PWWP/MBT | 1 | 1 | |
| Translation proteins | ThrRS/AlaRS common domain | 1 | 1 | |
| N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 | L30e-like | 1 | 1 | |
| Creatinase/prolidase N-terminal domain | Creatinase/aminopeptidase | 1 | 1 | |
| PLP-binding barrel | Alanine racemase C-terminal domain-like | 1 | 1 | |
| PH domain-like | Cullin repeat-like | 1 | 1 | |
| SNARE-like | Domain of the SRP/SRP receptor G-proteins | 1 | 1 | |
| Chromo domain-like | Acyl-CoA N-acyltransferases (Nat) | 1 | 1 | |
| RING/U-box | Cyclophilin-like | 1 | 1 | |
| WW domain | FF domain | 1 | 1 | |
| SAP domain | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| Tudor/PWWP/MBT | Tudor/PWWP/MBT | 1 | 1 | |
| Protein kinase-like (PK-like) | Fibronectin type III | 1 | 1 | |
| Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) | Translation proteins | 1 | 1 | |
| RUN domain-like | PH domain-like | 1 | 1 | |
| RuvA domain 2-like | RuvA domain 2-like | 1 | 1 | |
| Nucleotide-binding domain | Nucleotide-binding domain | 1 | 1 | |
| Integrin domains | Integrin beta tail domain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | PUA domain-like | 1 | 1 | |
| Intermediate filament protein, coiled coil region | Intermediate filament protein, coiled coil region | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Signal peptide-binding domain | 1 | 1 | |
| PAH2 domain | PAH2 domain | 1 | 1 | |
| Mitochondrial carrier | Mitochondrial carrier | 1 | 1 | |
| Class II aaRS and biotin synthetases | Anticodon-binding domain of PheRS | 1 | 1 | |
| 6-phosphogluconate dehydrogenase C-terminal domain-like | 6-phosphogluconate dehydrogenase C-terminal domain-like | 1 | 1 | |
| Nucleotidylyl transferase | Alpha-L RNA-binding motif | 1 | 1 | |
| Calponin-homology domain, CH-domain | E set domains | 1 | 1 | |
| RING/U-box | FYVE/PHD zinc finger | 1 | 1 | |
| Growth factor receptor domain | Protein kinase-like (PK-like) | 1 | 1 | |
| RING/U-box | Thiamin diphosphate-binding fold (THDP-binding) | 1 | 1 | |
| Ypt/Rab-GAP domain of gyp1p | Rhodanese/Cell cycle control phosphatase | 1 | 1 | |
| NTF2-like | UBA-like | 1 | 1 | |
| TGS-like | Composite domain of metallo-dependent hydrolases | 1 | 1 | |
| lambda repressor-like DNA-binding domains | Cyanase C-terminal domain | 1 | 1 | |
| Ribosomal proteins L15p and L18e | Surp module (SWAP domain) | 1 | 1 | |
| N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 | Translational machinery components | 1 | 1 | |
| Domain of the SRP/SRP receptor G-proteins | Signal peptide-binding domain | 1 | 1 | |
| Doublecortin (DC) | Lipase/lipooxygenase domain (PLAT/LH2 domain) | 1 | 1 | |
| Galactose-binding domain-like | beta-Galactosidase/glucuronidase domain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Prokaryotic type KH domain (KH-domain type II) | 1 | 1 | |
| Ribonuclease H-like | SGNH hydrolase | 1 | 1 | |
| post-HMGL domain-like | Single hybrid motif | 1 | 1 | |
| Composite domain of metallo-dependent hydrolases | Aspartate/ornithine carbamoyltransferase | 1 | 1 | |
| Elongation factor TFIIS domain 2 | FAD/NAD(P)-binding domain | 1 | 1 | |
| N-terminal nucleophile aminohydrolases (Ntn hydrolases) | Adenine nucleotide alpha hydrolases-like | 1 | 1 | |
| Ribosomal protein S5 domain 2-like | Nucleic acid-binding proteins | 1 | 1 | |
| CBS-domain pair | CBS-domain pair | 1 | 1 | |
| TPR-like | Metallo-dependent phosphatases | 1 | 1 | |
| Phosphoenolpyruvate/pyruvate domain | PK C-terminal domain-like | 1 | 1 | |
| TSP-1 type 1 repeat | BPTI-like | 1 | 1 | |
| Adenine nucleotide alpha hydrolases-like | GMP synthetase C-terminal dimerisation domain | 1 | 1 | |
| C2 domain (Calcium/lipid-binding domain, CaLB) | Hect, E3 ligase catalytic domain | 1 | 1 | |
| BAR/IMD domain-like | PH domain-like | 1 | 1 | |
| Polo-box domain | Polo-box domain | 1 | 1 | |
| HAD-like | BRCT domain | 1 | 1 | |
| RING/U-box | TRAF domain-like | 1 | 1 | |
| Plexin repeat | MFS general substrate transporter | 1 | 1 | |
| SAICAR synthase-like | SAICAR synthase-like | 1 | 1 | |
| RNA-binding domain, RBD | Ypt/Rab-GAP domain of gyp1p | 1 | 1 | |
| CAD & PB1 domains | PDZ domain-like | 1 | 1 | |
| Growth factor receptor domain | SEA domain | 1 | 1 | |
| ARM repeat | PX domain | 1 | 1 | |
| Thioredoxin-like | Cysteine proteinases | 1 | 1 | |
| L domain-like | UBA-like | 1 | 1 | |
| HMA, heavy metal-associated domain | HMA, heavy metal-associated domain | 1 | 1 | |
| E set domains | GTPase activation domain, GAP | 1 | 1 | |
| Lipase/lipooxygenase domain (PLAT/LH2 domain) | Lipase/lipooxygenase domain (PLAT/LH2 domain) | 1 | 1 | |
| Glucocorticoid receptor-like (DNA-binding domain) | Homeodomain-like | 1 | 1 | |
| ARID-like | Chromo domain-like | 1 | 1 | |
| FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) | Protein kinase-like (PK-like) | 1 | 1 | |
| TGS-like | Metallo-dependent hydrolases | 1 | 1 | |
| PHM/PNGase F | PHM/PNGase F | 1 | 1 | |
| RNA-binding domain, RBD | RNase III domain-like | 1 | 1 | |
| HCP-like | HCP-like | 1 | 1 | |
| Intermediate filament protein, coiled coil region | Lamin A/C globular tail domain | 1 | 1 | |
| Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase | Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase | 1 | 1 | |
| Dimeric alpha+beta barrel | Dimeric alpha+beta barrel | 1 | 1 | |
| Cysteine-rich domain | NAD kinase/diacylglycerol kinase-like | 1 | 1 | |
| Doublecortin (DC) | Doublecortin (DC) | 1 | 1 | |
| Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment | Eukaryotic DNA topoisomerase I, dispensable insert domain | 1 | 1 | |
| L9 N-domain-like | Ribonuclease H-like | 1 | 1 | |
| DNA repair protein MutS, domain I | DNA repair protein MutS, domain II | 1 | 1 | |
| ARID-like | Clavaminate synthase-like | 1 | 1 | |
| ARM repeat | FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) | 1 | 1 | |
| Eukaryotic type KH-domain (KH-domain type I) | LigT-like | 1 | 1 | |
| Sema domain | Plexin repeat | 1 | 1 | |
| Ribosomal protein S5 domain 2-like | GHMP Kinase, C-terminal domain | 1 | 1 | |
| DNA repair protein MutS, domain II | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | DNA/RNA polymerases | 1 | 1 | |
| Actin-like ATPase domain | Nicotinic receptor ligand binding domain-like | 1 | 1 | |
| Nucleic acid-binding proteins | "Winged helix" DNA-binding domain | 1 | 1 | |
| PX domain | BAR/IMD domain-like | 1 | 1 | |
| Protease propeptides/inhibitors | Subtilisin-like | 1 | 1 | |
| vWA-like | Cysteine-rich domain | 1 | 1 | |
| Starch-binding domain-like | PLC-like phosphodiesterases | 1 | 1 | |
| TPR-like | Nicotinic receptor ligand binding domain-like | 1 | 1 | |
| Myosin rod fragments | Myosin rod fragments | 1 | 1 | |
| BSD domain-like | BSD domain-like | 1 | 1 | |
| Immunoglobulin | Heme-dependent peroxidases | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Myosin rod fragments | 1 | 1 | |
| POZ domain | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| HMG-box | SET domain | 1 | 1 | |
| FYVE/PHD zinc finger | SET domain | 1 | 1 | |
| SEA domain | LDL receptor-like module | 1 | 1 | |
| alpha/beta-Hydrolases | Metalloproteases ("zincins"), catalytic domain | 1 | 1 | |
| EGF/Laminin | SEA domain | 1 | 1 | |
| Acyl-CoA N-acyltransferases (Nat) | Bromodomain | 1 | 1 | |
| EGF/Laminin | TIMP-like | 1 | 1 | |
| FYVE/PHD zinc finger | HMG-box | 1 | 1 | |
| Zn-dependent exopeptidases | Bacterial exopeptidase dimerisation domain | 1 | 1 | |
| Putative DNA-binding domain | Putative DNA-binding domain | 1 | 1 | |
| ENTH/VHS domain | I/LWEQ domain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | FtsH protease domain-like | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | BPTI-like | 1 | 1 | |
| NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | 1 | 1 | |
| Fibronectin type III | Concanavalin A-like lectins/glucanases | 1 | 1 | |
| Ankyrin repeat | RNA-binding domain, RBD | 1 | 1 | |
| Spectrin repeat | RING/U-box | 1 | 1 | |
| Metallo-dependent hydrolases | Aspartate/ornithine carbamoyltransferase | 1 | 1 | |
| Integrin alpha N-terminal domain | Integrin domains | 1 | 1 | |
| Acid proteases | Plexin repeat | 1 | 1 | |
| Ras GEF | Ubiquitin-like | 1 | 1 | |
| ARM repeat | "Winged helix" DNA-binding domain | 1 | 1 | |
| Chaperone J-domain | E set domains | 1 | 1 | |
| Prokaryotic type KH domain (KH-domain type II) | Ribosomal protein S3 C-terminal domain | 1 | 1 | |
| FYVE/PHD zinc finger | GroEL apical domain-like | 1 | 1 | |
| L27 domain | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| dsRNA-binding domain-like | dsRNA-binding domain-like | 1 | 1 | |
| C2 domain (Calcium/lipid-binding domain, CaLB) | WW domain | 1 | 1 | |
| Heat shock protein 70kD (HSP70), peptide-binding domain | Heat shock protein 70kD (HSP70), peptide-binding domain | 1 | 1 | |
| Metalloproteases ("zincins"), catalytic domain | TSP-1 type 1 repeat | 1 | 1 | |
| Activating enzymes of the ubiquitin-like proteins | Activating enzymes of the ubiquitin-like proteins | 1 | 1 | |
| Phosphofructokinase | Phosphofructokinase | 1 | 1 | |
| Acyl-CoA binding protein | ClpP/crotonase | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Class I glutamine amidotransferase-like | 1 | 1 | |
| SH2 domain | Cysteine-rich domain | 1 | 1 | |
| Putative DNA-binding domain | SAND domain-like | 1 | 1 | |
| Zn-finger domain of Sec23/24 | Helical domain of Sec23/24 | 1 | 1 | |
| Chaperone J-domain | Thioredoxin-like | 1 | 1 | |
| Pseudouridine synthase | PUA domain-like | 1 | 1 | |
| Calponin-homology domain, CH-domain | Plakin repeat | 1 | 1 | |
| Glutathione synthetase ATP-binding domain-like | Citrate synthase | 1 | 1 | |
| Carbon-nitrogen hydrolase | Adenine nucleotide alpha hydrolases-like | 1 | 1 | |
| FYVE/PHD zinc finger | Clavaminate synthase-like | 1 | 1 | |
| Nucleic acid-binding proteins | SH2 domain | 1 | 1 | |
| Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| Ribosomal protein L7/12, oligomerisation (N-terminal) domain | ClpS-like | 1 | 1 | |
| Elongation factor TFIIS domain 2 | Folate-binding domain | 1 | 1 | |
| (Trans)glycosidases | Nicotinic receptor ligand binding domain-like | 1 | 1 | |
| TrpR-like | Homeodomain-like | 1 | 1 | |
| Clavaminate synthase-like | RCC1/BLIP-II | 1 | 1 | |
| Plexin repeat | GTPase activation domain, GAP | 1 | 1 | |
| Metalloproteases ("zincins"), catalytic domain | ARM repeat | 1 | 1 | |
| PYP-like sensor domain (PAS domain) | HD-domain/PDEase-like | 1 | 1 | |
| Glucocorticoid receptor-like (DNA-binding domain) | SH3-domain | 1 | 1 | |
| L domain-like | L domain-like | 1 | 1 | |
| Chondroitin AC/alginate lyase | Concanavalin A-like lectins/glucanases | 1 | 1 | |
| Acyl-CoA N-acyltransferases (Nat) | Acyl-CoA N-acyltransferases (Nat) | 1 | 1 | |
| SH3-domain | EF-hand | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | ClpP/crotonase | 1 | 1 | |
| Class I glutamine amidotransferase-like | GMP synthetase C-terminal dimerisation domain | 1 | 1 | |
| DNA breaking-rejoining enzymes | Eukaryotic DNA topoisomerase I, dispensable insert domain | 1 | 1 | |
| Nqo1 FMN-binding domain-like | Nqo1 middle domain-like | 1 | 1 | |
| Glycoside hydrolase/deacetylase | Families 57/38 glycoside transferase middle domain | 1 | 1 | |
| Glucocorticoid receptor-like (DNA-binding domain) | VPS9 domain | 1 | 1 | |
| Complement control module/SCR domain | Fibronectin type III | 1 | 1 | |
| Skp1 dimerisation domain-like | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| Ribonuclease PH domain 2-like | Nucleic acid-binding proteins | 1 | 1 | |
| Metalloproteases ("zincins"), catalytic domain | Blood coagulation inhibitor (disintegrin) | 1 | 1 | |
| WD40 repeat-like | FYVE/PHD zinc finger | 1 | 1 | |
| Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 | FAD/NAD(P)-binding domain | 1 | 1 | |
| tRNA-binding arm | Class II aaRS and biotin synthetases | 1 | 1 | |
| GST C-terminal domain-like | eEF-1beta-like | 1 | 1 | |
| L domain-like | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| EF-hand | Mitochondrial carrier | 1 | 1 | |
| RNA-binding domain, RBD | PWI domain | 1 | 1 | |
| TIMP-like | TIMP-like | 1 | 1 | |
| Complement control module/SCR domain | Thioredoxin-like | 1 | 1 | |
| PLP-dependent transferases | PLP-dependent transferases | 1 | 1 | |
| Ubiquitin-like | Ubiquitin-like | 1 | 1 | |
| Complement control module/SCR domain | Chaperone J-domain | 1 | 1 | |
| Cysteine-rich domain | RNA-binding domain, RBD | 1 | 1 | |
| E set domains | Alpha-macroglobulin receptor domain | 1 | 1 | |
| BRK domain-like | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| FAD/NAD(P)-binding domain | Folate-binding domain | 1 | 1 | |
| Cysteine proteinases | Cysteine proteinases | 1 | 1 | |
| PK beta-barrel domain-like | Phosphoenolpyruvate/pyruvate domain | 1 | 1 | |
| HMA, heavy metal-associated domain | Calcium ATPase, transmembrane domain M | 1 | 1 | |
| Putative DNA-binding domain | PheT/TilS domain | 1 | 1 | |
| p53-like transcription factors | SH2 domain | 1 | 1 | |
| C2 domain (Calcium/lipid-binding domain, CaLB) | UBA-like | 1 | 1 | |
| LDL receptor-like module | EGF/Laminin | 1 | 1 | |
| ClpP/crotonase | 6-phosphogluconate dehydrogenase C-terminal domain-like | 1 | 1 | |
| DNA/RNA polymerases | E set domains | 1 | 1 | |
| Phosphoglucomutase, first 3 domains | Phosphoglucomutase, C-terminal domain | 1 | 1 | |
| DNA/RNA polymerases | GTPase activation domain, GAP | 1 | 1 | |
| EF-hand | C2 domain (Calcium/lipid-binding domain, CaLB) | 1 | 1 | |
| FabD/lysophospholipase-like | ACP-like | 1 | 1 | |
| GMP synthetase C-terminal dimerisation domain | GMP synthetase C-terminal dimerisation domain | 1 | 1 | |
| Mitochondrial carrier | VPS9 domain | 1 | 1 | |
| Band 7/SPFH domain | SCP-like | 1 | 1 | |
| Chaperone J-domain | Sec63 N-terminal domain-like | 1 | 1 | |
| Acid proteases | E set domains | 1 | 1 | |
| Endosomal sorting complex assembly domain | VPS28 C-terminal domain-like | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Composite domain of metallo-dependent hydrolases | 1 | 1 | |
| Chromo domain-like | Spectrin repeat | 1 | 1 | |
| STAT | SH2 domain | 1 | 1 | |
| RNA-binding domain, RBD | F-box domain | 1 | 1 | |
| (Phosphotyrosine protein) phosphatases II | DNA ligase/mRNA capping enzyme, catalytic domain | 1 | 1 | |
| PH domain-like | PLC-like phosphodiesterases | 1 | 1 | |
| RNA-binding domain, RBD | DPP6 N-terminal domain-like | 1 | 1 | |
| ACT-like | Aromatic aminoacid monoxygenases, catalytic and oligomerization domains | 1 | 1 | |
| Nucleotidyltransferase | PAP/Archaeal CCA-adding enzyme, C-terminal domain | 1 | 1 | |
| (Phosphotyrosine protein) phosphatases II | Nucleic acid-binding proteins | 1 | 1 | |
| ATP-dependent DNA ligase DNA-binding domain | DNA ligase/mRNA capping enzyme, catalytic domain | 1 | 1 | |
| E set domains | AMPKBI-like | 1 | 1 | |
| DEATH domain | Protein kinase-like (PK-like) | 1 | 1 | |
| Plexin repeat | E set domains | 1 | 1 | |
| Tubby C-terminal domain-like | Osmotin, thaumatin-like protein | 1 | 1 | |
| DNA-glycosylase | Leucine zipper domain | 1 | 1 | |
| WD40 repeat-like | Quinoprotein alcohol dehydrogenase-like | 1 | 1 | |
| Actin depolymerizing proteins | Actin depolymerizing proteins | 1 | 1 | |
| beta-lactamase/transpeptidase-like | Ankyrin repeat | 1 | 1 | |
| Carbamate kinase-like | ALDH-like | 1 | 1 | |
| Ubiquitin-like | "Winged helix" DNA-binding domain | 1 | 1 | |
| Metallo-dependent phosphatases | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| TPR-like | RNA-binding domain, RBD | 1 | 1 | |
| Chaperone J-domain | Homeodomain-like | 1 | 1 | |
| Heat shock protein 70kD (HSP70), peptide-binding domain | Neurotransmitter-gated ion-channel transmembrane pore | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | ArfGap/RecO-like zinc finger | 1 | 1 | |
| CAD & PB1 domains | Protein kinase-like (PK-like) | 1 | 1 | |
| RING/U-box | Ankyrin repeat | 1 | 1 | |
| Glutathione synthetase ATP-binding domain-like | NAD(P)-binding Rossmann-fold domains | 1 | 1 | |
| WD40 repeat-like | TPR-like | 1 | 1 | |
| LDL receptor-like module | YWTD domain | 1 | 1 | |
| MIT domain | Calpain large subunit, middle domain (domain III) | 1 | 1 | |
| PX domain | C2 domain (Calcium/lipid-binding domain, CaLB) | 1 | 1 | |
| Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain | Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 1 | 1 | |
| TPR-like | FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) | 1 | 1 | |
| ARM repeat | WD40 repeat-like | 1 | 1 | |
| Rad51 N-terminal domain-like | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| Nucleotidyltransferase | Poly A polymerase C-terminal region-like | 1 | 1 | |
| TSP-1 type 1 repeat | Immunoglobulin | 1 | 1 | |
| PH domain-like | Ras GEF | 1 | 1 | |
| Glucocorticoid receptor-like (DNA-binding domain) | Putative DNA-binding domain | 1 | 1 | |
| (Trans)glycosidases | Six-hairpin glycosidases | 1 | 1 | |
| Alpha subunit of glutamate synthase, C-terminal domain | Nucleotide-binding domain | 1 | 1 | |
| EF-hand | FAD-linked oxidoreductase | 1 | 1 | |
| Ribosomal protein S5 domain 2-like | Eukaryotic type KH-domain (KH-domain type I) | 1 | 1 | |
| Ankyrin repeat | Hect, E3 ligase catalytic domain | 1 | 1 | |
| PH domain-like | Formin homology 2 domain (FH2 domain) | 1 | 1 | |
| RuvA domain 2-like | Nucleic acid-binding proteins | 1 | 1 | |
| S-adenosyl-L-methionine-dependent methyltransferases | Ubiquitin-like | 1 | 1 | |
| FYVE/PHD zinc finger | B-box zinc-binding domain | 1 | 1 | |
| MAST3 pre-PK domain-like | PDZ domain-like | 1 | 1 | |
| Nucleic acid-binding proteins | Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain | 1 | 1 | |
| R1 subunit of ribonucleotide reductase, N-terminal domain | PFL-like glycyl radical enzymes | 1 | 1 | |
| Rudiment single hybrid motif | post-HMGL domain-like | 1 | 1 | |
| ClpP/crotonase | NAD(P)-binding Rossmann-fold domains | 1 | 1 | |
| EGF/Laminin | Fibronectin type III | 1 | 1 | |
| Ribonuclease H-like | Plexin repeat | 1 | 1 | |
| Zinc-binding domain of translation initiation factor 2 beta | ARM repeat | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Initiation factor IF2/eIF5b, domain 3 | 1 | 1 | |
| ISP transmembrane anchor | ISP domain | 1 | 1 | |
| Acetyl-CoA synthetase-like | ACP-like | 1 | 1 | |
| EF-hand | PLC-like phosphodiesterases | 1 | 1 | |
| PK beta-barrel domain-like | PK C-terminal domain-like | 1 | 1 | |
| DNA repair protein MutS, domain I | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| Immunoglobulin | Kringle-like | 1 | 1 | |
| Elongation factor TFIIS domain 2 | Aminomethyltransferase beta-barrel domain | 1 | 1 | |
| Hypothetical protein SAV1430 | Fe-S cluster assembly (FSCA) domain-like | 1 | 1 | |
| Class I glutamine amidotransferase-like | Adenine nucleotide alpha hydrolases-like | 1 | 1 | |
| Protein kinase-like (PK-like) | RCC1/BLIP-II | 1 | 1 | |
| Voltage-gated potassium channels | NAD(P)-binding Rossmann-fold domains | 1 | 1 | |
| Class II aaRS and biotin synthetases | ThrRS/AlaRS common domain | 1 | 1 | |
| Cytochrome c | Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor | 1 | 1 | |
| Galactose-binding domain-like | Concanavalin A-like lectins/glucanases | 1 | 1 | |
| Roadblock/LC7 domain | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| Protein kinase-like (PK-like) | SAM/Pointed domain | 1 | 1 | |
| Cytochrome c oxidase subunit h | ARM repeat | 1 | 1 | |
| Cadherin-like | Concanavalin A-like lectins/glucanases | 1 | 1 | |
| Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment | DNA breaking-rejoining enzymes | 1 | 1 | |
| FYVE/PHD zinc finger | PIN domain-like | 1 | 1 | |
| Class II aaRS ABD-related | C-terminal domain of ProRS | 1 | 1 | |
| SH2 domain | GTPase activation domain, GAP | 1 | 1 | |
| Family A G protein-coupled receptor-like | FAD-linked reductases, C-terminal domain | 1 | 1 | |
| GroEL apical domain-like | SAICAR synthase-like | 1 | 1 | |
| Chaperone J-domain | ARM repeat | 1 | 1 | |
| Histone-fold | Ras GEF | 1 | 1 | |
| CAD & PB1 domains | Cysteine-rich domain | 1 | 1 | |
| Galactose oxidase, central domain | Galactose oxidase, central domain | 1 | 1 | |
| alpha-ketoacid dehydrogenase kinase, N-terminal domain | ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | 1 | 1 | |
| Annexin | Annexin | 1 | 1 | |
| Ubiquitin-like | PX domain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Acyl-CoA binding protein | 1 | 1 | |
| Complement control module/SCR domain | Immunoglobulin | 1 | 1 | |
| Methylglyoxal synthase-like | Aspartate/ornithine carbamoyltransferase | 1 | 1 | |
| RNase III domain-like | RNase III domain-like | 1 | 1 | |
| 4Fe-4S ferredoxins | Formate dehydrogenase/DMSO reductase, domains 1-3 | 1 | 1 | |
| Protease propeptides/inhibitors | Galactose-binding domain-like | 1 | 1 | |
| PH domain-like | EF-hand | 1 | 1 | |
| Retrovirus zinc finger-like domains | FYVE/PHD zinc finger | 1 | 1 | |
| FYVE/PHD zinc finger | Chromo domain-like | 1 | 1 | |
| Macro domain-like | RING/U-box | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Nucleotidylyl transferase | 1 | 1 | |
| 2,3-Bisphosphoglycerate-independent phosphoglycerate mutase, substrate-binding domain | Alkaline phosphatase-like | 1 | 1 | |
| TROVE domain-like | vWA-like | 1 | 1 | |
| MIT domain | Cysteine proteinases | 1 | 1 | |
| HR1 repeat | C2 domain (Calcium/lipid-binding domain, CaLB) | 1 | 1 | |
| Cyclin-like | WD40 repeat-like | 1 | 1 | |
| A heparin-binding domain | CAPPD, an extracellular domain of amyloid beta A4 protein | 1 | 1 | |
| Hect, E3 ligase catalytic domain | Nqo1 FMN-binding domain-like | 1 | 1 | |
| SAP domain | Concanavalin A-like lectins/glucanases | 1 | 1 | |
| Actin depolymerizing proteins | SH3-domain | 1 | 1 | |
| Heat shock protein 70kD (HSP70), C-terminal subdomain | Neurotransmitter-gated ion-channel transmembrane pore | 1 | 1 | |
| Bromodomain | Trypsin-like serine proteases | 1 | 1 | |
| HIT-like | Zinc beta-ribbon | 1 | 1 | |
| RBP11-like subunits of RNA polymerase | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| Calcium ATPase, transmembrane domain M | Ribonuclease H-like | 1 | 1 | |
| Acetyl-CoA synthetase-like | (Phosphotyrosine protein) phosphatases II | 1 | 1 | |
| Trypsin-like serine proteases | WD40 repeat-like | 1 | 1 | |
| GTPase activation domain, GAP | VPS9 domain | 1 | 1 | |
| ACP-like | ACP-like | 1 | 1 | |
| Formate dehydrogenase/DMSO reductase, domains 1-3 | ADC-like | 1 | 1 | |
| F-box domain | Kelch motif | 1 | 1 | |
| vWA-like | Integrin domains | 1 | 1 | |
| Tex N-terminal region-like | Ribonuclease H-like | 1 | 1 | |
| GroES-like | GroES-like | 1 | 1 | |
| Insert subdomain of RNA polymerase alpha subunit | RBP11-like subunits of RNA polymerase | 1 | 1 | |
| Adenine nucleotide alpha hydrolases-like | DHS-like NAD/FAD-binding domain | 1 | 1 | |
| PH domain-like | C2 domain (Calcium/lipid-binding domain, CaLB) | 1 | 1 | |
| Kelch motif | Kelch motif | 1 | 1 | |
| FAD/NAD(P)-binding domain | Nucleotide-binding domain | 1 | 1 | |
| HAD-like | Ribonuclease H-like | 1 | 1 | |
| DNA repair protein MutS, domain III | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| HLH, helix-loop-helix DNA-binding domain | PYP-like sensor domain (PAS domain) | 1 | 1 | |
| PDZ domain-like | WD40 repeat-like | 1 | 1 | |
| Ribonuclease PH domain 2-like | Ribonuclease PH domain 2-like | 1 | 1 | |
| Phosphoenolpyruvate/pyruvate domain | Malate synthase G | 1 | 1 | |
| Methylglyoxal synthase-like | Composite domain of metallo-dependent hydrolases | 1 | 1 | |
| DNA repair protein MutS, domain II | DNA repair protein MutS, domain III | 1 | 1 | |
| BAR/IMD domain-like | ArfGap/RecO-like zinc finger | 1 | 1 | |
| PUA domain-like | Nucleotidylyl transferase | 1 | 1 | |
| PreATP-grasp domain | post-HMGL domain-like | 1 | 1 | |
| Dom34/Pelota N-terminal domain-like | Translational machinery components | 1 | 1 | |
| LDL receptor-like module | EF-hand | 1 | 1 | |
| Class II aaRS and biotin synthetases | Translation proteins | 1 | 1 | |
| HR1 repeat | Protein kinase-like (PK-like) | 1 | 1 | |
| RCC1/BLIP-II | Metallo-dependent phosphatases | 1 | 1 | |
| ARM repeat | Tubulin nucleotide-binding domain-like | 1 | 1 | |
| ARM repeat | Hect, E3 ligase catalytic domain | 1 | 1 | |
| Thioredoxin-like | FAD-dependent thiol oxidase | 1 | 1 | |
| Protein kinase-like (PK-like) | Protein kinase-like (PK-like) | 1 | 1 | |
| ARM repeat | SAM/Pointed domain | 1 | 1 | |
| ATP-dependent DNA ligase DNA-binding domain | Nucleic acid-binding proteins | 1 | 1 | |
| RNase III domain-like | dsRNA-binding domain-like | 1 | 1 | |
| Nucleic acid-binding proteins | Retrovirus zinc finger-like domains | 1 | 1 | |
| ARM repeat | Ankyrin repeat | 1 | 1 | |
| GAF domain-like | HD-domain/PDEase-like | 1 | 1 | |
| DNA polymerase beta, N-terminal domain-like | Restriction endonuclease-like | 1 | 1 | |
| Composite domain of metallo-dependent hydrolases | Composite domain of metallo-dependent hydrolases | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | PRTase-like | 1 | 1 | |
| POZ domain | FtsH protease domain-like | 1 | 1 | |
| FYVE/PHD zinc finger | C2 domain (Calcium/lipid-binding domain, CaLB) | 1 | 1 | |
| GTPase activation domain, GAP | Ubiquitin-like | 1 | 1 | |
| Formate/glycerate dehydrogenase catalytic domain-like | DHS-like NAD/FAD-binding domain | 1 | 1 | |
| (Phosphotyrosine protein) phosphatases II | C2 domain (Calcium/lipid-binding domain, CaLB) | 1 | 1 | |
| A heparin-binding domain | Amyloid beta a4 protein copper binding domain (domain 2) | 1 | 1 | |
| PH domain-like | Oxysterol-binding protein-like | 1 | 1 | |
| Thioredoxin-like | Terpenoid synthases | 1 | 1 | |
| WD40 repeat-like | Cyclophilin-like | 1 | 1 | |
| UBC-like | Ribosomal protein S5 domain 2-like | 1 | 1 | |
| HMG-box | beta-beta-alpha zinc fingers | 1 | 1 | |
| BAR/IMD domain-like | Ankyrin repeat | 1 | 1 | |
| FAD-linked reductases, C-terminal domain | 4Fe-4S ferredoxins | 1 | 1 | |
| Ribonuclease H-like | RuvA domain 2-like | 1 | 1 | |
| Calcyclin-binding protein-like | HSP20-like chaperones | 1 | 1 | |
| PheT/TilS domain | Class II aaRS and biotin synthetases | 1 | 1 | |
| Sec7 domain | PH domain-like | 1 | 1 | |
| Sec63 N-terminal domain-like | DNA/RNA polymerases | 1 | 1 | |
| Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | Nucleic acid-binding proteins | 1 | 1 | |
| Pectin lyase-like | Pectin lyase-like | 1 | 1 | |
| L27 domain | SH3-domain | 1 | 1 | |
| Concanavalin A-like lectins/glucanases | ARM repeat | 1 | 1 | |
| Calponin-homology domain, CH-domain | PH domain-like | 1 | 1 | |
| alpha/beta-Hydrolases | TPR-like | 1 | 1 | |
| Thioredoxin-like | Ubiquitin-like | 1 | 1 | |
| Ribonuclease PH domain 2-like | Eukaryotic type KH-domain (KH-domain type I) | 1 | 1 | |
| Putative DNA-binding domain | Class II aaRS and biotin synthetases | 1 | 1 | |
| Spectrin repeat | PH domain-like | 1 | 1 | |
| Terpenoid cyclases/Protein prenyltransferases | Alpha-macroglobulin receptor domain | 1 | 1 | |
| Acid proteases | GTPase activation domain, GAP | 1 | 1 | |
| DNA repair protein MutS, domain I | DNA repair protein MutS, domain III | 1 | 1 | |
| Carbon-nitrogen hydrolase | HIT-like | 1 | 1 | |
| Kazal-type serine protease inhibitors | Kazal-type serine protease inhibitors | 1 | 1 | |
| Calpain large subunit, middle domain (domain III) | Calpain large subunit, middle domain (domain III) | 1 | 1 | |
| Doublecortin (DC) | Protein kinase-like (PK-like) | 1 | 1 | |
| DNA-binding domain | SET domain | 1 | 1 | |
| Glutathione synthetase ATP-binding domain-like | Aldolase | 1 | 1 | |
| L domain-like | NTF2-like | 1 | 1 | |
| Cysteine proteinases | Osmotin, thaumatin-like protein | 1 | 1 | |
| Growth factor receptor domain | vWA-like | 1 | 1 | |
| Ubiquitin-like | Cysteine-rich domain | 1 | 1 | |
| Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 | Aminomethyltransferase beta-barrel domain | 1 | 1 | |
| Thiolase-like | SCP-like | 1 | 1 | |
| E set domains | (Trans)glycosidases | 1 | 1 | |
| GYF domain | ARM repeat | 1 | 1 | |
| 2Fe-2S ferredoxin-like | 4Fe-4S ferredoxins | 1 | 1 | |
| Dom34/Pelota N-terminal domain-like | L30e-like | 1 | 1 | |
| SH2 domain | SOCS box-like | 1 | 1 | |
| EF-hand | Mannose 6-phosphate receptor domain | 1 | 1 | |
| Glutaminase/Asparaginase | Ankyrin repeat | 1 | 1 | |
| Sec7 domain | ARM repeat | 1 | 1 | |
| EGF/Laminin | Integrin beta tail domain | 1 | 1 | |
| PreATP-grasp domain | Aldolase | 1 | 1 | |
| BRK domain-like | Bromodomain | 1 | 1 | |
| E set domains | Terpenoid cyclases/Protein prenyltransferases | 1 | 1 | |
| Aldolase | Single hybrid motif | 1 | 1 | |
| NagB/RpiA/CoA transferase-like | D-ribose-5-phosphate isomerase (RpiA), lid domain | 1 | 1 | |
| WW domain | FKBP-like | 1 | 1 | |
| MIR domain | MIR domain | 1 | 1 | |
| EF-hand | RING/U-box | 1 | 1 | |
| GYF domain | Chaperone J-domain | 1 | 1 | |
| CCCH zinc finger | RING/U-box | 1 | 1 | |
| Initiation factor IF2/eIF5b, domain 3 | Translation proteins | 1 | 1 | |
| Ubiquitin-like | BAG domain | 1 | 1 | |
| PH domain-like | PH domain-like | 1 | 1 | |
| HSP40/DnaJ peptide-binding domain | Formin homology 2 domain (FH2 domain) | 1 | 1 | |
| Chaperone J-domain | HSC20 (HSCB), C-terminal oligomerisation domain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Glucocorticoid receptor-like (DNA-binding domain) | 1 | 1 | |
| NAD(P)-binding Rossmann-fold domains | DHS-like NAD/FAD-binding domain | 1 | 1 | |
| Surp module (SWAP domain) | Ubiquitin-like | 1 | 1 | |
| Periplasmic binding protein-like I | Periplasmic binding protein-like I | 1 | 1 | |
| Fe,Mn superoxide dismutase (SOD), N-terminal domain | Fe,Mn superoxide dismutase (SOD), C-terminal domain | 1 | 1 | |
| Immunoglobulin | RNA-binding domain, RBD | 1 | 1 | |
| PP2C-like | Ribonuclease H-like | 1 | 1 | |
| Acetyl-CoA synthetase-like | Quinoprotein alcohol dehydrogenase-like | 1 | 1 | |
| Immunoglobulin | Caspase-like | 1 | 1 | |
| Spectrin repeat | Plakin repeat | 1 | 1 | |
| PDZ domain-like | GTPase activation domain, GAP | 1 | 1 | |
| Subtilisin-like | Galactose-binding domain-like | 1 | 1 | |
| FKBP-like | TPR-like | 1 | 1 | |
| 2Fe-2S ferredoxin-like | Formate dehydrogenase/DMSO reductase, domains 1-3 | 1 | 1 | |
| RING/U-box | alpha/beta-Hydrolases | 1 | 1 | |
| PH domain-like | (Phosphotyrosine protein) phosphatases II | 1 | 1 | |
| Protein kinase-like (PK-like) | Polo-box domain | 1 | 1 | |
| PRP4-like | WD40 repeat-like | 1 | 1 | |
| DBL homology domain (DH-domain) | Cysteine-rich domain | 1 | 1 | |
| L domain-like | Growth factor receptor domain | 1 | 1 | |
| TPR-like | "Winged helix" DNA-binding domain | 1 | 1 | |
| LDL receptor-like module | Mannose 6-phosphate receptor domain | 1 | 1 | |
| Tex N-terminal region-like | SH2 domain | 1 | 1 | |
| HR1 repeat | HR1 repeat | 1 | 1 | |
| RNI-like | Ubiquitin-like | 1 | 1 | |
| alpha/beta-Hydrolases | F-box domain | 1 | 1 | |
| Ligand-binding domain in the NO signalling and Golgi transport | Nucleotide cyclase | 1 | 1 | |
| Protein kinase-like (PK-like) | WD40 repeat-like | 1 | 1 | |
| vWA-like | SEA domain | 1 | 1 | |
| Ribosomal protein S5 domain 2-like | Ribosomal protein S5 domain 2-like | 1 | 1 | |
| Ribosomal protein S5 domain 2-like | Type II DNA topoisomerase | 1 | 1 | |
| Alpha subunit of glutamate synthase, C-terminal domain | alpha-helical ferredoxin | 1 | 1 | |
| Ribonuclease H-like | E set domains | 1 | 1 | |
| HMA, heavy metal-associated domain | Calcium ATPase, transduction domain A | 1 | 1 | |
| Heat shock protein 70kD (HSP70), peptide-binding domain | Nicotinic receptor ligand binding domain-like | 1 | 1 | |
| Ribonuclease H-like | SH2 domain | 1 | 1 | |
