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 | Translation proteins | 162 | 3 |  |
| Translation proteins | EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain | 158 | 3 | |
| P-loop containing nucleoside triphosphate hydrolases | EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain | 158 | 3 | |
| NAD(P)-binding Rossmann-fold domains | Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain | 155 | 2 | |
| RNA-binding domain, RBD | RNA-binding domain, RBD | 78 | 8 | |
| NAD(P)-binding Rossmann-fold domains | LDH C-terminal domain-like | 49 | 1 | |
| beta-beta-alpha zinc fingers | beta-beta-alpha zinc fingers | 49 | 33 | |
| Tubulin nucleotide-binding domain-like | Tubulin C-terminal domain-like | 40 | 1 | |
| Ribosomal L11/L12e N-terminal domain | Ribosomal protein L11, C-terminal domain | 40 | 2 | |
| Ribosomal protein L6 | Ribosomal protein L6 | 34 | 1 | |
| DnaJ/Hsp40 cysteine-rich domain | HSP40/DnaJ peptide-binding domain | 28 | 5 | |
| Intermediate filament protein, coiled coil region | Intermediate filament protein, coiled coil region | 28 | 6 | |
| GroEL equatorial domain-like | GroEL apical domain-like | 27 | 2 | |
| Immunoglobulin | Immunoglobulin | 27 | 12 | |
| GroEL equatorial domain-like | GroEL-intermediate domain like | 26 | 1 | |
| HSP40/DnaJ peptide-binding domain | HSP40/DnaJ peptide-binding domain | 26 | 4 | |
| Chaperone J-domain | HSP40/DnaJ peptide-binding domain | 26 | 3 | |
| Chaperone J-domain | DnaJ/Hsp40 cysteine-rich domain | 26 | 3 | |
| Actin-like ATPase domain | Actin-like ATPase domain | 26 | 5 | |
| GroEL-intermediate domain like | GroEL apical domain-like | 26 | 1 | |
| dsRNA-binding domain-like | Ribosomal protein S5 domain 2-like | 25 | 2 | |
| KRAB domain (Kruppel-associated box) | beta-beta-alpha zinc fingers | 21 | 14 | |
| Thioredoxin-like | GST C-terminal domain-like | 20 | 2 | |
| Calponin-homology domain, CH-domain | EB1 dimerisation domain-like | 18 | 1 | |
| Actin-like ATPase domain | Heat shock protein 70kD (HSP70), peptide-binding domain | 16 | 3 | |
| Heat shock protein 70kD (HSP70), peptide-binding domain | Heat shock protein 70kD (HSP70), C-terminal subdomain | 15 | 2 | |
| TPR-like | TPR-like | 14 | 4 | |
| Cadherin-like | Cadherin-like | 14 | 8 | |
| Actin-like ATPase domain | Heat shock protein 70kD (HSP70), C-terminal subdomain | 13 | 1 | |
| Chromo domain-like | Chromo domain-like | 13 | 1 | |
| HMG-box | HMG-box | 13 | 2 | |
| GroES-like | NAD(P)-binding Rossmann-fold domains | 12 | 2 | |
| Cyclin-like | Cyclin-like | 11 | 3 | |
| GST C-terminal domain-like | eEF1-gamma domain | 10 | 2 | |
| P-loop containing nucleoside triphosphate hydrolases | P-loop containing nucleoside triphosphate hydrolases | 9 | 4 | |
| Ypt/Rab-GAP domain of gyp1p | Ypt/Rab-GAP domain of gyp1p | 9 | 2 | |
| EGF/Laminin | EGF/Laminin | 8 | 8 | |
| Thioredoxin-like | eEF1-gamma domain | 8 | 1 | |
| GroES-like | GroES-like | 7 | 1 | |
| Homeodomain-like | Homeodomain-like | 7 | 3 | |
| RNA-binding domain, RBD | Ran binding protein zinc finger-like | 7 | 1 | |
| ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | Ribosomal protein S5 domain 2-like | 6 | 3 | |
| Tudor/PWWP/MBT | S-adenosyl-L-methionine-dependent methyltransferases | 6 | 1 | |
| Transmembrane di-heme cytochromes | a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) | 6 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | TGS-like | 6 | 1 | |
| Metalloproteases ("zincins"), catalytic domain | Blood coagulation inhibitor (disintegrin) | 6 | 2 | |
| Cytochrome c oxidase subunit II-like, transmembrane region | Cupredoxins | 6 | 1 | |
| Ubiquitin-like | Zn-binding ribosomal proteins | 6 | 1 | |
| Aminoacid dehydrogenase-like, N-terminal domain | NAD(P)-binding Rossmann-fold domains | 6 | 2 | |
| MHC antigen-recognition domain | Immunoglobulin | 6 | 2 | |
| Ribosomal protein S5 domain 2-like | HSP90 C-terminal domain | 5 | 3 | |
| Complement control module/SCR domain | Complement control module/SCR domain | 5 | 5 | |
| CCCH zinc finger | RING/U-box | 5 | 2 | |
| POZ domain | Skp1 dimerisation domain-like | 5 | 1 | |
| EGF/Laminin | Growth factor receptor domain | 4 | 4 | |
| Concanavalin A-like lectins/glucanases | Concanavalin A-like lectins/glucanases | 4 | 3 | |
| Enolase N-terminal domain-like | Enolase C-terminal domain-like | 4 | 1 | |
| Glutamine synthetase, N-terminal domain | Glutamine synthetase/guanido kinase | 4 | 1 | |
| Thioredoxin-like | Thioredoxin-like | 4 | 2 | |
| ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | HSP90 C-terminal domain | 4 | 2 | |
| SRCR-like | SRCR-like | 4 | 3 | |
| Glucocorticoid receptor-like (DNA-binding domain) | Glucocorticoid receptor-like (DNA-binding domain) | 3 | 2 | |
| LuxS/MPP-like metallohydrolase | LuxS/MPP-like metallohydrolase | 3 | 2 | |
| Thiamin diphosphate-binding fold (THDP-binding) | TK C-terminal domain-like | 3 | 1 | |
| TSP-1 type 1 repeat | TSP-1 type 1 repeat | 3 | 3 | |
| Eukaryotic type KH-domain (KH-domain type I) | P-loop containing nucleoside triphosphate hydrolases | 3 | 2 | |
| vWA-like | vWA-like | 3 | 1 | |
| Ribosomal protein S5 domain 2-like | EF-G C-terminal domain-like | 3 | 2 | |
| Ankyrin repeat | Ankyrin repeat | 3 | 1 | |
| Formate/glycerate dehydrogenase catalytic domain-like | NAD(P)-binding Rossmann-fold domains | 3 | 2 | |
| ARM repeat | Subdomain of clathrin and coatomer appendage domain | 3 | 2 | |
| C2 domain (Calcium/lipid-binding domain, CaLB) | C2 domain (Calcium/lipid-binding domain, CaLB) | 3 | 1 | |
| Plakin repeat | Plakin repeat | 3 | 3 | |
| Eukaryotic type KH-domain (KH-domain type I) | Eukaryotic type KH-domain (KH-domain type I) | 3 | 2 | |
| Spectrin repeat | Spectrin repeat | 3 | 3 | |
| POZ domain | beta-beta-alpha zinc fingers | 3 | 2 | |
| B-box zinc-binding domain | Concanavalin A-like lectins/glucanases | 3 | 2 | |
| NAD(P)-binding Rossmann-fold domains | 6-phosphogluconate dehydrogenase C-terminal domain-like | 3 | 2 | |
| Clathrin adaptor appendage domain | Subdomain of clathrin and coatomer appendage domain | 3 | 2 | |
| Myosin rod fragments | Myosin rod fragments | 3 | 3 | |
| Prokaryotic type KH domain (KH-domain type II) | Ribosomal protein S3 C-terminal domain | 3 | 2 | |
| SNARE fusion complex | SNARE fusion complex | 3 | 1 | |
| Retrovirus zinc finger-like domains | Retrovirus zinc finger-like domains | 3 | 3 | |
| DNA clamp | DNA clamp | 3 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | EF-G C-terminal domain-like | 3 | 2 | |
| (Trans)glycosidases | Glycosyl hydrolase domain | 3 | 1 | |
| FAD/NAD(P)-binding domain | FAD-linked reductases, C-terminal domain | 3 | 2 | |
| Thiolase-like | Thiolase-like | 3 | 2 | |
| POZ domain | Voltage-gated potassium channels | 3 | 2 | |
| ARM repeat | Clathrin adaptor appendage domain | 3 | 2 | |
| Guanido kinase N-terminal domain | Glutamine synthetase/guanido kinase | 3 | 1 | |
| HAD-like | Calcium ATPase, transmembrane domain M | 3 | 2 | |
| P-loop containing nucleoside triphosphate hydrolases | Ribosomal protein S5 domain 2-like | 3 | 2 | |
| Bromodomain | Bromodomain | 2 | 1 | |
| E set domains | E set domains | 2 | 2 | |
| PDZ domain-like | Glucocorticoid receptor-like (DNA-binding domain) | 2 | 1 | |
| Concanavalin A-like lectins/glucanases | LDL receptor-like module | 2 | 1 | |
| N-terminal domain of alpha and beta subunits of F1 ATP synthase | P-loop containing nucleoside triphosphate hydrolases | 2 | 1 | |
| PGBD-like | Metalloproteases ("zincins"), catalytic domain | 2 | 2 | |
| PLP-binding barrel | Alanine racemase C-terminal domain-like | 2 | 1 | |
| EF-hand | EF-hand | 2 | 2 | |
| CBS-domain pair | CBS-domain pair | 2 | 1 | |
| Calcyclin-binding protein-like | HSP20-like chaperones | 2 | 1 | |
| SWIB/MDM2 domain | Ran binding protein zinc finger-like | 2 | 2 | |
| CCCH zinc finger | CCCH zinc finger | 2 | 1 | |
| PAZ domain | Ribonuclease H-like | 2 | 2 | |
| Translation proteins | Ribosomal protein S5 domain 2-like | 2 | 1 | |
| Metal cation-transporting ATPase, ATP-binding domain N | HAD-like | 2 | 1 | |
| p53-like transcription factors | SH2 domain | 2 | 2 | |
| FAD/NAD(P)-binding domain | FAD/NAD(P)-binding domain | 2 | 1 | |
| L domain-like | Immunoglobulin | 2 | 1 | |
| Chromo domain-like | SET domain | 2 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | C-terminal domain of alpha and beta subunits of F1 ATP synthase | 2 | 1 | |
| lambda repressor-like DNA-binding domains | Homeodomain-like | 2 | 2 | |
| Midkine | Midkine | 2 | 2 | |
| Fe,Mn superoxide dismutase (SOD), N-terminal domain | Fe,Mn superoxide dismutase (SOD), C-terminal domain | 2 | 1 | |
| SNARE-like | Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor | 2 | 1 | |
| RING/U-box | Concanavalin A-like lectins/glucanases | 2 | 1 | |
| PYP-like sensor domain (PAS domain) | Voltage-gated potassium channels | 2 | 1 | |
| Metalloproteases ("zincins"), catalytic domain | Hemopexin-like domain | 2 | 2 | |
| "Winged helix" DNA-binding domain | "Winged helix" DNA-binding domain | 2 | 2 | |
| Aminopeptidase/glucanase lid domain | Zn-dependent exopeptidases | 2 | 1 | |
| N-terminal domain of adenylylcyclase associated protein, CAP | C-terminal domain of adenylylcyclase associated protein | 2 | 1 | |
| 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 | |
| L domain-like | L domain-like | 2 | 2 | |
| RING/U-box | B-box zinc-binding domain | 2 | 1 | |
| CalX-like | CalX-like | 2 | 2 | |
| Retrovirus capsid dimerization domain-like | KRAB domain (Kruppel-associated box) | 2 | 2 | |
| Transcription factor IIA (TFIIA), alpha-helical domain | Transcription factor IIA (TFIIA), beta-barrel domain | 2 | 1 | |
| Metal cation-transporting ATPase, ATP-binding domain N | Calcium ATPase, transmembrane domain M | 2 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | RNA-binding domain, RBD | 2 | 1 | |
| Translation proteins | EF-G C-terminal domain-like | 2 | 1 | |
| POZ domain | Kelch motif | 2 | 2 | |
| Arp2/3 complex subunits | Arp2/3 complex subunits | 2 | 1 | |
| Nicotinic receptor ligand binding domain-like | Neurotransmitter-gated ion-channel transmembrane pore | 1 | 1 | |
| FnI-like domain | Kringle-like | 1 | 1 | |
| Aminoacid dehydrogenase-like, N-terminal domain | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| BRCT domain | Domain of poly(ADP-ribose) polymerase | 1 | 1 | |
| RING/U-box | RING/U-box | 1 | 1 | |
| BRCT domain | ADP-ribosylation | 1 | 1 | |
| vWA-like | Helical domain of Sec23/24 | 1 | 1 | |
| RING/U-box | Cysteine proteinases | 1 | 1 | |
| Phosphoenolpyruvate/pyruvate domain | PK C-terminal domain-like | 1 | 1 | |
| Ankyrin repeat | Protein kinase-like (PK-like) | 1 | 1 | |
| 6-phosphogluconate dehydrogenase C-terminal domain-like | 6-phosphogluconate dehydrogenase C-terminal domain-like | 1 | 1 | |
| ENTH/VHS domain | GAT-like domain | 1 | 1 | |
| SNARE-like | SNARE fusion complex | 1 | 1 | |
| PK beta-barrel domain-like | Phosphoenolpyruvate/pyruvate domain | 1 | 1 | |
| CO dehydrogenase molybdoprotein N-domain-like | Molybdenum cofactor-binding domain | 1 | 1 | |
| MOSC N-terminal domain-like | PK beta-barrel domain-like | 1 | 1 | |
| Glucocorticoid receptor-like (DNA-binding domain) | WGR domain-like | 1 | 1 | |
| Nucleic acid-binding proteins | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| Growth factor receptor domain | TB module/8-cys domain | 1 | 1 | |
| IP3 receptor type 1 binding core, domain 2 | ARM repeat | 1 | 1 | |
| Nucleotide-diphospho-sugar transferases | Trimeric LpxA-like enzymes | 1 | 1 | |
| Helical domain of Sec23/24 | C-terminal, gelsolin-like domain of Sec23/24 | 1 | 1 | |
| HLH, helix-loop-helix DNA-binding domain | Leucine zipper domain | 1 | 1 | |
| Concanavalin A-like lectins/glucanases | P-domain of calnexin/calreticulin | 1 | 1 | |
| PA domain | RING/U-box | 1 | 1 | |
| Glucocorticoid receptor-like (DNA-binding domain) | BRCT domain | 1 | 1 | |
| beta-sandwich domain of Sec23/24 | C-terminal, gelsolin-like domain of Sec23/24 | 1 | 1 | |
| ClpP/crotonase | NAD(P)-binding Rossmann-fold domains | 1 | 1 | |
| Nucleic acid-binding proteins | "Winged helix" DNA-binding domain | 1 | 1 | |
| Ribosomal protein S5 domain 2-like | Ribonuclease PH domain 2-like | 1 | 1 | |
| Cullin repeat-like | "Winged helix" DNA-binding domain | 1 | 1 | |
| SH2 domain | (Phosphotyrosine protein) phosphatases II | 1 | 1 | |
| vWA-like | SPOC domain-like | 1 | 1 | |
| Thioredoxin-like | Galactose-binding domain-like | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Tropomyosin | 1 | 1 | |
| SH3-domain | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| Cysteine-rich domain | GTPase activation domain, GAP | 1 | 1 | |
| Nucleic acid-binding proteins | Class II aaRS and biotin synthetases | 1 | 1 | |
| L domain-like | NTF2-like | 1 | 1 | |
| Integrin domains | Integrin domains | 1 | 1 | |
| N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 | Translational machinery components | 1 | 1 | |
| GST C-terminal domain-like | eEF-1beta-like | 1 | 1 | |
| N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 | L30e-like | 1 | 1 | |
| vWA-like | SAP domain | 1 | 1 | |
| Ankyrin repeat | TPR-like | 1 | 1 | |
| Nucleic acid-binding proteins | Translation proteins SH3-like domain | 1 | 1 | |
| THUMP domain-like | S-adenosyl-L-methionine-dependent methyltransferases | 1 | 1 | |
| TPR-like | Chaperone J-domain | 1 | 1 | |
| CO dehydrogenase ISP C-domain like | CO dehydrogenase flavoprotein C-terminal domain-like | 1 | 1 | |
| Protein kinase-like (PK-like) | ARM repeat | 1 | 1 | |
| CO dehydrogenase ISP C-domain like | CO dehydrogenase molybdoprotein N-domain-like | 1 | 1 | |
| Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 | Zinc beta-ribbon | 1 | 1 | |
| Domain of poly(ADP-ribose) polymerase | ADP-ribosylation | 1 | 1 | |
| C2 domain (Calcium/lipid-binding domain, CaLB) | vWA-like | 1 | 1 | |
| beta-beta-alpha zinc fingers | Homeodomain-like | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Microbial and mitochondrial ADK, insert "zinc finger" domain | 1 | 1 | |
| PH domain-like | EF-hand | 1 | 1 | |
| TB module/8-cys domain | TB module/8-cys domain | 1 | 1 | |
| Serum albumin-like | Serum albumin-like | 1 | 1 | |
| Elongation factor TFIIS domain 2 | Zinc beta-ribbon | 1 | 1 | |
| PurM N-terminal domain-like | PurM C-terminal domain-like | 1 | 1 | |
| Insert subdomain of RNA polymerase alpha subunit | RBP11-like subunits of RNA polymerase | 1 | 1 | |
| GTPase activation domain, GAP | GTPase activation domain, GAP | 1 | 1 | |
| "Winged helix" DNA-binding domain | Protein kinase-like (PK-like) | 1 | 1 | |
| Putative DNA-binding domain | PheT/TilS domain | 1 | 1 | |
| t-snare proteins | SNARE fusion complex | 1 | 1 | |
| Kringle-like | Kringle-like | 1 | 1 | |
| Immunoglobulin | Toll/Interleukin receptor TIR domain | 1 | 1 | |
| Concanavalin A-like lectins/glucanases | EGF/Laminin | 1 | 1 | |
| UBA-like | Tudor/PWWP/MBT | 1 | 1 | |
| vWA-like | Immunoglobulin | 1 | 1 | |
| S15/NS1 RNA-binding domain | Class II aaRS and biotin synthetases | 1 | 1 | |
| PH domain-like | SH2 domain | 1 | 1 | |
| Plakin repeat | Spectrin repeat | 1 | 1 | |
| FAD-binding/transporter-associated domain-like | Molybdenum cofactor-binding domain | 1 | 1 | |
| PK beta-barrel domain-like | PK C-terminal domain-like | 1 | 1 | |
| Methylglyoxal synthase-like | Cytidine deaminase-like | 1 | 1 | |
| Thiamin pyrophosphokinase, catalytic domain | Thiamin pyrophosphokinase, substrate-binding domain | 1 | 1 | |
| N-terminal nucleophile aminohydrolases (Ntn hydrolases) | Adenine nucleotide alpha hydrolases-like | 1 | 1 | |
| CO dehydrogenase flavoprotein C-terminal domain-like | Molybdenum cofactor-binding domain | 1 | 1 | |
| Ubiquitin-like | UBA-like | 1 | 1 | |
| beta-beta-alpha zinc fingers | CCCH zinc finger | 1 | 1 | |
| Family A G protein-coupled receptor-like | Family A G protein-coupled receptor-like | 1 | 1 | |
| Glucocorticoid receptor-like (DNA-binding domain) | Ribonuclease H-like | 1 | 1 | |
| MIR domain | MIR domain | 1 | 1 | |
| FAD-binding/transporter-associated domain-like | CO dehydrogenase molybdoprotein N-domain-like | 1 | 1 | |
| Ran binding protein zinc finger-like | RING/U-box | 1 | 1 | |
| beta-sandwich domain of Sec23/24 | Helical domain of Sec23/24 | 1 | 1 | |
| STAT | p53-like transcription factors | 1 | 1 | |
| CO dehydrogenase ISP C-domain like | FAD-binding/transporter-associated domain-like | 1 | 1 | |
| Pseudouridine synthase | PUA domain-like | 1 | 1 | |
| NAD(P)-binding Rossmann-fold domains | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| Vacuolar ATP synthase subunit C | Vacuolar ATP synthase subunit C | 1 | 1 | |
| Dipeptidyl peptidase I (cathepsin C), exclusion domain | Cysteine proteinases | 1 | 1 | |
| Cullin repeat-like | Cullin homology domain | 1 | 1 | |
| vWA-like | C-terminal, gelsolin-like domain of Sec23/24 | 1 | 1 | |
| Putative DNA-binding domain | Putative DNA-binding domain | 1 | 1 | |
| Fibronectin type III | Fibronectin type III | 1 | 1 | |
| PDZ domain-like | "Winged helix" DNA-binding domain | 1 | 1 | |
| DEATH domain | Immunoglobulin | 1 | 1 | |
| SH2 domain | SH2 domain | 1 | 1 | |
| Translation initiation factor 2 beta, aIF2beta, N-terminal domain | Zinc-binding domain of translation initiation factor 2 beta | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Hypothetical protein YjiA, C-terminal domain | 1 | 1 | |
| CO dehydrogenase flavoprotein C-terminal domain-like | CO dehydrogenase molybdoprotein N-domain-like | 1 | 1 | |
| Nucleotidylyl transferase | Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 1 | 1 | |
| Glucocorticoid receptor-like (DNA-binding domain) | ADP-ribosylation | 1 | 1 | |
| HMA, heavy metal-associated domain | Calcium ATPase, transduction domain A | 1 | 1 | |
| WGR domain-like | ADP-ribosylation | 1 | 1 | |
| TPR-like | RING/U-box | 1 | 1 | |
| "Winged helix" DNA-binding domain | RNA-binding domain, RBD | 1 | 1 | |
| HMA, heavy metal-associated domain | HAD-like | 1 | 1 | |
| CBS-domain pair | Inosine monophosphate dehydrogenase (IMPDH) | 1 | 1 | |
| Myosin rod fragments | Tropomyosin | 1 | 1 | |
| Protein kinase-like (PK-like) | Myosin rod fragments | 1 | 1 | |
| LDL receptor-like module | LDL receptor-like module | 1 | 1 | |
| SAM/Pointed domain | "Winged helix" DNA-binding domain | 1 | 1 | |
| WGR domain-like | Domain of poly(ADP-ribose) polymerase | 1 | 1 | |
| SWIB/MDM2 domain | SWIB/MDM2 domain | 1 | 1 | |
| ClpP/crotonase | 6-phosphogluconate dehydrogenase C-terminal domain-like | 1 | 1 | |
| EF-hand | Mitochondrial carrier | 1 | 1 | |
| dsRNA-binding domain-like | dsRNA-binding domain-like | 1 | 1 | |
| SMAD MH1 domain | SMAD/FHA domain | 1 | 1 | |
| PGBD-like | Hemopexin-like domain | 1 | 1 | |
| TNF receptor-like | TNF receptor-like | 1 | 1 | |
| SWIB/MDM2 domain | RING/U-box | 1 | 1 | |
| YccV-like | ApaG-like | 1 | 1 | |
| EGF/Laminin | Fibrinogen C-terminal domain-like | 1 | 1 | |
| Intermediate filament protein, coiled coil region | Tropomyosin | 1 | 1 | |
| WW domain | PH domain-like | 1 | 1 | |
| FAD-binding/transporter-associated domain-like | CO dehydrogenase flavoprotein C-terminal domain-like | 1 | 1 | |
| DEATH domain | Caspase-like | 1 | 1 | |
| PDZ domain-like | PDZ domain-like | 1 | 1 | |
| SH2 domain | Cysteine-rich domain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | PUA domain-like | 1 | 1 | |
| LDL receptor-like module | Spermadhesin, CUB domain | 1 | 1 | |
| Calcium ATPase, transduction domain A | Calcium ATPase, transmembrane domain M | 1 | 1 | |
| Serine protease inhibitors | FnI-like domain | 1 | 1 | |
| 2Fe-2S ferredoxin-like | alpha-helical ferredoxin | 1 | 1 | |
| Calcium ATPase, transduction domain A | HAD-like | 1 | 1 | |
| RNA-binding domain, RBD | L 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 | |
| FnI-like domain | Trypsin-like serine proteases | 1 | 1 | |
| Transcription factor STAT-4 N-domain | STAT | 1 | 1 | |
| E set domains | GTPase activation domain, GAP | 1 | 1 | |
| NSFL1 (p97 ATPase) cofactor p47, SEP domain | Ubiquitin-like | 1 | 1 | |
| Aconitase iron-sulfur domain | LeuD/IlvD-like | 1 | 1 | |
| DNA-binding domain | DNA-glycosylase | 1 | 1 | |
| Nucleic acid-binding proteins | Retrovirus zinc finger-like domains | 1 | 1 | |
| SH2 domain | GTPase activation domain, GAP | 1 | 1 | |
| Serine protease inhibitors | Serine protease inhibitors | 1 | 1 | |
| CO dehydrogenase ISP C-domain like | Molybdenum cofactor-binding domain | 1 | 1 | |
| Translational machinery components | L30e-like | 1 | 1 | |
| Protein kinase-like (PK-like) | KA1-like | 1 | 1 | |
| F-box domain | WD40 repeat-like | 1 | 1 | |
| Glucocorticoid receptor-like (DNA-binding domain) | Domain of poly(ADP-ribose) polymerase | 1 | 1 | |
| SH2 domain | SOCS box-like | 1 | 1 | |
| Cyclophilin-like | TPR-like | 1 | 1 | |
| E set domains | Terpenoid cyclases/Protein prenyltransferases | 1 | 1 | |
| Immunoglobulin | Caspase-like | 1 | 1 | |
| Growth factor receptor domain | Growth factor receptor domain | 1 | 1 | |
| Kringle-like | Trypsin-like serine proteases | 1 | 1 | |
| vWA-like | beta-sandwich domain of Sec23/24 | 1 | 1 | |
| ValRS/IleRS/LeuRS editing domain | Nucleotidylyl transferase | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Myosin rod fragments | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Nucleotidylyl transferase | 1 | 1 | |
| mRNA decapping enzyme DcpS N-terminal domain | HIT-like | 1 | 1 | |
| Creatinase/aminopeptidase | "Winged helix" DNA-binding domain | 1 | 1 | |
| Glucocorticoid receptor-like (DNA-binding domain) | Nuclear receptor ligand-binding domain | 1 | 1 | |
| Transcription factor STAT-4 N-domain | p53-like transcription factors | 1 | 1 | |
| PheT/TilS domain | Class II aaRS and biotin synthetases | 1 | 1 | |
| Putative DNA-binding domain | Class II aaRS and biotin synthetases | 1 | 1 | |
| Glucocorticoid receptor-like (DNA-binding domain) | AN1-like Zinc finger | 1 | 1 | |
| GHMP Kinase, C-terminal domain | FKBP-like | 1 | 1 | |
| PH domain-like | Vasodilator-stimulated phosphoprotein, VASP, tetramerisation domain | 1 | 1 | |
| BRCT domain | WGR domain-like | 1 | 1 | |
| PH domain-like | ARM repeat | 1 | 1 | |
| STAT | SH2 domain | 1 | 1 | |
| Intermediate filament protein, coiled coil region | Prefoldin | 1 | 1 | |
| HMA, heavy metal-associated domain | HMA, heavy metal-associated domain | 1 | 1 | |
| TB module/8-cys domain | EGF/Laminin | 1 | 1 | |
| SPOC domain-like | SAP domain | 1 | 1 | |
| Ubiquitin-like | Ubiquitin-like | 1 | 1 | |
| Transcription factor STAT-4 N-domain | SH2 domain | 1 | 1 | |
| alpha-ketoacid dehydrogenase kinase, N-terminal domain | ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | 1 | 1 | |
| Protein kinase-like (PK-like) | NTF2-like | 1 | 1 | |
| RNA-binding domain, RBD | NTF2-like | 1 | 1 | |
| Sec7 domain | PH domain-like | 1 | 1 | |
| UBC-like | Endosomal sorting complex assembly domain | 1 | 1 | |
| Dimeric alpha+beta barrel | Dimeric alpha+beta barrel | 1 | 1 | |
| Cullin homology domain | "Winged helix" DNA-binding domain | 1 | 1 | |
| Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 | Elongation factor TFIIS domain 2 | 1 | 1 | |
| Ribosomal protein S5 domain 2-like | Ribosomal protein S5 domain 2-like | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | FtsH protease domain-like | 1 | 1 | |
| ValRS/IleRS/LeuRS editing domain | Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 1 | 1 | |
| SRCR-like | Spermadhesin, CUB domain | 1 | 1 | |
| PUA domain-like | Nucleotidylyl transferase | 1 | 1 | |
| Complement control module/SCR domain | Spermadhesin, CUB domain | 1 | 1 | |
| F-box domain | RNI-like | 1 | 1 | |
