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 | 12 | 9 |  |
| Actin-like ATPase domain | Actin-like ATPase domain | 10 | 4 | |
| Nucleotidylyl transferase | Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 6 | 6 | |
| TPR-like | TPR-like | 5 | 4 | |
| Ribosomal protein S5 domain 2-like | P-loop containing nucleoside triphosphate hydrolases | 5 | 3 | |
| P-loop containing nucleoside triphosphate hydrolases | Translation proteins | 4 | 3 | |
| Class II aaRS and biotin synthetases | Class II aaRS ABD-related | 4 | 3 | |
| ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | Ribosomal protein S5 domain 2-like | 4 | 3 | |
| MurD-like peptide ligases, catalytic domain | MurD-like peptide ligases, peptide-binding domain | 4 | 2 | |
| P-loop containing nucleoside triphosphate hydrolases | EF-G C-terminal domain-like | 3 | 2 | |
| N-terminal domain of DnaB helicase | P-loop containing nucleoside triphosphate hydrolases | 3 | 1 | |
| ValRS/IleRS/LeuRS editing domain | Nucleotidylyl transferase | 3 | 3 | |
| EF-G C-terminal domain-like | EF-G C-terminal domain-like | 3 | 2 | |
| ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | Histidine-containing phosphotransfer domain, HPT domain | 3 | 3 | |
| ValRS/IleRS/LeuRS editing domain | Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 3 | 3 | |
| Translation proteins SH3-like domain | Nucleic acid-binding proteins | 2 | 2 | |
| P-loop containing nucleoside triphosphate hydrolases | "Winged helix" DNA-binding domain | 2 | 2 | |
| Aminopeptidase/glucanase lid domain | Zn-dependent exopeptidases | 2 | 1 | |
| EF-G C-terminal domain-like | Ribosomal protein S5 domain 2-like | 2 | 1 | |
| MurCD N-terminal domain | MurD-like peptide ligases, catalytic domain | 2 | 1 | |
| PDZ domain-like | PDZ domain-like | 2 | 2 | |
| Translation proteins | Ribosomal protein S5 domain 2-like | 2 | 1 | |
| ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | Type II DNA topoisomerase | 2 | 1 | |
| Phosphoglucomutase, first 3 domains | Phosphoglucomutase, first 3 domains | 2 | 2 | |
| Homodimeric domain of signal transducing histidine kinase | Histidine-containing phosphotransfer domain, HPT domain | 2 | 2 | |
| Chaperone J-domain | HSP40/DnaJ peptide-binding domain | 2 | 2 | |
| MurE/MurF N-terminal domain | MurD-like peptide ligases, catalytic domain | 2 | 1 | |
| NAD(P)-binding Rossmann-fold domains | 6-phosphogluconate dehydrogenase C-terminal domain-like | 2 | 2 | |
| MurCD N-terminal domain | MurD-like peptide ligases, peptide-binding domain | 2 | 1 | |
| Actin-like ATPase domain | Heat shock protein 70kD (HSP70), peptide-binding domain | 2 | 2 | |
| Phoshotransferase/anion transport protein | PTS system IIB component-like | 2 | 1 | |
| Ribosomal protein S5 domain 2-like | Type II DNA topoisomerase | 2 | 1 | |
| FliG | FliG | 2 | 2 | |
| Chemotaxis receptor methyltransferase CheR, N-terminal domain | S-adenosyl-L-methionine-dependent methyltransferases | 2 | 1 | |
| Histidine-containing phosphotransfer domain, HPT domain | CheW-like | 2 | 2 | |
| PUA domain-like | P-loop containing nucleoside triphosphate hydrolases | 2 | 1 | |
| CBS-domain pair | FAD-binding/transporter-associated domain-like | 2 | 1 | |
| Nucleic acid-binding proteins | Nucleic acid-binding proteins | 2 | 2 | |
| Multidrug efflux transporter AcrB transmembrane domain | Multidrug efflux transporter AcrB transmembrane domain | 2 | 2 | |
| HSP40/DnaJ peptide-binding domain | HSP40/DnaJ peptide-binding domain | 2 | 2 | |
| TPR-like | HCP-like | 2 | 2 | |
| Domain of the SRP/SRP receptor G-proteins | P-loop containing nucleoside triphosphate hydrolases | 2 | 2 | |
| Nucleic acid-binding proteins | RuvA domain 2-like | 2 | 2 | |
| NAD(P)-binding Rossmann-fold domains | Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain | 2 | 2 | |
| Nucleotidylyl transferase | An anticodon-binding domain of class I aminoacyl-tRNA synthetases | 2 | 1 | |
| Ribosomal protein S5 domain 2-like | GHMP Kinase, C-terminal domain | 2 | 1 | |
| MurE/MurF N-terminal domain | MurD-like peptide ligases, peptide-binding domain | 2 | 1 | |
| Triger factor/SurA peptide-binding domain-like | FKBP-like | 2 | 2 | |
| Homodimeric domain of signal transducing histidine kinase | ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | 2 | 2 | |
| Alpha-L RNA-binding motif | Pseudouridine synthase | 2 | 1 | |
| ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | CheW-like | 2 | 2 | |
| DNA repair protein MutS, domain III | P-loop containing nucleoside triphosphate hydrolases | 2 | 2 | |
| Translation proteins | EF-G C-terminal domain-like | 2 | 1 | |
| ThrRS/AlaRS common domain | Class II aaRS and biotin synthetases | 2 | 2 | |
| Sigma2 domain of RNA polymerase sigma factors | Sigma3 and sigma4 domains of RNA polymerase sigma factors | 2 | 2 | |
| Nucleic acid-binding proteins | Class II aaRS and biotin synthetases | 2 | 2 | |
| Thiolase-like | Thiolase-like | 2 | 1 | |
| PUA domain-like | Ribosomal protein S5 domain 2-like | 2 | 1 | |
| Composite domain of metallo-dependent hydrolases | Metallo-dependent hydrolases | 2 | 2 | |
| Nucleic acid-binding proteins | P-loop containing nucleoside triphosphate hydrolases | 2 | 2 | |
| Penicillin binding protein dimerisation domain | beta-lactamase/transpeptidase-like | 2 | 2 | |
| LuxS/MPP-like metallohydrolase | LuxS/MPP-like metallohydrolase | 2 | 1 | |
| CheY-like | Methylesterase CheB, C-terminal domain | 1 | 1 | |
| Mechanosensitive channel protein MscS (YggB), transmembrane region | Mechanosensitive channel protein MscS (YggB), C-terminal domain | 1 | 1 | |
| Barwin-like endoglucanases | Sporulation related repeat | 1 | 1 | |
| FAD/NAD(P)-binding domain | FAD/NAD-linked reductases, dimerisation (C-terminal) domain | 1 | 1 | |
| MgtE N-terminal domain-like | CBS-domain pair | 1 | 1 | |
| Phosphoenolpyruvate/pyruvate domain | PK C-terminal domain-like | 1 | 1 | |
| NAD(P)-binding Rossmann-fold domains | TrkA C-terminal domain-like | 1 | 1 | |
| Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains | Multidrug efflux transporter AcrB transmembrane domain | 1 | 1 | |
| DnaK suppressor protein DksA, alpha-hairpin domain | Glucocorticoid receptor-like (DNA-binding domain) | 1 | 1 | |
| DnaJ/Hsp40 cysteine-rich domain | HSP40/DnaJ peptide-binding domain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Signal peptide-binding domain | 1 | 1 | |
| Concanavalin A-like lectins/glucanases | Fibronectin type III | 1 | 1 | |
| Coiled-coil domain of nucleotide exchange factor GrpE | Head domain of nucleotide exchange factor GrpE | 1 | 1 | |
| Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain | Phosphohistidine domain | 1 | 1 | |
| CheY-binding domain of CheA | ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | 1 | 1 | |
| CBS-domain pair | MgtE membrane domain-like | 1 | 1 | |
| Nucleotidylyl transferase | tRNA-binding arm | 1 | 1 | |
| DNA clamp | DNA clamp | 1 | 1 | |
| Ribosomal protein L6 | Ribosomal protein L6 | 1 | 1 | |
| MgtE N-terminal domain-like | MgtE membrane domain-like | 1 | 1 | |
| GroEL equatorial domain-like | GroEL-intermediate domain like | 1 | 1 | |
| Sigma3 and sigma4 domains of RNA polymerase sigma factors | Sigma3 and sigma4 domains of RNA polymerase sigma factors | 1 | 1 | |
| L9 N-domain-like | Ribosomal protein L9 C-domain | 1 | 1 | |
| Actin-like ATPase domain | Heat shock protein 70kD (HSP70), C-terminal subdomain | 1 | 1 | |
| DNA repair protein MutS, domain III | SMR domain-like | 1 | 1 | |
| Enolase N-terminal domain-like | Enolase C-terminal domain-like | 1 | 1 | |
| GroEL equatorial domain-like | GroEL apical domain-like | 1 | 1 | |
| TPR-like | NHL repeat | 1 | 1 | |
| PreATP-grasp domain | Glutathione synthetase ATP-binding domain-like | 1 | 1 | |
| Putative DNA-binding domain | Class II aaRS and biotin synthetases | 1 | 1 | |
| Phosphoglucomutase, first 3 domains | Phosphoglucomutase, C-terminal domain | 1 | 1 | |
| Double Clp-N motif | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Pre-protein crosslinking domain of SecA | 1 | 1 | |
| Class I glutamine amidotransferase-like | GMP synthetase C-terminal dimerisation domain | 1 | 1 | |
| Nucleotidyltransferase | TGS-like | 1 | 1 | |
| DNA ligase/mRNA capping enzyme, catalytic domain | Nucleic acid-binding proteins | 1 | 1 | |
| Class II aaRS ABD-related | C-terminal domain of ProRS | 1 | 1 | |
| RNase III domain-like | dsRNA-binding domain-like | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | TRCF domain-like | 1 | 1 | |
| Insert subdomain of RNA polymerase alpha subunit | C-terminal domain of RNA polymerase alpha subunit | 1 | 1 | |
| Translation proteins | Translation proteins | 1 | 1 | |
| Ribosomal protein S5 domain 2-like | Nucleic acid-binding proteins | 1 | 1 | |
| Translation proteins | EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain | 1 | 1 | |
| Elongation factor Ts (EF-Ts), dimerisation domain | Elongation factor Ts (EF-Ts), dimerisation domain | 1 | 1 | |
| Formyltransferase | FMT C-terminal domain-like | 1 | 1 | |
| Nicotinate/Quinolinate PRTase N-terminal domain-like | Nicotinate/Quinolinate PRTase C-terminal domain-like | 1 | 1 | |
| PIN domain-like | Ribonuclease H-like | 1 | 1 | |
| beta-lactamase/transpeptidase-like | Penicillin-binding protein associated domain | 1 | 1 | |
| Nucleotidylyl transferase | Alpha-L RNA-binding motif | 1 | 1 | |
| Glutamine synthetase/guanido kinase | GatB/YqeY motif | 1 | 1 | |
| CheY-like | Histidine-containing phosphotransfer domain, HPT domain | 1 | 1 | |
| L30e-like | alpha/beta knot | 1 | 1 | |
| DNA repair protein MutS, domain II | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | RecA protein, C-terminal domain | 1 | 1 | |
| Nucleic acid-binding proteins | GAD domain-like | 1 | 1 | |
| PLP-binding barrel | Alanine racemase C-terminal domain-like | 1 | 1 | |
| DNA repair protein MutS, domain I | DNA repair protein MutS, domain II | 1 | 1 | |
| Transcription factor NusA, N-terminal domain | Prokaryotic type KH domain (KH-domain type II) | 1 | 1 | |
| NAD-binding domain of HMG-CoA reductase | Substrate-binding domain of HMG-CoA reductase | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Initiation factor IF2/eIF5b, domain 3 | 1 | 1 | |
| Trigger factor ribosome-binding domain | FKBP-like | 1 | 1 | |
| CheY-binding domain of CheA | CheW-like | 1 | 1 | |
| NHL repeat | vWA-like | 1 | 1 | |
| Translation initiation factor IF3, N-terminal domain | Translation initiation factor IF3, C-terminal domain | 1 | 1 | |
| Class II aaRS and biotin synthetases | GAD domain-like | 1 | 1 | |
| Homo-oligomeric flavin-containing Cys decarboxylases, HFCD | CoaB-like | 1 | 1 | |
| tRNA-binding arm | Class II aaRS and biotin synthetases | 1 | 1 | |
| Ribosomal protein S5 domain 2-like | Eukaryotic type KH-domain (KH-domain type I) | 1 | 1 | |
| RBP11-like subunits of RNA polymerase | C-terminal domain of RNA polymerase alpha subunit | 1 | 1 | |
| Penicillin binding protein dimerisation domain | Penicillin-binding protein 2x (pbp-2x), c-terminal domain | 1 | 1 | |
| Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain | Nucleotidylyl transferase | 1 | 1 | |
| Periplasmic binding protein-like II | CheY-like | 1 | 1 | |
| Nucleic acid-binding proteins | BRCT domain | 1 | 1 | |
| Lysozyme-like | beta-lactamase/transpeptidase-like | 1 | 1 | |
| NagB/RpiA/CoA transferase-like | D-ribose-5-phosphate isomerase (RpiA), lid domain | 1 | 1 | |
| Ribonuclease PH domain 2-like | Ribonuclease PH domain 2-like | 1 | 1 | |
| Type II DNA topoisomerase | GyrA/ParC C-terminal domain-like | 1 | 1 | |
| 5' to 3' exonuclease, C-terminal subdomain | DNA/RNA polymerases | 1 | 1 | |
| CheY-like | Nucleotide cyclase | 1 | 1 | |
| Ribosomal protein S5 domain 2-like | DNA mismatch repair protein MutL | 1 | 1 | |
| DNA repair protein MutS, domain II | DNA repair protein MutS, domain III | 1 | 1 | |
| Ribosomal protein S5 domain 2-like | Ribosomal protein S5 domain 2-like | 1 | 1 | |
| Carbon-nitrogen hydrolase | Adenine nucleotide alpha hydrolases-like | 1 | 1 | |
| PK beta-barrel domain-like | Phosphoenolpyruvate/pyruvate domain | 1 | 1 | |
| Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) | ThrRS/AlaRS common domain | 1 | 1 | |
| Acyl-CoA N-acyltransferases (Nat) | Cation efflux protein transmembrane domain-like | 1 | 1 | |
| Class II aaRS and biotin synthetases | C-terminal domain of ProRS | 1 | 1 | |
| Creatinase/prolidase N-terminal domain | Creatinase/aminopeptidase | 1 | 1 | |
| LysM domain | LysM domain | 1 | 1 | |
| Periplasmic binding protein-like II | Homodimeric domain of signal transducing histidine kinase | 1 | 1 | |
| Insert subdomain of RNA polymerase alpha subunit | RBP11-like subunits of RNA polymerase | 1 | 1 | |
| DHH phosphoesterases | DHH phosphoesterases | 1 | 1 | |
| PYP-like sensor domain (PAS domain) | Homodimeric domain of signal transducing histidine kinase | 1 | 1 | |
| Putative DNA-binding domain | Putative DNA-binding domain | 1 | 1 | |
| Trypsin-like serine proteases | PDZ domain-like | 1 | 1 | |
| LysM domain | Zn-dependent exopeptidases | 1 | 1 | |
| CarD-like | TRCF domain-like | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | TGS-like | 1 | 1 | |
| CheC-like | Surface presentation of antigens (SPOA) | 1 | 1 | |
| CheY-binding domain of CheA | CheY-binding domain of CheA | 1 | 1 | |
| DNA ligase/mRNA capping enzyme, catalytic domain | BRCT domain | 1 | 1 | |
| Ribosomal protein S5 domain 2-like | HSP90 C-terminal domain | 1 | 1 | |
| Periplasmic binding protein-like II | Periplasmic binding protein-like II | 1 | 1 | |
| Histidine-containing phosphotransfer domain, HPT domain | CheY-binding domain of CheA | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Helical scaffold and wing domains of SecA | 1 | 1 | |
| PK beta-barrel domain-like | PK C-terminal domain-like | 1 | 1 | |
| Methyl-accepting chemotaxis protein (MCP) signaling domain | Methyl-accepting chemotaxis protein (MCP) signaling domain | 1 | 1 | |
| Prokaryotic type KH domain (KH-domain type II) | Ribosomal protein S3 C-terminal domain | 1 | 1 | |
| GroEL-intermediate domain like | GroEL apical domain-like | 1 | 1 | |
| Adenine nucleotide alpha hydrolases-like | GMP synthetase C-terminal dimerisation domain | 1 | 1 | |
| Class I glutamine amidotransferase-like | Adenine nucleotide alpha hydrolases-like | 1 | 1 | |
| Ribonuclease PH domain 2-like | Nucleic acid-binding proteins | 1 | 1 | |
| S-adenosylmethionine synthetase | S-adenosylmethionine synthetase | 1 | 1 | |
| DNA repair protein MutS, domain I | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | tRNA-binding arm | 1 | 1 | |
| Translation proteins | PRC-barrel domain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | SMR domain-like | 1 | 1 | |
| Phosphohistidine domain | Phosphoenolpyruvate/pyruvate domain | 1 | 1 | |
| Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains | Multidrug efflux transporter AcrB TolC docking domain; DN and DC subdomains | 1 | 1 | |
| Zinc beta-ribbon | DNA primase core | 1 | 1 | |
| Periplasmic binding protein-like II | Histidine-containing phosphotransfer domain, HPT domain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | C-terminal domain of alpha and beta subunits of F1 ATP synthase | 1 | 1 | |
| NAD(P)-binding Rossmann-fold domains | LDH C-terminal domain-like | 1 | 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 | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | MOP-like | 1 | 1 | |
| Periplasmic binding protein-like II | MetI-like | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Prokaryotic type KH domain (KH-domain type II) | 1 | 1 | |
| DNA repair protein MutS, domain I | DNA repair protein MutS, domain III | 1 | 1 | |
| GreA transcript cleavage protein, N-terminal domain | FKBP-like | 1 | 1 | |
| Cation efflux protein transmembrane domain-like | Cation efflux protein transmembrane domain-like | 1 | 1 | |
| Fe,Mn superoxide dismutase (SOD), N-terminal domain | Fe,Mn superoxide dismutase (SOD), C-terminal domain | 1 | 1 | |
| Periplasmic binding protein-like II | ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | post-AAA+ oligomerization domain-like | 1 | 1 | |
| Translation proteins | Initiation factor IF2/eIF5b, domain 3 | 1 | 1 | |
| HD-domain/PDEase-like | Nucleotidyltransferase | 1 | 1 | |
| E set domains | E set domains | 1 | 1 | |
| ThrRS/AlaRS common domain | Class II aaRS ABD-related | 1 | 1 | |
| Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | Nucleic acid-binding proteins | 1 | 1 | |
| Trigger factor ribosome-binding domain | Triger factor/SurA peptide-binding domain-like | 1 | 1 | |
| Mechanosensitive channel protein MscS (YggB), transmembrane region | Sm-like ribonucleoproteins | 1 | 1 | |
| Tubulin nucleotide-binding domain-like | Tubulin C-terminal domain-like | 1 | 1 | |
| DNA ligase/mRNA capping enzyme, catalytic domain | RuvA domain 2-like | 1 | 1 | |
| CheY-like | Homeodomain-like | 1 | 1 | |
| Transcription factor NusA, N-terminal domain | Nucleic acid-binding proteins | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | CarD-like | 1 | 1 | |
| Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain | Phosphoenolpyruvate/pyruvate domain | 1 | 1 | |
| Multidrug efflux transporter AcrB TolC docking domain; DN and DC subdomains | Multidrug efflux transporter AcrB transmembrane domain | 1 | 1 | |
| (Trans)glycosidases | Cyclophilin-like | 1 | 1 | |
| 5' to 3' exonuclease, C-terminal subdomain | Ribonuclease H-like | 1 | 1 | |
| Nucleotidylyl transferase | Nucleic acid-binding proteins | 1 | 1 | |
| "Winged helix" DNA-binding domain | Actin-like ATPase domain | 1 | 1 | |
| Aminoacid dehydrogenase-like, N-terminal domain | NAD(P)-binding Rossmann-fold domains | 1 | 1 | |
| dsRNA-binding domain-like | Ribosomal protein S5 domain 2-like | 1 | 1 | |
| Heat shock protein 70kD (HSP70), peptide-binding domain | Heat shock protein 70kD (HSP70), C-terminal subdomain | 1 | 1 | |
| Homodimeric domain of signal transducing histidine kinase | CheW-like | 1 | 1 | |
| HD-domain/PDEase-like | TGS-like | 1 | 1 | |
| UBA-like | Elongation factor Ts (EF-Ts), dimerisation domain | 1 | 1 | |
| TPR-like | vWA-like | 1 | 1 | |
| N-terminal domain of alpha and beta subunits of F1 ATP synthase | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| ParB/Sulfiredoxin | KorB DNA-binding domain-like | 1 | 1 | |
| PIN domain-like | DNA/RNA polymerases | 1 | 1 | |
| Eukaryotic type KH-domain (KH-domain type I) | HD-domain/PDEase-like | 1 | 1 | |
| N-utilization substance G protein NusG, N-terminal domain | Translation proteins SH3-like domain | 1 | 1 | |
| Oligoxyloglucan reducing end-specific cellobiohydrolase | (Trans)glycosidases | 1 | 1 | |
| Ribonuclease H-like | DNA/RNA polymerases | 1 | 1 | |
| FAD-binding/transporter-associated domain-like | Uridine diphospho-N-Acetylenolpyruvylglucosamine reductase, MurB, C-terminal domain | 1 | 1 | |
| Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains | Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains | 1 | 1 | |
| ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | CheY-like | 1 | 1 | |
| CheY-like | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| Obg GTP-binding protein N-terminal domain | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| Pre-protein crosslinking domain of SecA | Helical scaffold and wing domains of SecA | 1 | 1 | |
| Glucose permease domain IIB | Ferritin-like | 1 | 1 | |
| Ribonuclease PH domain 2-like | Eukaryotic type KH-domain (KH-domain type I) | 1 | 1 | |
| Ribosomal protein L7/12, oligomerisation (N-terminal) domain | ClpS-like | 1 | 1 | |
| ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | HSP90 C-terminal domain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | C-terminal UvrC-binding domain of UvrB | 1 | 1 | |
| ValRS/IleRS/LeuRS editing domain | tRNA-binding arm | 1 | 1 | |
| Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 1 | 1 | |
| Methionyl-tRNA synthetase (MetRS), Zn-domain | Nucleotidylyl transferase | 1 | 1 | |
| Ribosomal protein S5 domain 2-like | Ribonuclease PH domain 2-like | 1 | 1 | |
| Acyl-CoA N-acyltransferases (Nat) | Acyl-CoA N-acyltransferases (Nat) | 1 | 1 | |
| Methionyl-tRNA synthetase (MetRS), Zn-domain | Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 1 | 1 | |
| Ribosomal L11/L12e N-terminal domain | Ribosomal protein L11, C-terminal domain | 1 | 1 | |
| Nucleic acid-binding proteins | Prokaryotic type KH domain (KH-domain type II) | 1 | 1 | |
| Prokaryotic type KH domain (KH-domain type II) | Prokaryotic type KH domain (KH-domain type II) | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain | 1 | 1 | |
| Sm-like ribonucleoproteins | Mechanosensitive channel protein MscS (YggB), C-terminal domain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | TrpR-like | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | FtsH protease domain-like | 1 | 1 | |
| PDZ domain-like | ClpP/crotonase | 1 | 1 | |
| RuvA domain 2-like | BRCT domain | 1 | 1 | |
| Homodimeric domain of signal transducing histidine kinase | CheY-like | 1 | 1 | |
| Domain of the SRP/SRP receptor G-proteins | Signal peptide-binding domain | 1 | 1 | |
| Variable surface antigen VlsE | Variable surface antigen VlsE | 1 | 1 | |
| Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain | Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 1 | 1 | |
| beta-lactamase/transpeptidase-like | Penicillin-binding protein 2x (pbp-2x), c-terminal domain | 1 | 1 | |
| Eukaryotic type KH-domain (KH-domain type I) | Nucleic acid-binding proteins | 1 | 1 | |
| ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase | DNA mismatch repair protein MutL | 1 | 1 | |
| Nucleotidyltransferase | Poly A polymerase C-terminal region-like | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Restriction endonuclease-like | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Homeodomain-like | 1 | 1 | |
| GIY-YIG endonuclease | RuvA domain 2-like | 1 | 1 | |
| S-adenosyl-L-methionine-dependent methyltransferases | Putative methyltransferase TM0872, insert domain | 1 | 1 | |
| Chaperone J-domain | DnaJ/Hsp40 cysteine-rich domain | 1 | 1 | |
| TrmE connector domain | P-loop containing nucleoside triphosphate hydrolases | 1 | 1 | |
| Aspartate/glutamate racemase | Aspartate/glutamate racemase | 1 | 1 | |
| Class II aaRS and biotin synthetases | Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) | 1 | 1 | |
| CheW-like | S-adenosyl-L-methionine-dependent methyltransferases | 1 | 1 | |
| Methionyl-tRNA synthetase (MetRS), Zn-domain | Nucleic acid-binding proteins | 1 | 1 | |
| Multidrug efflux transporter AcrB TolC docking domain; DN and DC subdomains | Multidrug efflux transporter AcrB TolC docking domain; DN and DC subdomains | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Microbial and mitochondrial ADK, insert "zinc finger" domain | 1 | 1 | |
| P-loop containing nucleoside triphosphate hydrolases | Class I glutamine amidotransferase-like | 1 | 1 | |
| PIN domain-like | 5' to 3' exonuclease, C-terminal subdomain | 1 | 1 | |
