6SSM
Human endogenous retrovirus (HML2) mature capsid assembly, T=3 icosahedron
Domain Annotation: ECOD Classification ECOD Database Homepage
| Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
|---|---|---|---|---|---|---|---|---|
| A | PF19317 | e6ssmA1 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein-C (From Topology) | T: Retrovirus capsid protein-C | F: PF19317 | ECOD (1.6) |
| A | PF00607 | e6ssmA2 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein N-terminal domain (From Topology) | T: Retrovirus capsid protein N-terminal domain | F: PF00607 | ECOD (1.6) |
| B [auth C] | PF19317 | e6ssmC1 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein-C (From Topology) | T: Retrovirus capsid protein-C | F: PF19317 | ECOD (1.6) |
| B [auth C] | PF00607 | e6ssmC2 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein N-terminal domain (From Topology) | T: Retrovirus capsid protein N-terminal domain | F: PF00607 | ECOD (1.6) |
| C [auth B] | PF19317 | e6ssmB2 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein-C (From Topology) | T: Retrovirus capsid protein-C | F: PF19317 | ECOD (1.6) |
| C [auth B] | PF00607 | e6ssmB1 | A: alpha bundles | X: Retrovirus capsid protein | H: Retrovirus capsid protein N-terminal domain (From Topology) | T: Retrovirus capsid protein N-terminal domain | F: PF00607 | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
| Chains | Accession | Name | Description | Comments | Source |
|---|---|---|---|---|---|
| A, B [auth C], C [auth B] | PF00607 | gag protein p24 N-terminal domain (Gag_p24) | gag protein p24 N-terminal domain | p24 forms inner protein layer of the nucleocapsid. ELISA tests for p24 is the most commonly used method to demonstrate virus replication both in vivo and in vitro. | Domain |
| A, B [auth C], C [auth B] | PF19317 | Gag protein p24 C-terminal domain (Gag_p24_C) | Gag protein p24 C-terminal domain | p24 forms inner protein layer of the nucleocapsid. ELISA tests for p24 is the most commonly used method to demonstrate virus replication both in vivo and in vitro. | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
| Chains | Polymer | Molecular Function | Biological Process | Cellular Component |
|---|---|---|---|---|
| A, B [auth C], C [auth B] | Endogenous retrovirus group K member 24 Gag polyprotein |
InterPro: Protein Family Classification InterPro Database Homepage
| Chains | Accession | Name | Type |
|---|---|---|---|
| A, B [auth C], C [auth B] | IPR045345 | Retroviral nucleocapsid Gag protein p24, C-terminal domain | Domain |
| A, B [auth C], C [auth B] | IPR036875 | Zinc finger, CCHC-type superfamily | Homologous Superfamily |
| A, B [auth C], C [auth B] | IPR038124 | Beta-retroviral matrix superfamily | Homologous Superfamily |
| A, B [auth C], C [auth B] | IPR003322 | Beta-retroviral matrix protein | Domain |
| A, B [auth C], C [auth B] | IPR001878 | Zinc finger, CCHC-type | Domain |
| A, B [auth C], C [auth B] | IPR008919 | Retrovirus capsid, N-terminal | Homologous Superfamily |
| A, B [auth C], C [auth B] | IPR010999 | Retroviral matrix protein | Homologous Superfamily |
| A, B [auth C], C [auth B] | IPR008916 | Retrovirus capsid, C-terminal | Homologous Superfamily |
