8DVD
Cryo-EM structure of SIVmac239 SOS-2P Env trimer in complex with human bNAb PGT145
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
D [auth E] | GP120_2nd_1 | e8dvdE2 | A: beta barrels | X: V1/V2 domain in HIV gp120 (From Topology) | H: V1/V2 domain in HIV gp120 (From Topology) | T: V1/V2 domain in HIV gp120 | F: GP120_2nd_1 | ECOD (1.6) |
D [auth E] | GP120_3rd | e8dvdE3 | A: a+b two layers | X: Ribosomal protein L31e-like | H: Ribosomal protein L31e/gp120 outer domain (From Topology) | T: Ribosomal protein L31e/gp120 outer domain | F: GP120_3rd | ECOD (1.6) |
D [auth E] | GP120_1st | e8dvdE1 | A: a+b two layers | X: gp120 inner domain (From Topology) | H: gp120 inner domain (From Topology) | T: gp120 inner domain | F: GP120_1st | ECOD (1.6) |
E [auth F] | GP120_2nd_1 | e8dvdF1 | A: beta barrels | X: V1/V2 domain in HIV gp120 (From Topology) | H: V1/V2 domain in HIV gp120 (From Topology) | T: V1/V2 domain in HIV gp120 | F: GP120_2nd_1 | ECOD (1.6) |
E [auth F] | GP120_3rd | e8dvdF2 | A: a+b two layers | X: Ribosomal protein L31e-like | H: Ribosomal protein L31e/gp120 outer domain (From Topology) | T: Ribosomal protein L31e/gp120 outer domain | F: GP120_3rd | ECOD (1.6) |
E [auth F] | GP120_1st | e8dvdF3 | A: a+b two layers | X: gp120 inner domain (From Topology) | H: gp120 inner domain (From Topology) | T: gp120 inner domain | F: GP120_1st | ECOD (1.6) |
F [auth G] | GP120_2nd_1 | e8dvdG2 | A: beta barrels | X: V1/V2 domain in HIV gp120 (From Topology) | H: V1/V2 domain in HIV gp120 (From Topology) | T: V1/V2 domain in HIV gp120 | F: GP120_2nd_1 | ECOD (1.6) |
F [auth G] | GP120_3rd | e8dvdG1 | A: a+b two layers | X: Ribosomal protein L31e-like | H: Ribosomal protein L31e/gp120 outer domain (From Topology) | T: Ribosomal protein L31e/gp120 outer domain | F: GP120_3rd | ECOD (1.6) |
F [auth G] | GP120_1st | e8dvdG3 | A: a+b two layers | X: gp120 inner domain (From Topology) | H: gp120 inner domain (From Topology) | T: gp120 inner domain | F: GP120_1st | ECOD (1.6) |
H [auth L] | V-set | e8dvdL1 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: V-set | ECOD (1.6) |
SAbDab Antibody Annotation SAbDab Database Homepage
Chain | Chain Class | Chain Subclass | Chain Type | Antigen Name(s) | Provenance Source |
---|---|---|---|---|---|
G [auth H] | Heavy Chain | IGHV1 | - | envelope glycoprotein gp160 | envelope glycoprotein gp160 | envelope glycoprotein gp160 | SAbDab (2024-10-11) |
H [auth L] | Light Chain | IGKV2 | Kappa | envelope glycoprotein gp160 | envelope glycoprotein gp160 | envelope glycoprotein gp160 | SAbDab (2024-10-11) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF00517 | Retroviral envelope protein (GP41) | Retroviral envelope protein | - | Family | |
D [auth E], E [auth F], F [auth G] | PF00516 | Envelope glycoprotein GP120 (GP120) | Envelope glycoprotein GP120 | - | Family |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR000777 | Human immunodeficiency virus 1, envelope glycoprotein Gp120 | Domain | |
IPR036377 | Gp120 core superfamily | Homologous Superfamily | |
IPR000328 | Retroviral envelope protein GP41-like | Domain | |
D [auth E], E [auth F], F [auth G] | IPR000777 | Human immunodeficiency virus 1, envelope glycoprotein Gp120 | Domain |
D [auth E], E [auth F], F [auth G] | IPR036377 | Gp120 core superfamily | Homologous Superfamily |
D [auth E], E [auth F], F [auth G] | IPR000328 | Retroviral envelope protein GP41-like | Domain |
Protein Modification Annotation
Modified Residue(s) | ||
---|---|---|
Chain | Residue(s) | Description |
G [auth H] | TYS | Parent Component: TYR :  AA0172 :  O4'-sulfo-L-tyrosine MOD:00181 |