5MD2 | pdb_00005md2

The structure of the mature HIV-1 CA hexameric lattice with curvature parameters: tilt=5, twist=-6

External Resource: Annotation


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
N [auth J]Gag_p24_Ne5md2J1 A: alpha bundlesX: Retrovirus capsid proteinH: Retrovirus capsid protein N-terminal domain (From Topology)T: Retrovirus capsid protein N-terminal domainF: Gag_p24_NECOD (1.6)
M [auth I]Gag_p24_Ne5md2I1 A: alpha bundlesX: Retrovirus capsid proteinH: Retrovirus capsid protein N-terminal domain (From Topology)T: Retrovirus capsid protein N-terminal domainF: Gag_p24_NECOD (1.6)
L [auth H]Gag_p24_Ne5md2H1 A: alpha bundlesX: Retrovirus capsid proteinH: Retrovirus capsid protein N-terminal domain (From Topology)T: Retrovirus capsid protein N-terminal domainF: Gag_p24_NECOD (1.6)
G [auth f]Gag_p24_Ne5md2f1 A: alpha bundlesX: Retrovirus capsid proteinH: Retrovirus capsid protein N-terminal domain (From Topology)T: Retrovirus capsid protein N-terminal domainF: Gag_p24_NECOD (1.6)
F [auth b]Gag_p24_Ne5md2b1 A: alpha bundlesX: Retrovirus capsid proteinH: Retrovirus capsid protein N-terminal domain (From Topology)T: Retrovirus capsid protein N-terminal domainF: Gag_p24_NECOD (1.6)
E [auth a]Gag_p24_Ne5md2a1 A: alpha bundlesX: Retrovirus capsid proteinH: Retrovirus capsid protein N-terminal domain (From Topology)T: Retrovirus capsid protein N-terminal domainF: Gag_p24_NECOD (1.6)
K [auth G]Gag_p24_Ce5md2G1 A: alpha bundlesX: Retrovirus capsid proteinH: Retrovirus capsid protein-C (From Topology)T: Retrovirus capsid protein-CF: Gag_p24_CECOD (1.6)
J [auth E]Gag_p24_Ce5md2E1 A: alpha bundlesX: Retrovirus capsid proteinH: Retrovirus capsid protein-C (From Topology)T: Retrovirus capsid protein-CF: Gag_p24_CECOD (1.6)
I [auth D]Gag_p24_Ce5md2D1 A: alpha bundlesX: Retrovirus capsid proteinH: Retrovirus capsid protein-C (From Topology)T: Retrovirus capsid protein-CF: Gag_p24_CECOD (1.6)
H [auth C]Gag_p24_Ce5md2C1 A: alpha bundlesX: Retrovirus capsid proteinH: Retrovirus capsid protein-C (From Topology)T: Retrovirus capsid protein-CF: Gag_p24_CECOD (1.6)
D [auth W]Gag_p24_Ce5md2W1 A: alpha bundlesX: Retrovirus capsid proteinH: Retrovirus capsid protein-C (From Topology)T: Retrovirus capsid protein-CF: Gag_p24_CECOD (1.6)
C [auth F]Gag_p24_Ce5md2F1 A: alpha bundlesX: Retrovirus capsid proteinH: Retrovirus capsid protein-C (From Topology)T: Retrovirus capsid protein-CF: Gag_p24_CECOD (1.6)
BGag_p24_Ce5md2B1 A: alpha bundlesX: Retrovirus capsid proteinH: Retrovirus capsid protein-C (From Topology)T: Retrovirus capsid protein-CF: Gag_p24_CECOD (1.6)
AGag_p24_Ce5md2A1 A: alpha bundlesX: Retrovirus capsid proteinH: Retrovirus capsid protein-C (From Topology)T: Retrovirus capsid protein-CF: Gag_p24_CECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF00607gag protein p24 N-terminal domain (Gag_p24)gag protein p24 N-terminal domainp24 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
PF19317Gag protein p24 C-terminal domain (Gag_p24_C)Gag protein p24 C-terminal domainp24 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

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
Capsid protein p24 N-terminal domain
Capsid protein p24 C-terminal domain

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR000071Immunodeficiency lentiviral matrix, N-terminalDomain
IPR045345Retroviral nucleocapsid Gag protein p24, C-terminal domainDomain
IPR036875Zinc finger, CCHC-type superfamilyHomologous Superfamily
IPR050195Primate lentivirus group Gag polyprotein-likeDomain
IPR001878Zinc finger, CCHC-typeDomain
IPR008919Retrovirus capsid, N-terminalHomologous Superfamily
IPR010999Retroviral matrix proteinHomologous Superfamily
IPR012344Matrix protein, lentiviral and alpha-retroviral, N-terminalHomologous Superfamily
IPR014817Gag protein p6Domain
IPR008916Retrovirus capsid, C-terminalHomologous Superfamily
IPR000071Immunodeficiency lentiviral matrix, N-terminalDomain
IPR045345Retroviral nucleocapsid Gag protein p24, C-terminal domainDomain
IPR036875Zinc finger, CCHC-type superfamilyHomologous Superfamily
IPR050195Primate lentivirus group Gag polyprotein-likeDomain
IPR001878Zinc finger, CCHC-typeDomain
IPR008919Retrovirus capsid, N-terminalHomologous Superfamily
IPR010999Retroviral matrix proteinHomologous Superfamily
IPR012344Matrix protein, lentiviral and alpha-retroviral, N-terminalHomologous Superfamily
IPR014817Gag protein p6Domain
IPR008916Retrovirus capsid, C-terminalHomologous Superfamily