5MCX | pdb_00005mcx

The structure of the mature HIV-1 CA hexamer in intact virus particles

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	Gag_p24_C	e5mcxC2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
C	Gag_p24_N	e5mcxC1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
M [auth Z]	Gag_p24_C	e5mcxZ2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
M [auth Z]	Gag_p24_N	e5mcxZ1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
O [auth R]	Gag_p24_C	e5mcxR2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
O [auth R]	Gag_p24_N	e5mcxR1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
U [auth P]	Gag_p24_C	e5mcxP2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
U [auth P]	Gag_p24_N	e5mcxP1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
V [auth O]	Gag_p24_C	e5mcxO2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
V [auth O]	Gag_p24_N	e5mcxO1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
X [auth Y]	Gag_p24_C	e5mcxY2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
X [auth Y]	Gag_p24_N	e5mcxY1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
W [auth Q]	Gag_p24_C	e5mcxQ1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
W [auth Q]	Gag_p24_N	e5mcxQ2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
T [auth N]	Gag_p24_C	e5mcxN1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
T [auth N]	Gag_p24_N	e5mcxN2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
S [auth L]	Gag_p24_C	e5mcxL2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
S [auth L]	Gag_p24_N	e5mcxL1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
R [auth S]	Gag_p24_C	e5mcxS1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
R [auth S]	Gag_p24_N	e5mcxS2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
Q [auth G]	Gag_p24_C	e5mcxG1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
Q [auth G]	Gag_p24_N	e5mcxG2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
P [auth c]	Gag_p24_C	e5mcxc2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
P [auth c]	Gag_p24_N	e5mcxc1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
N [auth b]	Gag_p24_C	e5mcxb1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
N [auth b]	Gag_p24_N	e5mcxb2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
L [auth W]	Gag_p24_C	e5mcxW2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
L [auth W]	Gag_p24_N	e5mcxW1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
K [auth V]	Gag_p24_C	e5mcxV1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
K [auth V]	Gag_p24_N	e5mcxV2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
J [auth U]	Gag_p24_C	e5mcxU2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
J [auth U]	Gag_p24_N	e5mcxU1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
I [auth K]	Gag_p24_C	e5mcxK2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
I [auth K]	Gag_p24_N	e5mcxK1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
H [auth J]	Gag_p24_C	e5mcxJ2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
H [auth J]	Gag_p24_N	e5mcxJ1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
G [auth I]	Gag_p24_C	e5mcxI2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
G [auth I]	Gag_p24_N	e5mcxI1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
F	Gag_p24_C	e5mcxF2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
F	Gag_p24_N	e5mcxF1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
E	Gag_p24_C	e5mcxE2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
E	Gag_p24_N	e5mcxE1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
D	Gag_p24_C	e5mcxD2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
D	Gag_p24_N	e5mcxD1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
B	Gag_p24_C	e5mcxB2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
B	Gag_p24_N	e5mcxB1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)
A	Gag_p24_C	e5mcxA1	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein-C (From Topology)	T: Retrovirus capsid protein-C	F: Gag_p24_C	ECOD (1.6)
A	Gag_p24_N	e5mcxA2	A: alpha bundles	X: Retrovirus capsid protein	H: Retrovirus capsid protein N-terminal domain (From Topology)	T: Retrovirus capsid protein N-terminal domain	F: Gag_p24_N	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E, A, B, C, D, E, F, G [auth I], H [auth J], I [auth K], J [auth U], K [auth V], L [auth W], M [auth Z], N [auth b], O [auth R], P [auth c], Q [auth G], R [auth S], S [auth L], T [auth N], U [auth P], V [auth O], W [auth Q], X [auth Y]	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, C, D, E, A, B, C, D, E, F, G [auth I], H [auth J], I [auth K], J [auth U], K [auth V], L [auth W], M [auth Z], N [auth b], O [auth R], P [auth c], Q [auth G], R [auth S], S [auth L], T [auth N], U [auth P], V [auth O], W [auth Q], X [auth Y]	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, C, D, E, A, B, C, D, E, F, G [auth I], H [auth J], I [auth K], J [auth U], K [auth V], L [auth W], M [auth Z], N [auth b], O [auth R], P [auth c], Q [auth G], R [auth S], S [auth L], T [auth N], U [auth P], V [auth O], W [auth Q], X [auth Y]	Capsid protein p24	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding structural molecule activity cation binding transition metal ion binding zinc ion binding metal ion binding RNA binding nucleic acid binding	viral gene expression viral process viral translational frameshifting viral translation	host intracellular membrane-bounded organelle host cellular component host intracellular part host multivesicular body other organism part host cell cytoplasm part host intracellular organelle cellular anatomical structure host cell cytoplasm host cell part host cell late endosome host cell endosome host intracellular region membrane host intracellular membrane-bounded organelle host cellular component host intracellular part host multivesicular body other organism part host cell cytoplasm part host intracellular organelle cellular anatomical structure host cell cytoplasm host cell part host cell late endosome host cell endosome host intracellular region membrane virion component virion membrane host cell nucleus host cell plasma membrane host cell membrane viral nucleocapsid viral capsid

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E, A, B, C, D, E, F, G [auth I], H [auth J], I [auth K], J [auth U], K [auth V], L [auth W], M [auth Z], N [auth b], O [auth R], P [auth c], Q [auth G], R [auth S], S [auth L], T [auth N], U [auth P], V [auth O], W [auth Q], X [auth Y]	IPR000071	Immunodeficiency lentiviral matrix, N-terminal	Domain
A, B, C, D, E, A, B, C, D, E, F, G [auth I], H [auth J], I [auth K], J [auth U], K [auth V], L [auth W], M [auth Z], N [auth b], O [auth R], P [auth c], Q [auth G], R [auth S], S [auth L], T [auth N], U [auth P], V [auth O], W [auth Q], X [auth Y]	IPR045345	Retroviral nucleocapsid Gag protein p24, C-terminal domain	Domain
A, B, C, D, E, A, B, C, D, E, F, G [auth I], H [auth J], I [auth K], J [auth U], K [auth V], L [auth W], M [auth Z], N [auth b], O [auth R], P [auth c], Q [auth G], R [auth S], S [auth L], T [auth N], U [auth P], V [auth O], W [auth Q], X [auth Y]	IPR036875	Zinc finger, CCHC-type superfamily	Homologous Superfamily
A, B, C, D, E, A, B, C, D, E, F, G [auth I], H [auth J], I [auth K], J [auth U], K [auth V], L [auth W], M [auth Z], N [auth b], O [auth R], P [auth c], Q [auth G], R [auth S], S [auth L], T [auth N], U [auth P], V [auth O], W [auth Q], X [auth Y]	IPR050195	Primate lentivirus group Gag polyprotein-like	Domain
A, B, C, D, E, A, B, C, D, E, F, G [auth I], H [auth J], I [auth K], J [auth U], K [auth V], L [auth W], M [auth Z], N [auth b], O [auth R], P [auth c], Q [auth G], R [auth S], S [auth L], T [auth N], U [auth P], V [auth O], W [auth Q], X [auth Y]	IPR001878	Zinc finger, CCHC-type	Domain
A, B, C, D, E, A, B, C, D, E, F, G [auth I], H [auth J], I [auth K], J [auth U], K [auth V], L [auth W], M [auth Z], N [auth b], O [auth R], P [auth c], Q [auth G], R [auth S], S [auth L], T [auth N], U [auth P], V [auth O], W [auth Q], X [auth Y]	IPR008919	Retrovirus capsid, N-terminal	Homologous Superfamily
A, B, C, D, E, A, B, C, D, E, F, G [auth I], H [auth J], I [auth K], J [auth U], K [auth V], L [auth W], M [auth Z], N [auth b], O [auth R], P [auth c], Q [auth G], R [auth S], S [auth L], T [auth N], U [auth P], V [auth O], W [auth Q], X [auth Y]	IPR010999	Retroviral matrix protein	Homologous Superfamily
A, B, C, D, E, A, B, C, D, E, F, G [auth I], H [auth J], I [auth K], J [auth U], K [auth V], L [auth W], M [auth Z], N [auth b], O [auth R], P [auth c], Q [auth G], R [auth S], S [auth L], T [auth N], U [auth P], V [auth O], W [auth Q], X [auth Y]	IPR012344	Matrix protein, lentiviral and alpha-retroviral, N-terminal	Homologous Superfamily
A, B, C, D, E, A, B, C, D, E, F, G [auth I], H [auth J], I [auth K], J [auth U], K [auth V], L [auth W], M [auth Z], N [auth b], O [auth R], P [auth c], Q [auth G], R [auth S], S [auth L], T [auth N], U [auth P], V [auth O], W [auth Q], X [auth Y]	IPR008916	Retrovirus capsid, C-terminal	Homologous Superfamily