5MDG

The structure of the mature HIV-1 CA hexameric lattice with curvature parameters: tilt=29, twist=0

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)
A	Gag_p24_C	e5mdgA1	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_C	e5mdgB1	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 [auth F]	Gag_p24_C	e5mdgF1	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 [auth W]	Gag_p24_C	e5mdgW1	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 C]	Gag_p24_C	e5mdgC1	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 D]	Gag_p24_C	e5mdgD1	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 E]	Gag_p24_C	e5mdgE1	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 G]	Gag_p24_C	e5mdgG1	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 [auth a]	Gag_p24_N	e5mdga1	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 [auth b]	Gag_p24_N	e5mdgb1	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 f]	Gag_p24_N	e5mdgf1	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 H]	Gag_p24_N	e5mdgH1	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 I]	Gag_p24_N	e5mdgI1	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 J]	Gag_p24_N	e5mdgJ1	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 [auth F], D [auth W], H [auth C], A, B, C [auth F], D [auth W], H [auth C], I [auth D], J [auth E], K [auth G]	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
E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], N [auth J]	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C [auth F], D [auth W], H [auth C], A, B, C [auth F], D [auth W], H [auth C], I [auth D], J [auth E], K [auth G]	Gag protein	structural molecule activity cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding RNA binding organic cyclic compound binding nucleic acid binding	viral gene expression viral process viral translational frameshifting viral translation virion assembly viral budding viral budding via host ESCRT complex viral life cycle	virion component virion membrane host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle viral nucleocapsid viral capsid intracellular anatomical structure cytoplasm virion component virion membrane host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle viral nucleocapsid viral capsid intracellular anatomical structure cytoplasm host cell cytoplasm
E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], N [auth J]	Gag protein	structural molecule activity cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding RNA binding organic cyclic compound binding nucleic acid binding	viral gene expression viral process viral translational frameshifting viral translation virion assembly viral budding viral budding via host ESCRT complex viral life cycle	virion component virion membrane host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle viral nucleocapsid viral capsid intracellular anatomical structure cytoplasm virion component virion membrane host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host intracellular organelle viral nucleocapsid viral capsid intracellular anatomical structure cytoplasm host cell cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C [auth F], D [auth W], H [auth C], A, B, C [auth F], D [auth W], H [auth C], I [auth D], J [auth E], K [auth G]	IPR000071	Immunodeficiency lentiviral matrix, N-terminal	Domain
A, B, C [auth F], D [auth W], H [auth C], A, B, C [auth F], D [auth W], H [auth C], I [auth D], J [auth E], K [auth G]	IPR045345	Retroviral nucleocapsid Gag protein p24, C-terminal domain	Domain
A, B, C [auth F], D [auth W], H [auth C], A, B, C [auth F], D [auth W], H [auth C], I [auth D], J [auth E], K [auth G]	IPR036875	Zinc finger, CCHC-type superfamily	Homologous Superfamily
A, B, C [auth F], D [auth W], H [auth C], A, B, C [auth F], D [auth W], H [auth C], I [auth D], J [auth E], K [auth G]	IPR050195	Primate lentivirus group Gag polyprotein-like	Domain
A, B, C [auth F], D [auth W], H [auth C], A, B, C [auth F], D [auth W], H [auth C], I [auth D], J [auth E], K [auth G]	IPR001878	Zinc finger, CCHC-type	Domain
A, B, C [auth F], D [auth W], H [auth C], A, B, C [auth F], D [auth W], H [auth C], I [auth D], J [auth E], K [auth G]	IPR008919	Retrovirus capsid, N-terminal	Homologous Superfamily
A, B, C [auth F], D [auth W], H [auth C], A, B, C [auth F], D [auth W], H [auth C], I [auth D], J [auth E], K [auth G]	IPR010999	Retroviral matrix protein	Homologous Superfamily
A, B, C [auth F], D [auth W], H [auth C], A, B, C [auth F], D [auth W], H [auth C], I [auth D], J [auth E], K [auth G]	IPR012344	Matrix protein, lentiviral and alpha-retroviral, N-terminal	Homologous Superfamily
A, B, C [auth F], D [auth W], H [auth C], A, B, C [auth F], D [auth W], H [auth C], I [auth D], J [auth E], K [auth G]	IPR014817	Gag protein p6	Domain
A, B, C [auth F], D [auth W], H [auth C], A, B, C [auth F], D [auth W], H [auth C], I [auth D], J [auth E], K [auth G]	IPR008916	Retrovirus capsid, C-terminal	Homologous Superfamily
E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], N [auth J]	IPR000071	Immunodeficiency lentiviral matrix, N-terminal	Domain
E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], N [auth J]	IPR045345	Retroviral nucleocapsid Gag protein p24, C-terminal domain	Domain
E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], N [auth J]	IPR036875	Zinc finger, CCHC-type superfamily	Homologous Superfamily
E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], N [auth J]	IPR050195	Primate lentivirus group Gag polyprotein-like	Domain
E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], N [auth J]	IPR001878	Zinc finger, CCHC-type	Domain
E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], N [auth J]	IPR008919	Retrovirus capsid, N-terminal	Homologous Superfamily
E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], N [auth J]	IPR010999	Retroviral matrix protein	Homologous Superfamily
E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], N [auth J]	IPR012344	Matrix protein, lentiviral and alpha-retroviral, N-terminal	Homologous Superfamily
E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], N [auth J]	IPR014817	Gag protein p6	Domain
E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], E [auth a], F [auth b], G [auth f], L [auth H], M [auth I], N [auth J]	IPR008916	Retrovirus capsid, C-terminal	Homologous Superfamily

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.

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5MDG

The structure of the mature HIV-1 CA hexameric lattice with curvature parameters: tilt=29, twist=0

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage