4V4U | pdb_00004v4u

The quasi-atomic model of Human Adenovirus type 5 capsid

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
V [auth Q]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038150	3001214	SCOP2B (2022-06-29)
V [auth Q]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038153	3001214	SCOP2B (2022-06-29)
U [auth P]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038150	3001214	SCOP2B (2022-06-29)
U [auth P]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038153	3001214	SCOP2B (2022-06-29)
T [auth O]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038150	3001214	SCOP2B (2022-06-29)
T [auth O]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038153	3001214	SCOP2B (2022-06-29)
S [auth N]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038153	3001214	SCOP2B (2022-06-29)
S [auth N]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038150	3001214	SCOP2B (2022-06-29)
R [auth M]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038153	3001214	SCOP2B (2022-06-29)
R [auth M]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038150	3001214	SCOP2B (2022-06-29)
Q [auth L]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038150	3001214	SCOP2B (2022-06-29)
Q [auth L]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038153	3001214	SCOP2B (2022-06-29)
P [auth K]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038153	3001214	SCOP2B (2022-06-29)
P [auth K]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038150	3001214	SCOP2B (2022-06-29)
O [auth J]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038153	3001214	SCOP2B (2022-06-29)
O [auth J]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038150	3001214	SCOP2B (2022-06-29)
N [auth I]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038150	3001214	SCOP2B (2022-06-29)
N [auth I]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038153	3001214	SCOP2B (2022-06-29)
M [auth H]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038150	3001214	SCOP2B (2022-06-29)
M [auth H]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038153	3001214	SCOP2B (2022-06-29)
L [auth G]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038153	3001214	SCOP2B (2022-06-29)
L [auth G]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038150	3001214	SCOP2B (2022-06-29)
K [auth F]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038150	3001214	SCOP2B (2022-06-29)
K [auth F]	SCOP2B Superfamily	Group II dsDNA viruses VP	8038153	3001214	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
V [auth Q]	Adeno_hexon	e4v4uQ2	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon	ECOD (1.6)
V [auth Q]	Adeno_hexon_C	e4v4uQ1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon_C	ECOD (1.6)
U [auth P]	Adeno_hexon	e4v4uP2	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon	ECOD (1.6)
U [auth P]	Adeno_hexon_C	e4v4uP1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon_C	ECOD (1.6)
T [auth O]	Adeno_hexon	e4v4uO2	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon	ECOD (1.6)
T [auth O]	Adeno_hexon_C	e4v4uO1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon_C	ECOD (1.6)
S [auth N]	Adeno_hexon	e4v4uN2	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon	ECOD (1.6)
S [auth N]	Adeno_hexon_C	e4v4uN1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon_C	ECOD (1.6)
R [auth M]	Adeno_hexon	e4v4uM2	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon	ECOD (1.6)
R [auth M]	Adeno_hexon_C	e4v4uM1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon_C	ECOD (1.6)
Q [auth L]	Adeno_hexon	e4v4uL2	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon	ECOD (1.6)
Q [auth L]	Adeno_hexon_C	e4v4uL1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon_C	ECOD (1.6)
P [auth K]	Adeno_hexon	e4v4uK2	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon	ECOD (1.6)
P [auth K]	Adeno_hexon_C	e4v4uK1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon_C	ECOD (1.6)
O [auth J]	Adeno_hexon	e4v4uJ2	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon	ECOD (1.6)
O [auth J]	Adeno_hexon_C	e4v4uJ1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon_C	ECOD (1.6)
N [auth I]	Adeno_hexon	e4v4uI2	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon	ECOD (1.6)
N [auth I]	Adeno_hexon_C	e4v4uI1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon_C	ECOD (1.6)
M [auth H]	Adeno_hexon	e4v4uH2	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon	ECOD (1.6)
M [auth H]	Adeno_hexon_C	e4v4uH1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon_C	ECOD (1.6)
L [auth G]	Adeno_hexon	e4v4uG2	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon	ECOD (1.6)
L [auth G]	Adeno_hexon_C	e4v4uG1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon_C	ECOD (1.6)
K [auth F]	Adeno_hexon	e4v4uF2	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon	ECOD (1.6)
K [auth F]	Adeno_hexon_C	e4v4uF1	A: beta sandwiches	X: jelly-roll	H: Nucleoplasmin-like/VP (viral coat and capsid proteins) (From Topology)	T: Nucleoplasmin-like/VP (viral coat and capsid proteins)	F: Adeno_hexon_C	ECOD (1.6)
E	Adeno_Penton_B_2nd	e4v4uE2	A: beta sandwiches	X: jelly-roll	H: Jelly-roll domain in Adenovirus penton base protein (From Topology)	T: Jelly-roll domain in Adenovirus penton base protein	F: Adeno_Penton_B_2nd	ECOD (1.6)
E	Adeno_Penton_B_1st	e4v4uE1	A: a+b complex topology	X: Insertion domain in Adenovirus penton base protein (From Topology)	H: Insertion domain in Adenovirus penton base protein (From Topology)	T: Insertion domain in Adenovirus penton base protein	F: Adeno_Penton_B_1st	ECOD (1.6)
D	Adeno_Penton_B_2nd	e4v4uD2	A: beta sandwiches	X: jelly-roll	H: Jelly-roll domain in Adenovirus penton base protein (From Topology)	T: Jelly-roll domain in Adenovirus penton base protein	F: Adeno_Penton_B_2nd	ECOD (1.6)
D	Adeno_Penton_B_1st	e4v4uD1	A: a+b complex topology	X: Insertion domain in Adenovirus penton base protein (From Topology)	H: Insertion domain in Adenovirus penton base protein (From Topology)	T: Insertion domain in Adenovirus penton base protein	F: Adeno_Penton_B_1st	ECOD (1.6)
C	Adeno_Penton_B_2nd	e4v4uC2	A: beta sandwiches	X: jelly-roll	H: Jelly-roll domain in Adenovirus penton base protein (From Topology)	T: Jelly-roll domain in Adenovirus penton base protein	F: Adeno_Penton_B_2nd	ECOD (1.6)
C	Adeno_Penton_B_1st	e4v4uC1	A: a+b complex topology	X: Insertion domain in Adenovirus penton base protein (From Topology)	H: Insertion domain in Adenovirus penton base protein (From Topology)	T: Insertion domain in Adenovirus penton base protein	F: Adeno_Penton_B_1st	ECOD (1.6)
B	Adeno_Penton_B_2nd	e4v4uB2	A: beta sandwiches	X: jelly-roll	H: Jelly-roll domain in Adenovirus penton base protein (From Topology)	T: Jelly-roll domain in Adenovirus penton base protein	F: Adeno_Penton_B_2nd	ECOD (1.6)
B	Adeno_Penton_B_1st	e4v4uB1	A: a+b complex topology	X: Insertion domain in Adenovirus penton base protein (From Topology)	H: Insertion domain in Adenovirus penton base protein (From Topology)	T: Insertion domain in Adenovirus penton base protein	F: Adeno_Penton_B_1st	ECOD (1.6)
A	Adeno_Penton_B_2nd	e4v4uA2	A: beta sandwiches	X: jelly-roll	H: Jelly-roll domain in Adenovirus penton base protein (From Topology)	T: Jelly-roll domain in Adenovirus penton base protein	F: Adeno_Penton_B_2nd	ECOD (1.6)
A	Adeno_Penton_B_1st	e4v4uA1	A: a+b complex topology	X: Insertion domain in Adenovirus penton base protein (From Topology)	H: Insertion domain in Adenovirus penton base protein (From Topology)	T: Insertion domain in Adenovirus penton base protein	F: Adeno_Penton_B_1st	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
K [auth F], L [auth G], M [auth H], N [auth I], O [auth J], K [auth F], L [auth G], M [auth H], N [auth I], O [auth J], P [auth K], Q [auth L], R [auth M], S [auth N], T [auth O], U [auth P], V [auth Q]	PF01065	Hexon, adenovirus major coat protein, N-terminal domain (Adeno_hexon)	Hexon, adenovirus major coat protein, N-terminal domain	Hexon is the major coat protein from adenovirus type 2. Hexon forms a homo-trimer. The 240 copies of the hexon trimer are organised so that 12 lie on each of the 20 facets. The central 9 hexons in a facet are cemented together by 12 copies of polype ...	Hexon is the major coat protein from adenovirus type 2. Hexon forms a homo-trimer. The 240 copies of the hexon trimer are organised so that 12 lie on each of the 20 facets. The central 9 hexons in a facet are cemented together by 12 copies of polypeptide IX. The penton complex, formed by the peripentonal hexons and base hexon (holding in place a fibre), lie at each of the 12 vertices [1]. The N and C-terminal domains adopt the same PNGase F-like fold although they are significantly different in length.	Domain
K [auth F], L [auth G], M [auth H], N [auth I], O [auth J], K [auth F], L [auth G], M [auth H], N [auth I], O [auth J], P [auth K], Q [auth L], R [auth M], S [auth N], T [auth O], U [auth P], V [auth Q]	PF03678	Hexon, adenovirus major coat protein, C-terminal domain (Adeno_hexon_C)	Hexon, adenovirus major coat protein, C-terminal domain	Hexon is the major coat protein from adenovirus type 2. Hexon forms a homo-trimer. The 240 copies of the hexon trimer are organised so that 12 lie on each of the 20 facets. The central 9 hexons in a facet are cemented together by 12 copies of polype ...	Hexon is the major coat protein from adenovirus type 2. Hexon forms a homo-trimer. The 240 copies of the hexon trimer are organised so that 12 lie on each of the 20 facets. The central 9 hexons in a facet are cemented together by 12 copies of polypeptide IX. The penton complex, formed by the peripentonal hexons and base hexon (holding in place a fibre), lie at each of the 12 vertices [1]. The N and C-terminal domains adopt the same PNGase F-like fold although they are significantly different in length.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
K [auth F], L [auth G], M [auth H], N [auth I], O [auth J], K [auth F], L [auth G], M [auth H], N [auth I], O [auth J], P [auth K], Q [auth L], R [auth M], S [auth N], T [auth O], U [auth P], V [auth Q]	HEXON PROTEIN	structural molecule activity	biological process involved in interspecies interaction between organisms microtubule-dependent intracellular transport of viral material microtubule-dependent intracellular transport of viral material towards nucleus intracellular transport of virus viral process viral life cycle transport of virus transport of viral material towards nucleus biological process involved in symbiotic interaction symbiont entry into host cell symbiont entry into host biological process involved in interaction with host	host cellular component cellular anatomical structure host cell other organism part viral capsid virion component host intracellular membrane-bounded organelle host intracellular part host cell part host intracellular region host cell nucleus host intracellular organelle icosahedral viral capsid T=25 icosahedral viral capsid
F [auth S], G [auth T], H [auth U], I [auth V], J [auth W]	N-TERMINAL PEPTIDE OF FIBER PROTEIN	-	virion attachment to host cell biological process involved in interspecies interaction between organisms receptor-mediated virion attachment to host cell adhesion of symbiont to host cell viral process viral life cycle adhesion of symbiont to host adhesion receptor-mediated virion attachment to host cell biological process involved in interaction with host biological process involved in symbiotic interaction cell adhesion cellular process symbiont entry into host cell symbiont entry into host	viral capsid virion component host intracellular membrane-bounded organelle host cellular component host intracellular part cellular anatomical structure host cell part host intracellular region host cell nucleus other organism part host intracellular organelle
A, B, C, D, E	PENTON PROTEIN	structural molecule activity	import into cell receptor-mediated endocytosis of virus by host cell biological process involved in interspecies interaction between organisms transport viral life cycle establishment of localization vesicle-mediated transport biological process involved in interaction with host biological process involved in symbiotic interaction localization symbiont entry into host cell clathrin-dependent endocytosis viral process symbiont entry into host import into cell receptor-mediated endocytosis of virus by host cell biological process involved in interspecies interaction between organisms transport viral life cycle establishment of localization vesicle-mediated transport biological process involved in interaction with host biological process involved in symbiotic interaction localization symbiont entry into host cell clathrin-dependent endocytosis viral process symbiont entry into host cellular process clathrin-dependent endocytosis of virus by host cell receptor-mediated endocytosis endocytosis endocytosis involved in viral entry into host cell virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host	host intracellular membrane-bounded organelle host cellular component host intracellular part cellular anatomical structure host cell part host intracellular region host cell nucleus other organism part host intracellular organelle viral capsid icosahedral viral capsid virion component T=25 icosahedral viral capsid

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
K [auth F], L [auth G], M [auth H], N [auth I], O [auth J], K [auth F], L [auth G], M [auth H], N [auth I], O [auth J], P [auth K], Q [auth L], R [auth M], S [auth N], T [auth O], U [auth P], V [auth Q]	IPR044942	Adenovirus Pll, hexon, subdomain 2	Homologous Superfamily
K [auth F], L [auth G], M [auth H], N [auth I], O [auth J], K [auth F], L [auth G], M [auth H], N [auth I], O [auth J], P [auth K], Q [auth L], R [auth M], S [auth N], T [auth O], U [auth P], V [auth Q]	IPR016107	Adenovirus Pll, hexon, N-terminal	Domain
K [auth F], L [auth G], M [auth H], N [auth I], O [auth J], K [auth F], L [auth G], M [auth H], N [auth I], O [auth J], P [auth K], Q [auth L], R [auth M], S [auth N], T [auth O], U [auth P], V [auth Q]	IPR016108	Adenovirus Pll, hexon, C-terminal	Domain
K [auth F], L [auth G], M [auth H], N [auth I], O [auth J], K [auth F], L [auth G], M [auth H], N [auth I], O [auth J], P [auth K], Q [auth L], R [auth M], S [auth N], T [auth O], U [auth P], V [auth Q]	IPR016112	Group II dsDNA virus coat/capsid protein	Homologous Superfamily
K [auth F], L [auth G], M [auth H], N [auth I], O [auth J], K [auth F], L [auth G], M [auth H], N [auth I], O [auth J], P [auth K], Q [auth L], R [auth M], S [auth N], T [auth O], U [auth P], V [auth Q]	IPR037542	Adenovirus hexon protein	Family
F [auth S], G [auth T], H [auth U], I [auth V], J [auth W]	IPR009013	Attachment protein shaft domain superfamily	Homologous Superfamily
F [auth S], G [auth T], H [auth U], I [auth V], J [auth W]	IPR000978	Adenoviral fibre protein, knob	Domain
F [auth S], G [auth T], H [auth U], I [auth V], J [auth W]	IPR008982	Adenovirus pIV-like, attachment domain	Homologous Superfamily
F [auth S], G [auth T], H [auth U], I [auth V], J [auth W]	IPR000931	Adenovirus fibre protein	Family
F [auth S], G [auth T], H [auth U], I [auth V], J [auth W]	IPR000939	Adenoviral fibre protein, repeat/shaft region	Repeat
A, B, C, D, E	IPR002605	Adenovirus penton base protein	Family