7RD1 | pdb_00007rd1

The Capsid Structure of the ChAdOx1 viral vector/chimpanzee adenovirus Y25

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)
DA [auth R]	Hex_IIIa	e7rd1R1	A: alpha arrays	X: N-terminal domain of hexon-associated protein (IIIa) (From Topology)	H: N-terminal domain of hexon-associated protein (IIIa) (From Topology)	T: N-terminal domain of hexon-associated protein (IIIa)	F: Hex_IIIa	ECOD (1.6)
Y [auth M]	Adeno_Penton_B_2nd	e7rd1M2	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)
Y [auth M]	Adeno_Penton_B_1st	e7rd1M1	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)
X [auth L]	Adeno_hexon	e7rd1L1	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)
X [auth L]	Adeno_hexon_C	e7rd1L2	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)
W [auth K]	Adeno_hexon	e7rd1K1	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)
W [auth K]	Adeno_hexon_C	e7rd1K2	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)
V [auth J]	Adeno_hexon	e7rd1J1	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 J]	Adeno_hexon_C	e7rd1J2	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 I]	Adeno_hexon	e7rd1I1	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 I]	Adeno_hexon_C	e7rd1I2	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 H]	Adeno_hexon	e7rd1H1	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 H]	Adeno_hexon_C	e7rd1H2	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 G]	Adeno_hexon	e7rd1G1	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 G]	Adeno_hexon_C	e7rd1G2	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 F]	Adeno_hexon	e7rd1F1	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 F]	Adeno_hexon_C	e7rd1F2	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 E]	Adeno_hexon	e7rd1E1	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 E]	Adeno_hexon_C	e7rd1E2	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 D]	Adeno_hexon	e7rd1D1	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 D]	Adeno_hexon_C	e7rd1D2	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 C]	Adeno_hexon	e7rd1C1	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 C]	Adeno_hexon_C	e7rd1C2	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 B]	Adeno_hexon	e7rd1B1	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 B]	Adeno_hexon_C	e7rd1B2	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 A]	Adeno_hexon	e7rd1A1	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 A]	Adeno_hexon_C	e7rd1A2	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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
EA [auth S], FA [auth T]	PF01310	Adenovirus hexon associated protein, protein VIII (Adeno_PVIII)	Adenovirus hexon associated protein, protein VIII	-	Family
DA [auth R]	PF02455	Hexon-associated protein (IIIa) (Hex_IIIa)	Hexon-associated protein (IIIa)	-	Family
AA [auth O], BA [auth P], CA [auth Q], Z [auth N]	PF03955	Adenovirus hexon-associated protein (IX) (Adeno_PIX)	Adenovirus hexon-associated protein (IX)	-	Family
M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], R [auth F], S [auth G], T [auth H], U [auth I], V [auth J], W [auth K], X [auth L]	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
M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], R [auth F], S [auth G], T [auth H], U [auth I], V [auth J], W [auth K], X [auth L]	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
A [auth 0], B [auth U], C [auth 1], D [auth V], E [auth 2], A [auth 0], B [auth U], C [auth 1], D [auth V], E [auth 2], F [auth W], G [auth 3], H [auth X], I [auth 4], J [auth Y], K [auth 8], L [auth Z]	PF02993	Minor capsid protein VI (MCPVI)	Minor capsid protein VI	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
EA [auth S], FA [auth T]	Pre-hexon-linking protein VIII	hexon binding protein binding binding	-	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
DA [auth R]	Pre-hexon-linking protein IIIa	-	-	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 virion component viral capsid, decoration
AA [auth O], BA [auth P], CA [auth Q], Z [auth N]	Hexon-interlacing protein	hexon binding protein binding binding	biological process involved in interspecies interaction between organisms symbiont entry into host cell viral process symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction	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 virion component viral capsid, decoration
Y [auth M]	Penton protein	structural molecule activity	virion attachment to host cell biological process involved in interspecies interaction between organisms adhesion of symbiont to host cell viral process viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell symbiont entry into host endocytosis involved in viral entry into host cell	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
M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], R [auth F], S [auth G], T [auth H], U [auth I], V [auth J], W [auth K], X [auth L]	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 host intracellular membrane-bounded organelle host intracellular part host cell part host intracellular region host cell nucleus host intracellular organelle viral capsid icosahedral viral capsid virion component T=25 icosahedral viral capsid
A [auth 0], B [auth U], C [auth 1], D [auth V], E [auth 2], A [auth 0], B [auth U], C [auth 1], D [auth V], E [auth 2], F [auth W], G [auth 3], H [auth X], I [auth 4], J [auth Y], K [auth 8], L [auth Z]	Pre-protein VI	-	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 lysis of host organelle involved in viral entry into host cell biological process involved in interaction with host exit from host cell 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 lysis of host organelle involved in viral entry into host cell biological process involved in interaction with host exit from host cell viral release from host cell	host cellular component cellular anatomical structure host cell other organism part viral capsid virion component viral procapsid host intracellular membrane-bounded organelle host intracellular part host cell part host intracellular region host cell nucleus host intracellular organelle host cell cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
EA [auth S], FA [auth T]	IPR000646	Pre-hexon-linking protein VIII	Family
DA [auth R]	IPR003479	Pre-hexon-linking protein IIIa	Family
DA [auth R]	IPR043053	Pre-hexon-linking protein IIIa, N-terminal	Homologous Superfamily
AA [auth O], BA [auth P], CA [auth Q], Z [auth N]	IPR005641	Hexon-associated protein IX	Family
Y [auth M]	IPR002605	Adenovirus penton base protein	Family
M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], R [auth F], S [auth G], T [auth H], U [auth I], V [auth J], W [auth K], X [auth L]	IPR044942	Adenovirus Pll, hexon, subdomain 2	Homologous Superfamily
M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], R [auth F], S [auth G], T [auth H], U [auth I], V [auth J], W [auth K], X [auth L]	IPR016110	Adenovirus Pll, hexon, subdomain 3	Homologous Superfamily
M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], R [auth F], S [auth G], T [auth H], U [auth I], V [auth J], W [auth K], X [auth L]	IPR016107	Adenovirus Pll, hexon, N-terminal	Domain
M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], R [auth F], S [auth G], T [auth H], U [auth I], V [auth J], W [auth K], X [auth L]	IPR016108	Adenovirus Pll, hexon, C-terminal	Domain
M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], R [auth F], S [auth G], T [auth H], U [auth I], V [auth J], W [auth K], X [auth L]	IPR016112	Group II dsDNA virus coat/capsid protein	Homologous Superfamily
M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], R [auth F], S [auth G], T [auth H], U [auth I], V [auth J], W [auth K], X [auth L]	IPR037542	Adenovirus hexon protein	Family
A [auth 0], B [auth U], C [auth 1], D [auth V], E [auth 2], A [auth 0], B [auth U], C [auth 1], D [auth V], E [auth 2], F [auth W], G [auth 3], H [auth X], I [auth 4], J [auth Y], K [auth 8], L [auth Z]	IPR004243	Minor capsid protein VI	Family

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.id_divider{ color: #ccc; padding: 0 10px 0 10px; } .extended_id_info{ color: #ccc; font-size: 18px; position: relative; top: -10px; left: 4px; } 7RD1 | pdb_00007rd1

The Capsid Structure of the ChAdOx1 viral vector/chimpanzee adenovirus Y25

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

7RD1 | pdb_00007rd1