3SHM | pdb_00003shm

Structure-function Analysis of Receptor Binding in Adeno-Associated Virus Serotype 6 (AAV-6)

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
T	d3shmt_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
S	d3shms_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
R	d3shmr_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
Q	d3shmq_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
P	d3shmp_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
O	d3shmo_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
N	d3shmn_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
M	d3shmm_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
L	d3shml_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
K	d3shmk_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
J	d3shmj_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
I	d3shmi_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
H	d3shmh_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
G	d3shmg_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
F	d3shmf_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
E	d3shme_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
D	d3shmd_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
C	d3shmc_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
B	d3shmb_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)
A	d3shma_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	ssDNA viruses	Parvoviridae-like VP	automated matches	(Adeno-associated virus - 6 ) [TaxId: 68558 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
T	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
S	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
R	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	ssDNA viruses	8071436	3000931	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)
T	Parvo_coat	e3shmT1	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: Parvo_coat	ECOD (1.6)
S	Parvo_coat	e3shmS1	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: Parvo_coat	ECOD (1.6)
R	Parvo_coat	e3shmR1	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: Parvo_coat	ECOD (1.6)
Q	Parvo_coat	e3shmQ1	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: Parvo_coat	ECOD (1.6)
P	Parvo_coat	e3shmP1	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: Parvo_coat	ECOD (1.6)
O	Parvo_coat	e3shmO1	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: Parvo_coat	ECOD (1.6)
N	Parvo_coat	e3shmN1	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: Parvo_coat	ECOD (1.6)
M	Parvo_coat	e3shmM1	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: Parvo_coat	ECOD (1.6)
L	Parvo_coat	e3shmL1	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: Parvo_coat	ECOD (1.6)
K	Parvo_coat	e3shmK1	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: Parvo_coat	ECOD (1.6)
J	Parvo_coat	e3shmJ1	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: Parvo_coat	ECOD (1.6)
I	Parvo_coat	e3shmI1	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: Parvo_coat	ECOD (1.6)
H	Parvo_coat	e3shmH1	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: Parvo_coat	ECOD (1.6)
G	Parvo_coat	e3shmG1	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: Parvo_coat	ECOD (1.6)
F	Parvo_coat	e3shmF1	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: Parvo_coat	ECOD (1.6)
E	Parvo_coat	e3shmE1	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: Parvo_coat	ECOD (1.6)
D	Parvo_coat	e3shmD1	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: Parvo_coat	ECOD (1.6)
C	Parvo_coat	e3shmC1	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: Parvo_coat	ECOD (1.6)
B	Parvo_coat	e3shmB1	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: Parvo_coat	ECOD (1.6)
A	Parvo_coat	e3shmA1	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: Parvo_coat	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
T	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
S	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
R	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
Q	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
P	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
O	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
N	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
M	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
L	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
K	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
J	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
I	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
H	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
G	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
F	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
E	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
D	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
C	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
B	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)
A	2.170.30.10	Mainly Beta	Beta Complex	Empty Capsid Viral Protein 2	Parvovirus coat protein VP1/VP2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T	PF00740	Parvovirus coat protein VP1/VP2 (VP1_2)	Parvovirus coat protein VP1/VP2	This entry describes a common domain found in VP1 and VP2 Parvovirus coat proteins which together form a capsomer. Both of these proteins are formed from the same transcript using alternative splicing. As a result, VP1 and VP2 differ only in the N-te ...	This entry describes a common domain found in VP1 and VP2 Parvovirus coat proteins which together form a capsomer. Both of these proteins are formed from the same transcript using alternative splicing. As a result, VP1 and VP2 differ only in the N-terminal. VP2 is involved in packaging of the viral DNA [1].	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, H, I, J, K, L, M, N, O, P, Q, R, S, T	Capsid protein VP1	structural molecule activity	-	viral capsid icosahedral viral capsid virion component T=1 icosahedral 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, H, I, J, K, L, M, N, O, P, Q, R, S, T	IPR013607	Phospholipase A2-like domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T	IPR016184	Capsid/spike protein, ssDNA virus	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T	IPR001403	Coat protein VP1/VP2, Parvovirus	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T	IPR036952	Parvovirus coat protein VP1/VP2	Homologous Superfamily