4FMH | pdb_00004fmh

Merkel Cell Polyomavirus VP1 in complex with Disialyllactose

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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	d4fmht_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
S	d4fmhs_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
R	d4fmhr_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
Q	d4fmhq_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
P	d4fmhp_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
O	d4fmho_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
N	d4fmhn_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
M	d4fmhm_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
L	d4fmhl_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
K	d4fmhk_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
J	d4fmhj_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
I	d4fmhi_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
H	d4fmhh_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
G	d4fmhg_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
F	d4fmhf_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
E	d4fmhe_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
D	d4fmhd_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
C	d4fmhc_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
B	d4fmhb_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)
A	d4fmha_	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Group I dsDNA viruses	Papovaviridae-like VP	automated matches	(Merkel cell polyomavirus ) [TaxId: 493803 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
T	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
S	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
R	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
L	SCOP2 Family	papovaviridae-like vp	8081600	4003485	SCOP2 (2022-06-29)
L	SCOP2 Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2 (2022-06-29)
K	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Group I dsDNA viruses	8081601	3000939	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	Ribosomal_L31	e4fmhT1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
S	Ribosomal_L31	e4fmhS1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
R	Ribosomal_L31	e4fmhR1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
Q	Ribosomal_L31	e4fmhQ1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
P	Ribosomal_L31	e4fmhP1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
O	Ribosomal_L31	e4fmhO1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
N	Ribosomal_L31	e4fmhN1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
M	Ribosomal_L31	e4fmhM1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
L	Ribosomal_L31	e4fmhL1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
K	Ribosomal_L31	e4fmhK1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
J	Ribosomal_L31	e4fmhJ1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
I	Ribosomal_L31	e4fmhI1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
H	Ribosomal_L31	e4fmhH1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
G	Ribosomal_L31	e4fmhG1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
F	Ribosomal_L31	e4fmhF1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
E	Ribosomal_L31	e4fmhE1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
D	Ribosomal_L31	e4fmhD1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
C	Ribosomal_L31	e4fmhC1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
B	Ribosomal_L31	e4fmhB1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)
A	Ribosomal_L31	e4fmhA1	A: alpha arrays	X: beta-Grasp	H: HTH	T: winged helix domain	F: Ribosomal_L31	ECOD (v295)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
T	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
S	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
R	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
Q	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
P	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
O	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
N	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
M	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
L	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
K	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
J	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
I	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
H	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
G	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
F	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
E	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
D	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
C	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
B	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)
A	2.60.175.10	Mainly Beta	Sandwich	Polyomavirus Vp1	Chain A	CATH (4.3.0)

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	VP1	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	viral capsid icosahedral viral capsid T=7 icosahedral 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

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	IPR011222	Double-stranded DNA virus, group I, capsid	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	IPR000662	Capsid protein VP1,Polyomavirus	Family
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	IPR036931	Polyomavirus capsid protein VP1 superfamily	Homologous Superfamily

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.