1SLQ

Crystal structure of the trimeric state of the rhesus rotavirus VP4 membrane interaction domain, VP5CT

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 Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1slqa_	Membrane and cell surface proteins and peptides	VP4 membrane interaction domain	VP4 membrane interaction domain	VP4 membrane interaction domain	VP4 membrane interaction domain	(Simian rotavirus A strain RRV ) [TaxId: 444185 ],	SCOPe (2.08)
B	d1slqb_	Membrane and cell surface proteins and peptides	VP4 membrane interaction domain	VP4 membrane interaction domain	VP4 membrane interaction domain	VP4 membrane interaction domain	(Simian rotavirus A strain RRV ) [TaxId: 444185 ],	SCOPe (2.08)
C	d1slqc_	Membrane and cell surface proteins and peptides	VP4 membrane interaction domain	VP4 membrane interaction domain	VP4 membrane interaction domain	VP4 membrane interaction domain	(Simian rotavirus A strain RRV ) [TaxId: 444185 ],	SCOPe (2.08)
D	d1slqd_	Membrane and cell surface proteins and peptides	VP4 membrane interaction domain	VP4 membrane interaction domain	VP4 membrane interaction domain	VP4 membrane interaction domain	(Simian rotavirus A strain RRV ) [TaxId: 444185 ],	SCOPe (2.08)
E	d1slqe_	Membrane and cell surface proteins and peptides	VP4 membrane interaction domain	VP4 membrane interaction domain	VP4 membrane interaction domain	VP4 membrane interaction domain	(Simian rotavirus A strain RRV ) [TaxId: 444185 ],	SCOPe (2.08)
F	d1slqf_	Membrane and cell surface proteins and peptides	VP4 membrane interaction domain	VP4 membrane interaction domain	VP4 membrane interaction domain	VP4 membrane interaction domain	(Simian rotavirus A strain RRV ) [TaxId: 444185 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	VP4 membrane interaction domain-like	8027184	4003013	SCOP2 (2022-06-29)
A	SCOP2 Family	VP4 trimerisation region-like	8055447	4007643	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	VP4 membrane interaction domain	8039563	3002014	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	VP4 trimerisation region-like	8055448	3002293	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	VP4 membrane interaction domain	8039563	3002014	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	VP4 trimerisation region-like	8055448	3002293	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	VP4 membrane interaction domain	8039563	3002014	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	VP4 trimerisation region-like	8055448	3002293	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	VP4 membrane interaction domain	8039563	3002014	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	VP4 trimerisation region-like	8055448	3002293	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	VP4 membrane interaction domain	8039563	3002014	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	VP4 membrane interaction domain	8039563	3002014	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)
A	Rota_VP4_MID	e1slqA2	A: beta sandwiches	X: VP4 membrane interaction domain (From Topology)	H: VP4 membrane interaction domain (From Topology)	T: VP4 membrane interaction domain	F: Rota_VP4_MID	ECOD (1.6)
B	Rota_VP4_MID	e1slqB1	A: beta sandwiches	X: VP4 membrane interaction domain (From Topology)	H: VP4 membrane interaction domain (From Topology)	T: VP4 membrane interaction domain	F: Rota_VP4_MID	ECOD (1.6)
C	Rota_VP4_MID	e1slqC1	A: beta sandwiches	X: VP4 membrane interaction domain (From Topology)	H: VP4 membrane interaction domain (From Topology)	T: VP4 membrane interaction domain	F: Rota_VP4_MID	ECOD (1.6)
D	Rota_VP4_MID	e1slqD1	A: beta sandwiches	X: VP4 membrane interaction domain (From Topology)	H: VP4 membrane interaction domain (From Topology)	T: VP4 membrane interaction domain	F: Rota_VP4_MID	ECOD (1.6)
E	Rota_VP4_MID	e1slqE1	A: beta sandwiches	X: VP4 membrane interaction domain (From Topology)	H: VP4 membrane interaction domain (From Topology)	T: VP4 membrane interaction domain	F: Rota_VP4_MID	ECOD (1.6)
F	Rota_VP4_MID	e1slqF1	A: beta sandwiches	X: VP4 membrane interaction domain (From Topology)	H: VP4 membrane interaction domain (From Topology)	T: VP4 membrane interaction domain	F: Rota_VP4_MID	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.5.170	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
B	1.20.5.170	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
C	1.20.5.170	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
D	1.20.5.170	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
E	1.20.5.170	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
F	1.20.5.170	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		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	PF17477	Rotavirus VP4 membrane interaction domain (Rota_VP4_MID)	Rotavirus VP4 membrane interaction domain	This entry represents the VP4 membrane interaction domain.	Domain
A, B, C, D, E A, B, C, D, E, F	PF17478	Rotavirus VP4 helical domain (VP4_helical)	Rotavirus VP4 helical domain	-	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	VP4	-	symbiont-mediated disruption of host anatomical structure symbiont entry into host cell via permeabilization of inner membrane biological process involved in interspecies interaction between organisms symbiont entry into host cell via permeabilization of host membrane viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated perturbation of host membrane symbiont-mediated disruption of host cellular anatomical entity symbiont entry into host cell viral process symbiont entry into host disruption of anatomical structure in another organism virion attachment to host cell symbiont-mediated disruption of host anatomical structure symbiont entry into host cell via permeabilization of inner membrane biological process involved in interspecies interaction between organisms symbiont entry into host cell via permeabilization of host membrane viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated perturbation of host membrane symbiont-mediated disruption of host cellular anatomical entity symbiont entry into host cell viral process symbiont entry into host disruption of anatomical structure in another organism virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host permeabilization of host organelle membrane involved in viral entry into host cell	host cellular component host intracellular part host cytoskeleton host cell part host intracellular region cellular anatomical entity host intracellular organelle membrane host intracellular membrane-bounded organelle host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm host cell cytoplasm part host cell plasma membrane host cell membrane host cellular component host intracellular part host cytoskeleton host cell part host intracellular region cellular anatomical entity host intracellular organelle membrane host intracellular membrane-bounded organelle host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm host cell cytoplasm part host cell plasma membrane host cell membrane viral capsid icosahedral viral capsid virion component viral outer capsid host cell endoplasmic reticulum host cell rough endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR000416	Haemagglutinin outer capsid protein VP4, concanavalin-like domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR035330	Rotavirus VP4, membrane interaction domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR035329	Rotavirus VP4 helical domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR042546	Outer capsid protein VP4	Family
A, B, C, D, E A, B, C, D, E, F	IPR038017	Rotavirus VP4, membrane interaction domain superfamily	Homologous Superfamily

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.