7UMS | pdb_00007ums

Structure of the VP5/VP8 assembly from the human rotavirus strain CDC-9 in complex with antibody 41 - Upright conformation

External Resource: Annotation

Domain Annotation: ECOD Classification
SAbDab Antibody 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 b]	prok_STING	e7umsb1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
EA [auth c]	prok_STING	e7umsc1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
FA [auth d]	prok_STING	e7umsd1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
GA [auth e]	prok_STING	e7umse1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
HA [auth f]	prok_STING	e7umsf1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
IA [auth g]	prok_STING	e7umsg1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
JA [auth h]	prok_STING	e7umsh1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
KA [auth i]	prok_STING	e7umsi1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
LA [auth j]	prok_STING	e7umsj1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
MA [auth k]	prok_STING	e7umsk1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
NA [auth l]	prok_STING	e7umsl1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
OA [auth m]	prok_STING	e7umsm1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
RA [auth p]	prok_STING	e7umsp1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
SA [auth q]	prok_STING	e7umsq1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
TA [auth r]	prok_STING	e7umsr1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
QA [auth o]	prok_STING	e7umso1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
PA [auth n]	prok_STING	e7umsn1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
CA [auth a]	prok_STING	e7umsa1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
AA [auth Q]	prok_STING	e7umsQ1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
BA [auth R]	prok_STING	e7umsR1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
K [auth A]	prok_STING	e7umsA1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
M [auth C]	prok_STING	e7umsC1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
N [auth D]	prok_STING	e7umsD1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
O [auth E]	prok_STING	e7umsE1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
P [auth F]	prok_STING	e7umsF1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
Q [auth G]	prok_STING	e7umsG1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
S [auth I]	prok_STING	e7umsI1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
T [auth J]	prok_STING	e7umsJ1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
U [auth K]	prok_STING	e7umsK1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
V [auth L]	prok_STING	e7umsL1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
W [auth M]	prok_STING	e7umsM1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
X [auth N]	prok_STING	e7umsN1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
Y [auth O]	prok_STING	e7umsO1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
Z [auth P]	prok_STING	e7umsP1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
R [auth H]	prok_STING	e7umsH1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
L [auth B]	prok_STING	e7umsB1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
H [auth 5]	prok_STING	e7ums51	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
J [auth 7]	prok_STING	e7ums71	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
I [auth 6]	prok_STING	e7ums61	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
G [auth 4]	prok_STING	e7ums41	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
B [auth 1]	prok_STING	e7ums11	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
D [auth 2]	prok_STING	e7ums21	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)
F [auth 3]	prok_STING	e7ums31	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: prok_STING	ECOD (develop294)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
H [auth 5], J [auth 7]	Light Chain	IGLV6	Lambda	outer capsid protein vp5* \| outer capsid protein vp8*	SAbDab (2026-03-20)
G [auth 4], I [auth 6]	Heavy Chain	IGHV3	-	outer capsid protein vp5* \| outer capsid protein vp8*	SAbDab (2026-03-20)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
CA [auth a], DA [auth b], EA [auth c], FA [auth d], GA [auth e], CA [auth a], DA [auth b], EA [auth c], FA [auth d], GA [auth e], HA [auth f], IA [auth g], JA [auth h], KA [auth i], LA [auth j], MA [auth k], NA [auth l], OA [auth m], PA [auth n], QA [auth o], RA [auth p], SA [auth q], TA [auth r]	Outer capsid glycoprotein VP7	cation binding ion binding binding metal ion binding small molecule binding	-	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum other organism part host cell cytoplasm part host intracellular organelle cellular anatomical structure host cell cytoplasm host cell part host cell endoplasmic reticulum lumen host intracellular region viral capsid icosahedral viral capsid host intracellular membrane-bounded organelle host cellular component host intracellular part host cell endoplasmic reticulum other organism part host cell cytoplasm part host intracellular organelle cellular anatomical structure host cell cytoplasm host cell part host cell endoplasmic reticulum lumen host intracellular region viral capsid icosahedral viral capsid virion component viral outer capsid T=13 icosahedral viral capsid
AA [auth Q], BA [auth R], K [auth A], L [auth B], M [auth C], AA [auth Q], BA [auth R], K [auth A], L [auth B], M [auth C], N [auth D], O [auth E], P [auth F], Q [auth G], R [auth H], S [auth I], T [auth J], U [auth K], V [auth L], W [auth M], X [auth N], Y [auth O], Z [auth P]	Intermediate capsid protein VP6	structural molecule activity cation binding ion binding binding metal ion binding small molecule binding host cell surface binding host cell surface receptor binding	membrane organization cellular component organization membrane fusion fusion of virus membrane with host plasma membrane viral process cellular process cellular component organization or biogenesis membrane fusion involved in viral entry into host cell	virion component viral membrane viral envelope viral capsid icosahedral viral capsid T=13 icosahedral viral capsid viral intermediate capsid
H [auth 5], J [auth 7]	Fab 41 light chain	-	-	-
G [auth 4], I [auth 6]	Fab 41 heavy chain	-	-	-
B [auth 1], D [auth 2], F [auth 3]	Outer capsid protein VP5*	-	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-mediated disruption of host anatomical structure symbiont entry into host cell via permeabilization of host membrane symbiont-mediated disruption of host cellular anatomical structure symbiont-mediated perturbation of host membrane permeabilization of host organelle membrane involved in viral entry into host cell symbiont entry into host cell 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-mediated disruption of host anatomical structure symbiont entry into host cell via permeabilization of host membrane symbiont-mediated disruption of host cellular anatomical structure symbiont-mediated perturbation of host membrane permeabilization of host organelle membrane involved in viral entry into host cell symbiont entry into host cell symbiont entry into host disruption of anatomical structure in another organism	host cellular component host intracellular part host cytoskeleton cellular anatomical structure host cell part host intracellular region other organism part host intracellular organelle host intracellular membrane-bounded organelle host cell cytoplasm part host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm host cell plasma membrane host cell membrane host cellular component host intracellular part host cytoskeleton cellular anatomical structure host cell part host intracellular region other organism part host intracellular organelle host intracellular membrane-bounded organelle host cell cytoplasm part host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm 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
A [auth T], C [auth U], E [auth V]	Outer capsid protein VP8*	-	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-mediated disruption of host anatomical structure symbiont entry into host cell via permeabilization of host membrane symbiont-mediated disruption of host cellular anatomical structure symbiont-mediated perturbation of host membrane permeabilization of host organelle membrane involved in viral entry into host cell symbiont entry into host cell 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-mediated disruption of host anatomical structure symbiont entry into host cell via permeabilization of host membrane symbiont-mediated disruption of host cellular anatomical structure symbiont-mediated perturbation of host membrane permeabilization of host organelle membrane involved in viral entry into host cell symbiont entry into host cell symbiont entry into host disruption of anatomical structure in another organism	host cellular component host intracellular part host cytoskeleton cellular anatomical structure host cell part host intracellular region other organism part host intracellular organelle host intracellular membrane-bounded organelle host cell cytoplasm part host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm host cell plasma membrane host cell membrane host cellular component host intracellular part host cytoskeleton cellular anatomical structure host cell part host intracellular region other organism part host intracellular organelle host intracellular membrane-bounded organelle host cell cytoplasm part host cell endoplasmic reticulum-Golgi intermediate compartment host cell cytoplasm 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
CA [auth a], DA [auth b], EA [auth c], FA [auth d], GA [auth e], CA [auth a], DA [auth b], EA [auth c], FA [auth d], GA [auth e], HA [auth f], IA [auth g], JA [auth h], KA [auth i], LA [auth j], MA [auth k], NA [auth l], OA [auth m], PA [auth n], QA [auth o], RA [auth p], SA [auth q], TA [auth r]	IPR042207	Glycoprotein VP7, domain 1	Homologous Superfamily
CA [auth a], DA [auth b], EA [auth c], FA [auth d], GA [auth e], CA [auth a], DA [auth b], EA [auth c], FA [auth d], GA [auth e], HA [auth f], IA [auth g], JA [auth h], KA [auth i], LA [auth j], MA [auth k], NA [auth l], OA [auth m], PA [auth n], QA [auth o], RA [auth p], SA [auth q], TA [auth r]	IPR001963	Glycoprotein VP7	Family
CA [auth a], DA [auth b], EA [auth c], FA [auth d], GA [auth e], CA [auth a], DA [auth b], EA [auth c], FA [auth d], GA [auth e], HA [auth f], IA [auth g], JA [auth h], KA [auth i], LA [auth j], MA [auth k], NA [auth l], OA [auth m], PA [auth n], QA [auth o], RA [auth p], SA [auth q], TA [auth r]	IPR042210	Glycoprotein VP7, domain 2	Homologous Superfamily
AA [auth Q], BA [auth R], K [auth A], L [auth B], M [auth C], AA [auth Q], BA [auth R], K [auth A], L [auth B], M [auth C], N [auth D], O [auth E], P [auth F], Q [auth G], R [auth H], S [auth I], T [auth J], U [auth K], V [auth L], W [auth M], X [auth N], Y [auth O], Z [auth P]	IPR001385	Rotavirus A/C, major capsid protein VP6	Family
AA [auth Q], BA [auth R], K [auth A], L [auth B], M [auth C], AA [auth Q], BA [auth R], K [auth A], L [auth B], M [auth C], N [auth D], O [auth E], P [auth F], Q [auth G], R [auth H], S [auth I], T [auth J], U [auth K], V [auth L], W [auth M], X [auth N], Y [auth O], Z [auth P]	IPR008935	Virus capsid protein, alpha-helical	Homologous Superfamily
AA [auth Q], BA [auth R], K [auth A], L [auth B], M [auth C], AA [auth Q], BA [auth R], K [auth A], L [auth B], M [auth C], N [auth D], O [auth E], P [auth F], Q [auth G], R [auth H], S [auth I], T [auth J], U [auth K], V [auth L], W [auth M], X [auth N], Y [auth O], Z [auth P]	IPR008980	Viral capsid/haemagglutinin protein	Homologous Superfamily
B [auth 1], D [auth 2], F [auth 3]	IPR000416	Haemagglutinin outer capsid protein VP4, concanavalin-like domain	Domain
B [auth 1], D [auth 2], F [auth 3]	IPR035330	Rotavirus VP4, membrane interaction domain	Domain
B [auth 1], D [auth 2], F [auth 3]	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
B [auth 1], D [auth 2], F [auth 3]	IPR035329	Rotavirus VP4 helical domain	Domain
B [auth 1], D [auth 2], F [auth 3]	IPR042546	Outer capsid protein VP4	Family
B [auth 1], D [auth 2], F [auth 3]	IPR038017	Rotavirus VP4, membrane interaction domain superfamily	Homologous Superfamily
A [auth T], C [auth U], E [auth V]	IPR000416	Haemagglutinin outer capsid protein VP4, concanavalin-like domain	Domain
A [auth T], C [auth U], E [auth V]	IPR035330	Rotavirus VP4, membrane interaction domain	Domain
A [auth T], C [auth U], E [auth V]	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
A [auth T], C [auth U], E [auth V]	IPR035329	Rotavirus VP4 helical domain	Domain
A [auth T], C [auth U], E [auth V]	IPR042546	Outer capsid protein VP4	Family
A [auth T], C [auth U], E [auth V]	IPR038017	Rotavirus VP4, membrane interaction domain superfamily	Homologous Superfamily

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.

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Structure of the VP5*/VP8* assembly from the human rotavirus strain CDC-9 in complex with antibody 41 - Upright conformation