6WXF | pdb_00006wxf

Cryo-EM reconstruction of VP5/VP8 assembly from rhesus rotavirus particles - Intermediate conformation

External Resource: Annotation

Domain Annotation: ECOD Classification
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)
Z [auth e]	Card1_endonuc	e6wxfe1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
Y [auth d]	Card1_endonuc	e6wxfd1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
X [auth c]	Card1_endonuc	e6wxfc1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
W [auth b]	Card1_endonuc	e6wxfb1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
V [auth a]	Card1_endonuc	e6wxfa1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
MA [auth r]	Card1_endonuc	e6wxfr1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
LA [auth q]	Card1_endonuc	e6wxfq1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
KA [auth p]	Card1_endonuc	e6wxfp1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
JA [auth o]	Card1_endonuc	e6wxfo1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
IA [auth n]	Card1_endonuc	e6wxfn1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
HA [auth m]	Card1_endonuc	e6wxfm1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
GA [auth l]	Card1_endonuc	e6wxfl1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
FA [auth k]	Card1_endonuc	e6wxfk1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
EA [auth j]	Card1_endonuc	e6wxfj1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
DA [auth i]	Card1_endonuc	e6wxfi1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
CA [auth h]	Card1_endonuc	e6wxfh1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
BA [auth g]	Card1_endonuc	e6wxfg1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
AA [auth f]	Card1_endonuc	e6wxff1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
U [auth R]	Card1_endonuc	e6wxfR1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
T [auth Q]	Card1_endonuc	e6wxfQ1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
S [auth P]	Card1_endonuc	e6wxfP1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
R [auth O]	Card1_endonuc	e6wxfO1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
Q [auth N]	Card1_endonuc	e6wxfN1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
P [auth M]	Card1_endonuc	e6wxfM1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
O [auth L]	Card1_endonuc	e6wxfL1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
N [auth K]	Card1_endonuc	e6wxfK1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
M [auth J]	Card1_endonuc	e6wxfJ1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
L [auth I]	Card1_endonuc	e6wxfI1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
K [auth H]	Card1_endonuc	e6wxfH1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
J [auth G]	Card1_endonuc	e6wxfG1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
I [auth F]	Card1_endonuc	e6wxfF1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
H [auth E]	Card1_endonuc	e6wxfE1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
G [auth D]	Card1_endonuc	e6wxfD1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
F [auth C]	Card1_endonuc	e6wxfC1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
E [auth B]	Card1_endonuc	e6wxfB1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
D [auth A]	Card1_endonuc	e6wxfA1	A: beta barrels	X: cradle loop barrel	H: N-terminal domain of poxin	T: N-terminal domain of poxin	F: Card1_endonuc	ECOD (v294.2)
C [auth 3]	TAL_FSA	e6wxf31	A: beta barrels	X: DNA methylase specificity domain	H: Bromodomain	T: Bromodomain	F: TAL_FSA	ECOD (v294.2)
B [auth 2]	TAL_FSA	e6wxf21	A: beta barrels	X: DNA methylase specificity domain	H: Bromodomain	T: Bromodomain	F: TAL_FSA	ECOD (v294.2)
A [auth 1]	TAL_FSA	e6wxf11	A: beta barrels	X: DNA methylase specificity domain	H: Bromodomain	T: Bromodomain	F: TAL_FSA	ECOD (v294.2)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
AA [auth f], BA [auth g], CA [auth h], DA [auth i], EA [auth j], AA [auth f], BA [auth g], CA [auth h], DA [auth i], EA [auth j], FA [auth k], GA [auth l], HA [auth m], IA [auth n], JA [auth o], KA [auth p], LA [auth q], MA [auth r], V [auth a], W [auth b], X [auth c], Y [auth d], Z [auth e]	Outer capsid glycoprotein VP7	cation binding ion binding binding metal ion binding small molecule binding	virion attachment to host cell biological process involved in interspecies interaction between organisms receptor-mediated virion attachment to host cell 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	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
D [auth A], E [auth B], F [auth C], G [auth D], H [auth E], D [auth A], E [auth B], F [auth C], G [auth D], H [auth E], I [auth F], J [auth G], K [auth H], L [auth I], M [auth J], N [auth K], O [auth L], P [auth M], Q [auth N], R [auth O], S [auth P], T [auth Q], U [auth R]	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
A [auth 1], B [auth 2], C [auth 3]	Outer capsid protein VP4	-	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
AA [auth f], BA [auth g], CA [auth h], DA [auth i], EA [auth j], AA [auth f], BA [auth g], CA [auth h], DA [auth i], EA [auth j], FA [auth k], GA [auth l], HA [auth m], IA [auth n], JA [auth o], KA [auth p], LA [auth q], MA [auth r], V [auth a], W [auth b], X [auth c], Y [auth d], Z [auth e]	IPR042207	Glycoprotein VP7, domain 1	Homologous Superfamily
AA [auth f], BA [auth g], CA [auth h], DA [auth i], EA [auth j], AA [auth f], BA [auth g], CA [auth h], DA [auth i], EA [auth j], FA [auth k], GA [auth l], HA [auth m], IA [auth n], JA [auth o], KA [auth p], LA [auth q], MA [auth r], V [auth a], W [auth b], X [auth c], Y [auth d], Z [auth e]	IPR001963	Glycoprotein VP7	Family
AA [auth f], BA [auth g], CA [auth h], DA [auth i], EA [auth j], AA [auth f], BA [auth g], CA [auth h], DA [auth i], EA [auth j], FA [auth k], GA [auth l], HA [auth m], IA [auth n], JA [auth o], KA [auth p], LA [auth q], MA [auth r], V [auth a], W [auth b], X [auth c], Y [auth d], Z [auth e]	IPR042210	Glycoprotein VP7, domain 2	Homologous Superfamily
D [auth A], E [auth B], F [auth C], G [auth D], H [auth E], D [auth A], E [auth B], F [auth C], G [auth D], H [auth E], I [auth F], J [auth G], K [auth H], L [auth I], M [auth J], N [auth K], O [auth L], P [auth M], Q [auth N], R [auth O], S [auth P], T [auth Q], U [auth R]	IPR001385	Rotavirus A/C, major capsid protein VP6	Family
D [auth A], E [auth B], F [auth C], G [auth D], H [auth E], D [auth A], E [auth B], F [auth C], G [auth D], H [auth E], I [auth F], J [auth G], K [auth H], L [auth I], M [auth J], N [auth K], O [auth L], P [auth M], Q [auth N], R [auth O], S [auth P], T [auth Q], U [auth R]	IPR008935	Virus capsid protein, alpha-helical	Homologous Superfamily
D [auth A], E [auth B], F [auth C], G [auth D], H [auth E], D [auth A], E [auth B], F [auth C], G [auth D], H [auth E], I [auth F], J [auth G], K [auth H], L [auth I], M [auth J], N [auth K], O [auth L], P [auth M], Q [auth N], R [auth O], S [auth P], T [auth Q], U [auth R]	IPR008980	Viral capsid/haemagglutinin protein	Homologous Superfamily
A [auth 1], B [auth 2], C [auth 3]	IPR000416	Haemagglutinin outer capsid protein VP4, concanavalin-like domain	Domain
A [auth 1], B [auth 2], C [auth 3]	IPR035330	Rotavirus VP4, membrane interaction domain	Domain
A [auth 1], B [auth 2], C [auth 3]	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
A [auth 1], B [auth 2], C [auth 3]	IPR035329	Rotavirus VP4 helical domain	Domain
A [auth 1], B [auth 2], C [auth 3]	IPR042546	Outer capsid protein VP4	Family
A [auth 1], B [auth 2], C [auth 3]	IPR038017	Rotavirus VP4, membrane interaction domain superfamily	Homologous Superfamily