8OPL | pdb_00008opl

Virus-like Particle based on PVY coat protein with T43C and D136C mutation with helical architecture encapsidating ssRNA

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)
AA [auth Ba]	DNA_topoisoIV	e8oplBa1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
B [auth Ab]	DNA_topoisoIV	e8oplAb1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
C [auth Ac]	DNA_topoisoIV	e8oplAc1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
D [auth Ad]	DNA_topoisoIV	e8oplAd1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
E [auth Ae]	DNA_topoisoIV	e8oplAe1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
F [auth Af]	DNA_topoisoIV	e8oplAf1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
G [auth Ag]	DNA_topoisoIV	e8oplAg1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
H [auth Ah]	DNA_topoisoIV	e8oplAh1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
I [auth Ai]	DNA_topoisoIV	e8oplAi1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
KA [auth Bk]	DNA_topoisoIV	e8oplBk1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
LA [auth Bl]	DNA_topoisoIV	e8oplBl1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
MA [auth Bm]	DNA_topoisoIV	e8oplBm1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
NA [auth Bn]	DNA_topoisoIV	e8oplBn1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
OA [auth Bo]	DNA_topoisoIV	e8oplBo1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
PA [auth Bp]	DNA_topoisoIV	e8oplBp1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
QA [auth Bq]	DNA_topoisoIV	e8oplBq1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
RA [auth Br]	DNA_topoisoIV	e8oplBr1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
S [auth As]	DNA_topoisoIV	e8oplAs1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
SA [auth Bs]	DNA_topoisoIV	e8oplBs1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
T [auth At]	DNA_topoisoIV	e8oplAt1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
U [auth Au]	DNA_topoisoIV	e8oplAu1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
V [auth Av]	DNA_topoisoIV	e8oplAv1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
W [auth Aw]	DNA_topoisoIV	e8oplAw1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
X [auth Ax]	DNA_topoisoIV	e8oplAx1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
Y [auth Ay]	DNA_topoisoIV	e8oplAy1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
Z [auth Az]	DNA_topoisoIV	e8oplAz1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: DNA_topoisoIV	ECOD (v294.2)
A [auth Aa]	Kringle	e8oplAa01	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Kringle	ECOD (v294.2)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	Genome polyprotein (Fragment)	nucleic acid conformation isomerase activity isomerase activity catalytic activity, acting on a nucleic acid helicase activity macromolecular conformation isomerase activity catalytic activity ATP-dependent activity cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein cysteine-type endopeptidase activity hydrolase activity endopeptidase activity RNA-directed RNA polymerase activity nucleic acid conformation isomerase activity isomerase activity catalytic activity, acting on a nucleic acid helicase activity macromolecular conformation isomerase activity catalytic activity ATP-dependent activity cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein cysteine-type endopeptidase activity hydrolase activity endopeptidase activity RNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA RNA polymerase activity transferase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups serine hydrolase activity serine-type peptidase activity RNA binding binding nucleic acid binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity, acting on acid anhydrides structural molecule activity	RNA metabolic process viral life cycle primary metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process RNA metabolic process viral life cycle primary metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process cellular process macromolecule metabolic process gene expression DNA-templated transcription proteolysis protein metabolic process symbiont-mediated perturbation of host defense response symbiont-mediated suppression of host immune response biological process involved in interspecies interaction between organisms symbiont-mediated suppression of host innate immune response symbiont-mediated perturbation of host process symbiont-mediated perturbation of host immune response symbiont-mediated perturbation of host innate immune response modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction	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 viral capsid virion component helical viral capsid host cell cytoplasm part host cell cytoplasmic vesicle 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 viral capsid virion component helical viral capsid host cell cytoplasm part host cell cytoplasmic vesicle host cell cytoplasm
AB [auth Ca], BA [auth Bb], BB [auth Cb], CA [auth Bc], DA [auth Bd], AB [auth Ca], BA [auth Bb], BB [auth Cb], CA [auth Bc], DA [auth Bd], EA [auth Be], FA [auth Bf], GA [auth Bg], HA [auth Bh], IA [auth Bi], J [auth Aj], JA [auth Bj], K [auth Ak], L [auth Al], M [auth Am], N [auth An], O [auth Ao], P [auth Ap], Q [auth Aq], R [auth Ar], TA [auth Bt], UA [auth Bu], VA [auth Bv], WA [auth Bw], XA [auth Bx], YA [auth By], ZA [auth Bz]	RNA (5'-R(PUPUPUPUP*U)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR001205	RNA-directed RNA polymerase, C-terminal domain	Domain
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR001456	Helper component proteinase	Family
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR002540	Peptidase S30, polyprotein P1, potyvirus	Domain
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR013648	Polyprotein, Potyviridae	Domain
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR001730	Potyvirus NIa protease (NIa-pro) domain	Domain
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR011545	DEAD/DEAH-box helicase domain	Domain
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR031159	Helper-component proteinase (HC-Pro) cysteine protease (CPD) domain	Domain
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR043504	Peptidase_S1_PA_chymotrypsin	Unknown
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR001650	Helicase, C-terminal domain-like	Domain
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR001592	Potyvirus coat protein	Family
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR039560	Potyviral polyprotein protein 3	Domain
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR007094	RNA-directed RNA polymerase, catalytic domain	Domain
A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], A [auth Aa], AA [auth Ba], B [auth Ab], C [auth Ac], D [auth Ad], E [auth Ae], F [auth Af], G [auth Ag], H [auth Ah], I [auth Ai], KA [auth Bk], LA [auth Bl], MA [auth Bm], NA [auth Bn], OA [auth Bo], PA [auth Bp], QA [auth Bq], RA [auth Br], S [auth As], SA [auth Bs], T [auth At], U [auth Au], V [auth Av], W [auth Aw], X [auth Ax], Y [auth Ay], Z [auth Az]	IPR042308	Helper-component proteinase (HC-Pro) cysteine protease (CPD) domain 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.