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Protein

RNA replication polyprotein

Gene

ORF1

Organism
Apple stem pitting virus (isolate PA66) (ASPV)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Protein inferred from homologyi

Functioni

RNA replication polyprotein: RNA-directed RNA polymerase involved in viral RNA replication.By similarity
Protease: Thiol protease that cleaves the polyprotein.By similarity

Catalytic activityi

ATP + H2O = ADP + phosphate.Curated
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).PROSITE-ProRule annotation

Cofactori

Fe2+PROSITE-ProRule annotationNote: Binds 1 Fe2+ ion per subunit.PROSITE-ProRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi780 – 7801IronPROSITE-ProRule annotation
Metal bindingi782 – 7821IronPROSITE-ProRule annotation
Metal bindingi835 – 8351IronPROSITE-ProRule annotation
Binding sitei844 – 84412-oxoglutaratePROSITE-ProRule annotation
Active sitei1202 – 12021By similarity
Active sitei1283 – 12831By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi1374 – 13818ATPPROSITE-ProRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase, Nucleotidyltransferase, Protease, RNA-directed RNA polymerase, Thiol protease, Transferase

Keywords - Biological processi

Viral RNA replication

Keywords - Ligandi

ATP-binding, Iron, Metal-binding, Nucleotide-binding

Protein family/group databases

MEROPSiC23.001.

Names & Taxonomyi

Protein namesi
Recommended name:
RNA replication polyproteinBy similarity
Alternative name(s):
ORF1 proteinBy similarity
Cleaved into the following chain:
HelicaseBy similarity (EC:3.6.4.13Curated)
Including the following 4 domains:
Viral methyltransferaseSequence analysis (EC:2.1.1.-Curated)
Putative Fe(2+) 2-oxoglutarate dioxygenaseSequence analysis (EC:1.14.11.-PROSITE-ProRule annotation)
ProteaseBy similarity (EC:3.4.22.-By similarity)
RNA-directed RNA polymerasePROSITE-ProRule annotation (EC:2.7.7.48PROSITE-ProRule annotation)
Gene namesi
ORF Names:ORF1By similarity
OrganismiApple stem pitting virus (isolate PA66) (ASPV)
Taxonomic identifieri651356 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA positive-strand viruses, no DNA stageTymoviralesBetaflexiviridaeFoveavirus
Virus hostiCrataegus (hawthorn) [TaxID: 23159]
Malus sieboldii [TaxID: 106566]
Malus sylvestris [TaxID: 3752]
Pyrus communis (Pear) (Pyrus domestica) [TaxID: 23211]
Proteomesi
  • UP000000678 Componenti: Genome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 21832183RNA replication polyproteinPRO_0000401087Add
BLAST
Chaini1686 – 2177492HelicaseBy similarityPRO_0000431909Add
BLAST

Post-translational modificationi

Specific enzymatic cleavages by the viral protease yield mature proteins.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei1685 – 16862Cleavage; by viral proteaseBy similarity

Structurei

3D structure databases

ProteinModelPortaliQ64962.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini63 – 256194Alphavirus-like MTPROSITE-ProRule annotationAdd
BLAST
Domaini762 – 85392Fe2OG dioxygenasePROSITE-ProRule annotationAdd
BLAST
Domaini1091 – 1199109OTUPROSITE-ProRule annotationAdd
BLAST
Domaini1198 – 128891Peptidase C23PROSITE-ProRule annotationAdd
BLAST
Domaini1349 – 1520172(+)RNA virus helicase ATP-bindingPROSITE-ProRule annotationAdd
BLAST
Domaini1521 – 1667147(+)RNA virus helicase C-terminalPROSITE-ProRule annotationAdd
BLAST
Domaini1961 – 2068108RdRp catalyticPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 (+)RNA virus helicase ATP-binding domain.PROSITE-ProRule annotation
Contains 1 (+)RNA virus helicase C-terminal domain.PROSITE-ProRule annotation
Contains 1 alphavirus-like MT (methyltransferase) domain.PROSITE-ProRule annotation
Contains 1 Fe2OG dioxygenase domain.PROSITE-ProRule annotation
Contains 1 OTU domain.PROSITE-ProRule annotation
Contains 1 peptidase C23 domain.PROSITE-ProRule annotationCurated
Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation

Family and domain databases

Gene3Di2.60.120.590. 1 hit.
3.40.50.300. 1 hit.
InterProiIPR027351. (+)RNA_virus_helicase_core_dom.
IPR027450. AlkB-like.
IPR002588. Alphavirus-like_MT_dom.
IPR003323. OTU_dom.
IPR005123. Oxoglu/Fe-dep_dioxygenase.
IPR027417. P-loop_NTPase.
IPR008041. Peptidase_C23.
IPR007094. RNA-dir_pol_PSvirus.
IPR001788. Tymovirus_RNA-dep_RNA_pol.
[Graphical view]
PfamiPF03171. 2OG-FeII_Oxy. 1 hit.
PF05379. Peptidase_C23. 1 hit.
PF00978. RdRP_2. 1 hit.
PF01443. Viral_helicase1. 1 hit.
PF01660. Vmethyltransf. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
PROSITEiPS51743. ALPHAVIRUS_MT. 1 hit.
PS51471. FE2OG_OXY. 1 hit.
PS50802. OTU. 1 hit.
PS51492. PEPTIDASE_C23. 1 hit.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q64962-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MALLSRTAAE EVIASFTSEE QSRISTQAVL ALTNVEKDKH DLFNYALPEL
60 70 80 90 100
AKMRLFNSGI YLSPHSYRPH SHPVCKTLEN NILFNILPSY LDNSFYLVSI
110 120 130 140 150
KKNKVDFLKR RHPDLQMVET INRYISSIDK TRYGGFFHVS PSKISAKFKC
160 170 180 190 200
DRRTGFEDDA SLIDLIPGCM EGARKRFFFH DELHYWTKEA LITFLDHVKP
210 220 230 240 250
EVMLASIVFP PEILAGAKES LNPWCYTFRI VGKDLVFFPD GEQSEAYIQP
260 270 280 290 300
VAGSYLLRTG KITTPSGDIF QLDLLKSSFS HHLISITKGE AIGQKMRFFN
310 320 330 340 350
GFEAVAMKGL NPLRRKVESC LPISKNTILK IYRYLRTLKK PDLQSAMAKL
360 370 380 390 400
SQVCKDPNGY EIKFFEEFSK LCLKCDTLNT NMIPDMKRIV QGFFLKLFPN
410 420 430 440 450
PISRNFKVVQ QLHLDNFIET LEEFNFSINT ESLSLNWKDD LEFVNLTFGD
460 470 480 490 500
TDFNVEDSFA EAWGTKKDVV NITTVHHSPY LVSKFESYDH QFHSILSVKS
510 520 530 540 550
ISALTRIAKI VLSLYDPCVV EAFSESRVTN LAVNVIIAAN LRACFAVTDL
560 570 580 590 600
WRIFEGILLK ECKRAQGKMR KRFHFELGIR WFLFVDVSNQ WFLPPCRDGL
610 620 630 640 650
IARSVSFDQF IKGCQRDNSL HNGRMSLRQV LKGPKLQALF DVSELSIIHN
660 670 680 690 700
VEMENAPEAG STLDAGIKPT SSPLEVVPIE NARCNLAPCK CDLNCFIQPA
710 720 730 740 750
DVNSLHGNLV FLDFIGGSKG RGASFYSRDL KGYSYTGFSH VSRGWPAFLD
760 770 780 790 800
KFLSDNKIPL NFYNQCLVQE YSTGHGLSMH KDDESIYDIN HQVLTVNYSG
810 820 830 840 850
DAIFCIECLG SGFEIPLSGP QMLLMPFGFQ KEHRHGIKSP SKGRISLTFR
860 870 880 890 900
LTKEGDSQVP IQEVVTICDH GDSDDRAALK ALERRSHQSG GRPAVELEGH
910 920 930 940 950
EREKVNSDSS DSAPVQEFLI QIDSSLLEYA LKSLSGLSKN VVNCDMCLCN
960 970 980 990 1000
SPWLKNEELR FSEALRDLAF AQGLIQLIDF LCLKVLRCAE VNRIISELPT
1010 1020 1030 1040 1050
HVFPLRGTMH IVDLDDESIR GDVKEGSFSG FRRWKVMSCS TDLIMLAFLK
1060 1070 1080 1090 1100
PKMTLGGELR SHEDECELSD LTEKLHGCSV ILSRKFEPDL FHSFDVEADG
1110 1120 1130 1140 1150
NCFWHSVGPL IGVDGEYLKR ILHDQAKKDG VKCPRLSKQL EGNTWAEREA
1160 1170 1180 1190 1200
VAYFCSHYGI RLNVLYTREE CTWIFKPHEV LKAATLICQD NHFKPCMPVN
1210 1220 1230 1240 1250
GCVIRAISSA LNRREVDVLA VLGKPAHEDL FEEVAEGRGF SIFDLTRLFE
1260 1270 1280 1290 1300
IFSICGSVDT GGELIMVNEN GRIPAEFSLE KEHLAHIPTL SRRKFSPIVS
1310 1320 1330 1340 1350
DLNRVSNSAM RFLAINGAEV DYRPSIDRAS TLLDSFEIGA TGVLCQGIKE
1360 1370 1380 1390 1400
AQKDLASKLI PELVHERKLI MILGTFGCGK SSLFKKFIEK SPGKAITFVS
1410 1420 1430 1440 1450
PRRSLAESIN HDLGLARVGG KKTGKSKDLK NVRVKTFELF ILHLDSIKEG
1460 1470 1480 1490 1500
HTVVIDEIQL FPPGYIDLII LGLKPNVNII IAGDPCQSDY DCSSDRHIFA
1510 1520 1530 1540 1550
GSESDIMRIL SGRSYKFNIL SQRFRNPVFY GRLPCNLNKT RLTLDEEEYT
1560 1570 1580 1590 1600
LWDSIQEFSM MGRKDCPVVL VSSFEEKKIV AAHLGLKMKC ITYGESTGLN
1610 1620 1630 1640 1650
FQKGAILVTY ESALTSDRRW WTALSRFSHD IHFINGMGVT WDNAITHFVG
1660 1670 1680 1690 1700
KPLHKFFTKR ACNDDIIDLL PGRPELIEGF QSQVGADEGV REAKLVGDPW
1710 1720 1730 1740 1750
LKTKIFLGQN PDFEIEIADE VEAAEDWFKT HIPIMSLEAV RAQWVHKLIS
1760 1770 1780 1790 1800
REDREFRIGD ITTEQFTDDH SKNRGQELTN AAERYEAIYP RHKGTDTATF
1810 1820 1830 1840 1850
LMAVKKRLSF SSPAAEHAKL RRAKPFGKFL LDTFLKRVPL NSSHDEKMMQ
1860 1870 1880 1890 1900
EAVHAFEEKK LSKSMATIEN HSGRSCEDWP VDKALIFMKS QLCTKFDNRF
1910 1920 1930 1940 1950
RSAKAGQTLA CFQHSVLCRF APYMRYIESK VTEVLPKNLY IHSGKNIDDL
1960 1970 1980 1990 2000
AAWVTTSKFN GVCTESDYEA FDASQDHFIL AFELEVMKFL GLPSDLIADY
2010 2020 2030 2040 2050
TFIKTHLGSK LGSFAIMRFT GEASTFLFNT MANMLFTFLR YDLNGREAIC
2060 2070 2080 2090 2100
FAGDDMCANS RLKVTNRFSN FLDKIKLKAK VQFTATPTFC GWGLCEHGVF
2110 2120 2130 2140 2150
KKPDLVLERL QIARETRNLE NCIDNYAIEV SCAYKMGENL NLYLTPQEVD
2160 2170 2180
AHYNCVRFIV QHNHLLKSNI RDLFKGESLP ASS
Length:2,183
Mass (Da):247,262
Last modified:November 1, 1996 - v1
Checksum:i2156D7A75A548CC5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D21829 Genomic RNA. Translation: BAA04853.1.
RefSeqiNP_604464.1. NC_003462.2.

Genome annotation databases

GeneIDi935270.
KEGGivg:935270.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D21829 Genomic RNA. Translation: BAA04853.1.
RefSeqiNP_604464.1. NC_003462.2.

3D structure databases

ProteinModelPortaliQ64962.
ModBaseiSearch...
MobiDBiSearch...

Protein family/group databases

MEROPSiC23.001.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi935270.
KEGGivg:935270.

Family and domain databases

Gene3Di2.60.120.590. 1 hit.
3.40.50.300. 1 hit.
InterProiIPR027351. (+)RNA_virus_helicase_core_dom.
IPR027450. AlkB-like.
IPR002588. Alphavirus-like_MT_dom.
IPR003323. OTU_dom.
IPR005123. Oxoglu/Fe-dep_dioxygenase.
IPR027417. P-loop_NTPase.
IPR008041. Peptidase_C23.
IPR007094. RNA-dir_pol_PSvirus.
IPR001788. Tymovirus_RNA-dep_RNA_pol.
[Graphical view]
PfamiPF03171. 2OG-FeII_Oxy. 1 hit.
PF05379. Peptidase_C23. 1 hit.
PF00978. RdRP_2. 1 hit.
PF01443. Viral_helicase1. 1 hit.
PF01660. Vmethyltransf. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
PROSITEiPS51743. ALPHAVIRUS_MT. 1 hit.
PS51471. FE2OG_OXY. 1 hit.
PS50802. OTU. 1 hit.
PS51492. PEPTIDASE_C23. 1 hit.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRDRP_ASPVP
AccessioniPrimary (citable) accession number: Q64962
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 2, 2010
Last sequence update: November 1, 1996
Last modified: September 7, 2016
This is version 88 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Multifunctional enzyme, Reference proteome

Documents

  1. Peptidase families
    Classification of peptidase families and list of entries
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.