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Protein

Genome polyprotein

Gene
N/A
Organism
Sweet potato mild mottle virus (isolate Salazar) (SPMMV)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

Coat protein: involved in aphid transmission, cell-to-cell and systemis movement, encapsidation of the viral RNA and in the regulation of viral RNA amplification.By similarity
Nuclear inclusion protein B: an RNA-dependent RNA polymerase that plays an essential role in the virus replication.By similarity
Helper component proteinase: required for aphid transmission and also has proteolytic activity. Only cleaves a Gly-Gly dipeptide at its own C-terminus. Interacts with virions and aphid stylets. Acts as a suppressor of RNA-mediated gene silencing, also known as post-transcriptional gene silencing (PTGS), a mechanism of plant viral defense that limits the accumulation of viral RNAs. May have RNA-binding activity (By similarity).By similarity
Cytoplasmic inclusion protein: has helicase activity. It may be involved in replication (By similarity).By similarity
Both 6K peptides are indispensable for virus replication.By similarity
Nuclear inclusion protein A: has RNA-binding and proteolytic activities.By similarity

Catalytic activityi

Hydrolyzes glutaminyl bonds, and activity is further restricted by preferences for the amino acids in P6 - P1' that vary with the species of potyvirus, e.g. Glu-Xaa-Xaa-Tyr-Xaa-Gln-|-(Ser or Gly) for the enzyme from tobacco etch virus. The natural substrate is the viral polyprotein, but other proteins and oligopeptides containing the appropriate consensus sequence are also cleaved.
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).PROSITE-ProRule annotation
Hydrolyzes a Gly-|-Gly bond at its own C-terminus, commonly in the sequence -Tyr-Xaa-Val-Gly-|-Gly, in the processing of the potyviral polyprotein.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei1083For helper component proteinase activityPROSITE-ProRule annotation1
Active sitei1155For helper component proteinase activityPROSITE-ProRule annotation1
Active sitei2457For nuclear inclusion protein A activityPROSITE-ProRule annotation1
Active sitei2494For nuclear inclusion protein A activityPROSITE-ProRule annotation1
Active sitei2566For nuclear inclusion protein A activityPROSITE-ProRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi1630 – 1637ATPPROSITE-ProRule annotation8

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

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

Keywords - Biological processi

Viral RNA replication

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Protein family/group databases

MEROPSiC04.013.

Names & Taxonomyi

Protein namesi
Recommended name:
Genome polyprotein
Cleaved into the following 10 chains:
Alternative name(s):
N-terminal protein
Helper component proteinase (EC:3.4.22.45)
Short name:
HC-pro
6 kDa protein 1
Short name:
6K1
6 kDa protein 2
Short name:
6K2
Alternative name(s):
VPg
Nuclear inclusion protein A (EC:3.4.22.44)
Short name:
NI-a
Short name:
NIa
Alternative name(s):
49 kDa proteinase
Short name:
49 kDa-Pro
NIa-pro
Nuclear inclusion protein B (EC:2.7.7.48)
Short name:
NI-b
Short name:
NIb
Alternative name(s):
RNA-directed RNA polymerase
Capsid protein
Short name:
CP
Alternative name(s):
Coat protein
OrganismiSweet potato mild mottle virus (isolate Salazar) (SPMMV)
Taxonomic identifieri652105 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA positive-strand viruses, no DNA stagePotyviridaeIpomovirus
Virus hostiIpomoea batatas (Sweet potato) (Convolvulus batatas) [TaxID: 4120]
Proteomesi
  • UP000007084 Componenti: Genome

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Capsid protein, Helical capsid protein, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004200241 – 3456Genome polyproteinAdd BLAST3456
ChainiPRO_50001476931 – 743P1 proteinaseSequence analysisAdd BLAST743
ChainiPRO_5000147694744 – 1196Helper component proteinaseAdd BLAST453
ChainiPRO_50001476951197 – 1489Protein P3Sequence analysisAdd BLAST293
ChainiPRO_50001476961490 – 15416 kDa protein 1Add BLAST52
ChainiPRO_50001476971542 – 2181Cytoplasmic inclusion proteinAdd BLAST640
ChainiPRO_00004024922182 – 22346 kDa protein 2Add BLAST53
ChainiPRO_00004024932235 – 2411Viral genome-linked proteinAdd BLAST177
ChainiPRO_00004024942412 – ?2642Nuclear inclusion protein AAdd BLAST231
ChainiPRO_0000402495?2643 – ?3180Nuclear inclusion protein BAdd BLAST538
ChainiPRO_5000147698?3181 – 3456Capsid proteinAdd BLAST276

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2304O-(5'-phospho-RNA)-tyrosineBy similarity1

Post-translational modificationi

VPg is uridylylated by the polymerase and is covalently attached to the 5'-end of the genomic RNA. This uridylylated form acts as a nucleotide-peptide primer for the polymerase (By similarity).By similarity
Genome polyprotein of potyviruses undergoes post-translational proteolytic processing by the main proteinase NIa-pro resulting in the production of at least ten individual proteins. The P1 proteinase and the HC-pro cleave only their respective C-termini autocatalytically. 6K1 is essential for proper proteolytic separation of P3 from CI (By similarity).By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei743 – 744Cleavage; by P1 proteinaseSequence analysis2
Sitei1196 – 1197Cleavage; by autolysisPROSITE-ProRule annotation2
Sitei1489 – 1490Cleavage; by NIa-proSequence analysis2
Sitei1541 – 1542Cleavage; by NIa-proSequence analysis2
Sitei2181 – 2182Cleavage; by NIa-proSequence analysis2
Sitei2234 – 2235Cleavage; by NIa-proSequence analysis2
Sitei2411 – 2412Cleavage; by NIa-proSequence analysis2

Keywords - PTMi

Covalent protein-RNA linkage, Phosphoprotein

Proteomic databases

PRIDEiP89201.

Structurei

3D structure databases

ProteinModelPortaliP89201.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini1075 – 1196Peptidase C6PROSITE-ProRule annotationAdd BLAST122
Repeati1094 – 1126HAT 1Add BLAST33
Domaini1617 – 1768Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST152
Domaini1787 – 1947Helicase C-terminalPROSITE-ProRule annotationAdd BLAST161
Domaini2412 – 2636Peptidase C4PROSITE-ProRule annotationAdd BLAST225
Repeati2597 – 2629HAT 2Add BLAST33
Domaini2891 – 3011RdRp catalyticPROSITE-ProRule annotationAdd BLAST121
Repeati3082 – 3115HAT 3Add BLAST34

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi178 – 260Glu-richAdd BLAST83

Sequence similaritiesi

Contains 3 HAT repeats.Curated
Contains 1 helicase ATP-binding domain.PROSITE-ProRule annotation
Contains 1 helicase C-terminal domain.PROSITE-ProRule annotation
Contains 1 peptidase C4 domain.PROSITE-ProRule annotation
Contains 1 peptidase C6 domain.PROSITE-ProRule annotationCurated
Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR001456. HC-pro.
IPR031159. HC_PRO_CPD_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR025910. P1_Ser_Pept_dom.
IPR009003. Peptidase_S1_PA.
IPR001592. Poty_coat.
IPR001730. Potyv_NIa-pro_dom.
IPR013648. PP_Potyviridae.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
[Graphical view]
PfamiPF00271. Helicase_C. 1 hit.
PF00863. Peptidase_C4. 1 hit.
PF00851. Peptidase_C6. 1 hit.
PF13611. Peptidase_S76. 1 hit.
PF00767. Poty_coat. 1 hit.
PF08440. Poty_PP. 1 hit.
PF00680. RdRP_1. 1 hit.
[Graphical view]
PRINTSiPR00966. NIAPOTYPTASE.
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
PROSITEiPS51744. HC_PRO_CPD. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51436. POTYVIRUS_NIA_PRO. 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.

P89201-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGKSKLTYKQ CIAKWGKAAL EAQNNGSRRS VSVGTHQIAA NIFAFYDAKD
60 70 80 90 100
YHLFAMGKRG GLTPAAEQLR IAIARGTIYK VQYNCHFCPD CDVIVDSEEG
110 120 130 140 150
WFCEDCGSQF NKRDDNVLDN KNDVARALGG WNEYEDATWA LFEAARADML
160 170 180 190 200
EVAPTVGQLE KEIRAIEKSA GKKLTAYEEE MLEELAYKLD VAKMNEEKQE
210 220 230 240 250
EVLEETNFSI SNDEFPALNG PQDEEVNVVI EETTEESAIE VAKEAEKSVE
260 270 280 290 300
FEIIHEKTDE PISDAVNARM VATPVVATSV TKSGTVIDGK ELVEKPKTTM
310 320 330 340 350
WVTKPKTTAA IPATSSKSAV WVAKPKPASA IFIAEPVVKP AVRACNDVMN
360 370 380 390 400
IGAMVCPIMV SANAQVEDAT KEEEPVIKYN ITFGSFNYEV STKGERIQAA
410 420 430 440 450
VQLDEIIEGP DIEPILICQT GSSHKSETKK AAKGLFVQDK FSVIGNKVLC
460 470 480 490 500
KSFPAFNNFM NETRLGGIYR TRKGNYKNAA LRLLKATKVQ VFYDGIKDIF
510 520 530 540 550
ECPYCHVSSN ELEGLNGDNC EKCKDLFYKH IDDPRKVEEE YLMVPLVPID
560 570 580 590 600
QHVHEEHSII SKAKWEAHES ICEGEVNIVK IFDGKPTASK KKFKTMQAPN
610 620 630 640 650
VANIPLDDFM QELVEICLER NTPIEIIGGV KSFNVVKLRH ATRDISKSGE
660 670 680 690 700
DDMYPTEREW FCHKNKLCLC GGIEREKKVR SFEVRPGWSG VILHKNQVAE
710 720 730 740 750
CDWDKFVFID DICVVQGRNL ITNKIENALE KKGATRLKQI QFYASSVVPN
760 770 780 790 800
FKDEFDRASR LKADHEPYES SNNELIGRLA RLVAAVIPKG HLYCKTCCLR
810 820 830 840 850
VIKSKRADIV NALSKAKQRG ERDEFIYDEL IKLFELQAPP PYKIATITSD
860 870 880 890 900
DDMFAHIRIG WKPYSGRLSL IMQHLQGLHT SISMLHQSLA GAQNDQQIDR
910 920 930 940 950
QALHNQVRIL HQRNEEHMPF LKKAVDEIQL LNATDQVANA RELYLDTRAT
960 970 980 990 1000
STGDFDILRK YQSIYEFFPN IMSRANKVGM AVIKSETSLS KAFALMDNAK
1010 1020 1030 1040 1050
SMNAIHTLIG EDVIDNTSGA CLMKNDKTFF SIGCKQGVDG SKMYGPLCPT
1060 1070 1080 1090 1100
KQHVRIHRVE SNMQIPLPTF HDATVWEFNE GYCYANQLAI MVGFINEDEM
1110 1120 1130 1140 1150
EFYKNQMNQI VLNLGAWPTF EQYLVELRAI SLDYPKVRGC PAAIHLVSHA
1160 1170 1180 1190 1200
NKLIHVLGQF GTINQGWHAL EVATVGELVD LCHKKVEGEM LTYKVGGIYD
1210 1220 1230 1240 1250
WVTKKNAFID LFEHHPENIF KICTSPSVLW LFARSCEKHD FINDIMARDH
1260 1270 1280 1290 1300
SLVGLFIKLE YVGKHLHIFQ SVDDVCVEYA ASMREIIEEH ADIHGLRDSV
1310 1320 1330 1340 1350
VDRMVHAYHN EVREANKYEL VDRILEKNIG LIAKEISSRK LITMYHRDLF
1360 1370 1380 1390 1400
SWHEWQRLKL MPHSSNAQKL FEEANERAYG KQSWNLRVIW GACKEVLYAA
1410 1420 1430 1440 1450
THGVYVRVKG TTVRCADAVV YGFYGRTRAM VSSWASEAWG AIFTSCLRAL
1460 1470 1480 1490 1500
VVMVVTAYIS TWIPKIRKMI KREKKQFEDL GDGELYVEQH GKKEEAFLFK
1510 1520 1530 1540 1550
ICAIFALIAG IVDYEWGAAA CATMNKVRSI CTVLGSVGIE SHANEPNDKV
1560 1570 1580 1590 1600
EQDLKESLKF TSFEIEVPTW FYHNDMTFER WFQHQIQYGN VCADPIYSGP
1610 1620 1630 1640 1650
LRMLAITESS AREVAMNIRT SGETDVRVYS GVGGGKSTRL PKELSMFGHV
1660 1670 1680 1690 1700
LICVPTRVLA ESLLTSFMVL FNMDVNVAYR GRIHTGNAPI TIMTYGYALN
1710 1720 1730 1740 1750
FLVHKPMELN RYDYVLLDEI NTNPVEFAPL FSFIKTTDPK KKIVKLSATH
1760 1770 1780 1790 1800
AGMDCECETR HKIKVETLSE MPIESWVSMQ GSGVVGDATS VGDVILVFVA
1810 1820 1830 1840 1850
SFKDVDTCAN GLRSKGFKVL KVDSRNFRRD ADVDKQIQSL GEGKKFIVAT
1860 1870 1880 1890 1900
NIIENGVTFN IDVVVDFGEK ISPNLSSDER CITLGRQRIS RAERIQRFGR
1910 1920 1930 1940 1950
AGRIKPGTVL RFGRGNLVDA LPSVLTATES ALLCFAHGIK PVCDRVDVAA
1960 1970 1980 1990 2000
IGTLTRQQAL VSGQFELNKL LVAHSATPSG QIPRVVYELF KPLLLRTDAV
2010 2020 2030 2040 2050
PICSSYNAIA ACNWLPLSTY MRRNEKNEHV LATKIPWYCS DLSEDFNIKL
2060 2070 2080 2090 2100
AECVKSCMST SNARFIVDNV NFITVAHKIS VGEKTVGQAK LMVGELLENS
2110 2120 2130 2140 2150
KSWRDGLLHV QSSSVTRSLV GLCTSWYQRR AKAALDRLDL QVNRLQLLYD
2160 2170 2180 2190 2200
QLGQVEITSD YDKLVEFFTE NGECAAYLES QSKTDFLEKH VLELRQPAIT
2210 2220 2230 2240 2250
KNVVGTAMFA VALTGCLFWW WMKRNEKYEF IEQHGKKIRL NRDKRNACFV
2260 2270 2280 2290 2300
FSGTDDAMVE EYGVEYSQDV IHGRMSKAQK ARQMKLKGKK PGSDTRVKPF
2310 2320 2330 2340 2350
KVLYGIDPND YDTVALSAGG LTTEAVPVGE ASLIDLMLEL DDETGIFRKQ
2360 2370 2380 2390 2400
VVNELKLKYT NNANGEQAMV RLTPHDSRRA TIGSFMPSGF PDHHGEWRQT
2410 2420 2430 2440 2450
GAAEIIKEKN VAVDSHVGTP TVDAEDKHIA SRLAIVRTHK GETHGIFHGD
2460 2470 2480 2490 2500
KLITPFHTFK NACGNDTLTV QSLRGLYDYG ILSRQKMEQV PKQDIMVLVN
2510 2520 2530 2540 2550
PIDVTPFKQS QIFRPPIQCE VAYMIVCRRT PNGLRFEKTQ ETEIFPLGKQ
2560 2570 2580 2590 2600
YGGVWKHGCD TRLGDCGGPI IACRDRKIVG FNGGRLMQMK YNTVLAHIFE
2610 2620 2630 2640 2650
PVNETFIEML AKMEYAKGFW KFNPELVEWS RLLPTTTSFP IQKQIQGVES
2660 2670 2680 2690 2700
HGKPGDKCCG GNLISVGFAN VTRISKHVIK GKRPSFVEYC NTYPDNIFMR
2710 2720 2730 2740 2750
DNLCEHYGPS ILSKAAFYKD FTKYDDPVKV GRLDCYAFDT ALAMVHDTLS
2760 2770 2780 2790 2800
QLGFHGNSGS QWDIAEIFDD LNKKSSMGAL YSGKKGQWMH GLTPEDAISL
2810 2820 2830 2840 2850
AVESYALLNS GHLGVWSGSL KAELRHVDKL KEGKTRVFTG APIDTLLAGK
2860 2870 2880 2890 2900
ILVDNFNNYF YKCHLQGPWT VGINKFNRGW NKLANYFNHD WVFIDCDGSR
2910 2920 2930 2940 2950
FDSSIPPIMF NAVCMLRSVF GDLDPDENQT LSNLYTEIVN TPILTIEGNI
2960 2970 2980 2990 3000
IRKFRGNNSG QPSTVVDNTL ILMIAMEYAI AKVFVTRPDI KYVCNGDDLL
3010 3020 3030 3040 3050
INCPRSTANA ISEHFKDVFA DLSLNYDFDH VCDKITDVDF MSHSFMWLDT
3060 3070 3080 3090 3100
EQMYIPKLDK ERIVAILEWE RSDEQFRTRS ALNAAYIESF GYEDLMTEIE
3110 3120 3130 3140 3150
KFAHFWAKKH GLNDVLMERE KVRSLYVDEN FDASRFEKFY PESFSPFDVY
3160 3170 3180 3190 3200
VEPHASTSKT IEELQQEMED LDSDTTITVV QRETQKAGIR DQIEALRAQQ
3210 3220 3230 3240 3250
IVRPPEAQLQ PDVTPAQIVT FEPPRVTGFG ALWIPRQQRN YMTPSYIEKI
3260 3270 3280 3290 3300
KAYVPHSNLI ESGLASEAQL TSWFENTCRD YQVSMDVFMS TILPAWIVNC
3310 3320 3330 3340 3350
IINGTSQERT NEHTWRAVIM ANMEDQEVLY YPIKPIIINA QPTLRQVMRH
3360 3370 3380 3390 3400
FGEQAVAQYM NSLQVGKPFT VKGAVTAGYA NVQDAWLGID FLRDTMKLTT
3410 3420 3430 3440 3450
KQMEVKHQII AANVTRRKIR VFALAAPGDG DELDTERHVV DDVARGRHSL

RGAQLD
Length:3,456
Mass (Da):390,285
Last modified:May 1, 1997 - v1
Checksum:iC8D758543597C72A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z73124 mRNA. Translation: CAA97466.1.
RefSeqiNP_620656.1. NC_003797.1.

Genome annotation databases

GeneIDi944381.
KEGGivg:944381.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z73124 mRNA. Translation: CAA97466.1.
RefSeqiNP_620656.1. NC_003797.1.

3D structure databases

ProteinModelPortaliP89201.
ModBaseiSearch...
MobiDBiSearch...

Protein family/group databases

MEROPSiC04.013.

Proteomic databases

PRIDEiP89201.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi944381.
KEGGivg:944381.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR001456. HC-pro.
IPR031159. HC_PRO_CPD_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR025910. P1_Ser_Pept_dom.
IPR009003. Peptidase_S1_PA.
IPR001592. Poty_coat.
IPR001730. Potyv_NIa-pro_dom.
IPR013648. PP_Potyviridae.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
[Graphical view]
PfamiPF00271. Helicase_C. 1 hit.
PF00863. Peptidase_C4. 1 hit.
PF00851. Peptidase_C6. 1 hit.
PF13611. Peptidase_S76. 1 hit.
PF00767. Poty_coat. 1 hit.
PF08440. Poty_PP. 1 hit.
PF00680. RdRP_1. 1 hit.
[Graphical view]
PRINTSiPR00966. NIAPOTYPTASE.
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
PROSITEiPS51744. HC_PRO_CPD. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51436. POTYVIRUS_NIA_PRO. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPOLG_SPMMV
AccessioniPrimary (citable) accession number: P89201
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 30, 2010
Last sequence update: May 1, 1997
Last modified: September 16, 2015
This is version 101 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, 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.