Reviewed, UniProtKB/Swiss-Prot Q91PP5 (POLG_RTSVT)

Names and origin

Protein names	Recommended name:     Genome polyprotein Cleaved into the following 7 chains:     1- Recommended name:             Putative leader protein     2- Recommended name:             Capsid protein 1                 Short name=CP-1         Alternative name(s):             22.5 kDa protein             Coat protein 1     3- Recommended name:             Capsid protein 2                 Short name=CP-2         Alternative name(s):             26 kDa protein             Coat protein 2     4- Recommended name:             Capsid protein 3                 Short name=CP-3         Alternative name(s):             31 kDa protein             Coat protein 3     5- Recommended name:             Putative helicase               EC=3.6.1.-         Alternative name(s):             Putative NTP-binding protein     6- Recommended name:             Probable picornain 3C-like protease                 Short name=3C-like protease               EC=3.4.22.-     7- Recommended name:             Probable RNA-directed RNA polymerase               EC=2.7.7.48
Organism	Rice tungro spherical virus (strain Vt6) (RTSV) (Rice tungro spherical waikavirus) [Complete proteome]
Taxonomic identifier	337080 [NCBI]
Taxonomic lineage	Viruses › ssRNA positive-strand viruses, no DNA stage › Picornavirales › Sequiviridae › Waikavirus
Virus host	Oryza sativa (Rice) [TaxID: 4530]

Protein attributes

Sequence length	3471 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Picornain 3C-like protease is a thiol protease that probably cleaves the polyprotein By similarity.
Catalytic activity	Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).
Subcellular location	Capsid protein 1: Virion Potential. Capsid protein 2: Virion Potential. Capsid protein 3: Virion Potential. Putative helicase: Host membrane; Multi-pass membrane protein Potential.
Post-translational modification	Specific enzymatic cleavages by picornain 3C-like protease in vivo yield mature proteins By similarity. Picornain 3C-like protease is autocatalytically processed.
Miscellaneous	The Vt6 strain is a highly virulent strain.
Sequence similarities	Contains 1 peptidase C3 domain. Contains 1 RdRp catalytic domain. Contains 1 SF3 helicase domain.

Ontologies

Keywords
Biological process	RNA replication
Cellular component	Capsid protein Membrane Virion
Domain	Coiled coil Transmembrane
Ligand	ATP-binding Nucleotide-binding
Molecular function	Helicase Hydrolase Nucleotidyltransferase Protease RNA-directed RNA polymerase Thiol protease Transferase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	transcription, RNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW viral genome replication Inferred from electronic annotation. Source: InterPro
Cellular component	integral to membrane Inferred from electronic annotation. Source: UniProtKB-KW viral capsid Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW RNA binding Inferred from electronic annotation. Source: InterPro RNA helicase activity Inferred from electronic annotation. Source: InterPro RNA-directed RNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW cysteine-type peptidase activity Inferred from electronic annotation. Source: UniProtKB-KW structural molecule activity Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 641	641	Putative leader protein Potential		PRO_0000041147
	Chain	642 – 849	208	Capsid protein 1 By similarity		PRO_0000041148
	Chain	850 – 1052	203	Capsid protein 2 By similarity		PRO_0000041149
	Chain	1053 – ?1367	315	Capsid protein 3 By similarity		PRO_0000041150
	Chain	?1368 – 2523	1156	Putative helicase Potential		PRO_0000041151
	Chain	2524 – ?2849	326	Probable picornain 3C-like protease By similarity		PRO_0000041152
	Chain	?2850 – 3471	622	Probable RNA-directed RNA polymerase By similarity		PRO_0000041153
Regions
	Transmembrane	1493 – 1513	21	Potential
	Transmembrane	1592 – 1612	21	Potential
	Transmembrane	2360 – 2380	21	Potential
	Domain	1748 – 1914	167	SF3 helicase
	Domain	3152 – 3283	132	RdRp catalytic
	Nucleotide binding	1774 – 1781	8	ATP Potential
	Coiled coil	513 – 603	91	Potential
Sites
	Active site	2677	1	For picornain 3C-like protease activity By similarity
	Active site	2719	1	For picornain 3C-like protease activity By similarity
	Active site	2808	1	For picornain 3C-like protease activity By similarity
	Site	641 – 642	2	Cleavage By similarity
	Site	849 – 850	2	Cleavage By similarity
	Site	1052 – 1053	2	Cleavage By similarity
	Site	2523 – 2524	2	Cleavage By similarity
Experimental info
	Mutagenesis	2763	1	C → W: Complete loss of cleavage between 3C-like protease and RNA-directed RNA polymerase. Ref.2

Sequences

	Sequence		Length	Mass (Da)
	Q91PP5-1 [UniParc]. Last modified December 1, 2001. Version 1. Checksum: 82B008325F931FB3	FASTA	3,471	389,212
	10 20 30 40 50 60 MQSFLLSSKN QAKLLHAGLE FVGGVRCAHQ GWVSGKAVVF CNYCNFAHRL YRFYTKNHCV 70 80 90 100 110 120 LNKETIENLC GRSFVSLYRA GLLLDDFTID DLLGKGKYAK GSIDNLSIPF DDCALCPNAG 130 140 150 160 170 180 TRLSQTGVSH DHFVCNYVEH LFECASFSRE TGGKFIRACS KGWHWNATCT TCGASCRFAN 190 200 210 220 230 240 PRENVVIAIF MNFLRVMYDG NKYYVSLHCD TEWIPVHPLF ARLVLMVRGF APLDNSHVIE 250 260 270 280 290 300 EDEMDICGHP SEVTYDDPSN YAFSHQHVTR GVGMGHLAFC RDANGVDRGE HKFYLHGPFD 310 320 330 340 350 360 LKMTHAMFRV FMILLNCHGY VQSEFREEHP AVKDRSLCAL LSVAGLRGVN IACNEEFIHL 370 380 390 400 410 420 HSQFHNGSFR SQRPIPMVYA EPEMYPPLEY VRLTESWVPR GRVMIDDLPS LLSRVYAESS 430 440 450 460 470 480 QPHAGEIYEE IFDEDDLFEL GDDEGTSTRG LLDLGRRLGG LLLGATKCVK GLHAVIEWPV 490 500 510 520 530 540 DVLTKEAEDL GTWLADNKKY VSESTWSCQV CPEVQDALEK SMREQAKLNA QVIGGIKKLA 550 560 570 580 590 600 TTMDSATSKL KDSLKELERR ISVLEQGVDE TQQARITNLE NFCEDAAKAF DALRADIDAL 610 620 630 640 650 660 KKKPAQSVTP LPSPSGNSGT AGEQRPPPRR RPPVVEMSEA QAGETVIVGG DEEQEAHQDS 670 680 690 700 710 720 SVAAAGPTDE HNAMLQKIYL GSFKWKVSDG GGSILKTFSL PSDIWAANDR MKNFLSYFQY 730 740 750 760 770 780 YTCEGMTFTL TITSIGLHGG TLLVAWDALS SATRRGIVSM IQLSNLPSMT LHASGSSIGT 790 800 810 820 830 840 LTVTSPAIQH QICTSGSEGS IANLGSLVIS VANVLCADSA SAQELNVNAW VQFDKPKLSY 850 860 870 880 890 900 WTAQHTIAQS GGFEESQDLG DLQAIIATGK WSTTSDKNLM EIIVHPTACY VSEKLIYQTN 910 920 930 940 950 960 LSVVAHMFAK WSGSMKYTFV FGASMFDRGK IMVSAVPVQF RNSKLTLSQM AAFPSMVCDL 970 980 990 1000 1010 1020 SVETREFTFE VPYISIGKMS LVCKDYLFDI SSYNADLVVS RLHVMILDPL VKTGNASNSI 1030 1040 1050 1060 1070 1080 GFYVVAGPGK DFKLHQMCGV KSQFAHDVLT AQDFGRSLSC SRLLGNGFKE WCSRESLLMR 1090 1100 1110 1120 1130 1140 IPLKNGKKRA FKYAVTPRMR TLPPEATSLS WLSQIFVEWR GSLTYTIHVQ SGSAIQHSYM 1150 1160 1170 1180 1190 1200 RIWYDPNGKT DEKEIKFLDS AHPPAGIKVY HWDLKIGDSF RFTVPYCART EKLQIPKAYA 1210 1220 1230 1240 1250 1260 STPYEWLTMY NGAVTIDLRS GADMELFVSI AGGDDFEMFE QTVPPKCGSV SDSYTVLSYA 1270 1280 1290 1300 1310 1320 DDIKSVTEVP NKTTYLADEQ PTTSAPRTST VDTEEDPPTE GEIARTSNGT LVQYRGGAWK 1330 1340 1350 1360 1370 1380 PMVERTPTMS KKQVGPELVA SDSHMYKCIK NMNKNVKILT DRQCTAKLAD IVDSTQGLVG 1390 1400 1410 1420 1430 1440 SNSTFVEDLA VGAKQIRKFG ESLEVFEGSM SAAKTAELID NTHAAFSGPA DGSPISNVVQ 1450 1460 1470 1480 1490 1500 LLLPMLSSIK GMSGKMESKM ASLTAMFQPC KKAITHLIER SFPYLACKGF KTDKWIWAAL 1510 1520 1530 1540 1550 1560 ASILVGAALL HYYRSDLKFV KKWSVMCMII WAPLLAEKAY HLGTWIKEKF LKSLPRTRTI 1570 1580 1590 1600 1610 1620 KDSCRKHSLA GAFECLASAS CAYIKDNWAK TMSSLLTILS VVASLVMWGK IPDDKEITSF 1630 1640 1650 1660 1670 1680 ADKFHSIGKK GRSITNIIGG FEKITSVCKK WSETLVGWIV SNVSGGIPKE DLAMTAYLGF 1690 1700 1710 1720 1730 1740 KIHDWVRETR DMALMENRFQ GFGGDEHLVR VRRLYGHSLK IDNALMEKQI VPDMQLSLII 1750 1760 1770 1780 1790 1800 KECRQKCLEL MNESYTYKGM KQSRIDPLHV CMLGAPGVGK STIAHVVINN LLDHRGEPEV 1810 1820 1830 1840 1850 1860 DRIYTRCCAD AYWSNYHQEP VILYDDLGAI KSNLRLSDYA EIMGIKTNDP FSVPMAAVED 1870 1880 1890 1900 1910 1920 KGKHCTSKYV FSCTNVLNLD DTGDVVTKMA YYRRRNVLVK VERDPDVPKN EANPTEGLVF 1930 1940 1950 1960 1970 1980 TVLGHDQNCQ GDPQFVVKEN WDEPFLREVD TEGWRFERVE YRTFLRFLCM YTDAYMYSQE 1990 2000 2010 2020 2030 2040 QVLQGIKTFK MNPFAPEPEF AQAQSGEAAE CEIVEETQEI PGEAPQEVKE LAKIETAPNM 2050 2060 2070 2080 2090 2100 DELVEAFNKL RVTPGHLNEI LRDGSGCYID EWAIAGPRWL SFHELLPFTC GCHHTRVCDF 2110 2120 2130 2140 2150 2160 NIVYNNMCKA VRSQSVHFKY RANQAIKYAY THKLHSQCRY SIDFEKLREC NPLDVFVCVL 2170 2180 2190 2200 2210 2220 SKYTADDHSF ERRCPKKMNV VRMQRPPVFE LKMRPPSDSV VVEDDQGQRA FEWPHLYTFL 2230 2240 2250 2260 2270 2280 RYRAIEFKDD KGSLTVREDA SADVCPWNEF LKLPWLDGDQ LKSVLPAHLH RMVQARLEQV 2290 2300 2310 2320 2330 2340 EIMEENGNYS GEMRNAIAEI KEYLDQDHQW VAALVLVACA VKERRKMTHD KLHRKSFNAL 2350 2360 2370 2380 2390 2400 DRLDKWYTTT APKTSKKMKI LLAIGASVAV AGVAVGAVIL LQKTNLFGSK EDEEIEGEEG 2410 2420 2430 2440 2450 2460 ETQASGAHES DGIVTQHLKR DIRPKMRVTY TDHHVAEAHE EKSTEKPRKP GNPTRKNFLG 2470 2480 2490 2500 2510 2520 LSPGFAERGM GVTYEEHTPL KDALLDESNK VFRRKIVASV ESAVKQGGKA SKDSVLSQIS 2530 2540 2550 2560 2570 2580 EWQDKVRATG VIAARQLEAS GSLKKIHNLN SRRTSSHVMP GLVVHDGTFE RSDEVDAELH 2590 2600 2610 2620 2630 2640 RITIDEVKSC PKMIKEGVST LSVKKASVGV LALQKAESQL SFPFTSRAGV DRDLSMTNLI 2650 2660 2670 2680 2690 2700 DTHMAGMSCI IISELGNVFR TFGVLRLCGT YVCMPAHYLD EITSEHTLYF VCPSKITQIQ 2710 2720 2730 2740 2750 2760 LERHRVCLVN GFQETVVWDL GPSVPPSRNY IDFTAKADDW KNYKATSGAL VMSKYLVDSM 2770 2780 2790 2800 2810 2820 LQCVHFLDSI ELTEANVSVP TSYYEANGGI HTIISGLRYR VHCMPGFCGA AIMRADATCY 2830 2840 2850 2860 2870 2880 RKIIGMHVSG LRNKCMGYAE TLTQEHLMRA IETLKETGLL KHIPRGAIGA GEEKLPEHSK 2890 2900 2910 2920 2930 2940 KQSLSLEGKG NLGIVGQLPA QLVPTSVTKT TICKSMIHGL IGEIKTEPSV LSAWDRRLPF 2950 2960 2970 2980 2990 3000 PPGEWDPMKD AVKKYGSYIL PFPTEEIQEV ENFLIKKFRR KENSRRTRNV NSLEVGINGI 3010 3020 3030 3040 3050 3060 DGSDFWSPIE MKTSPGYPYI LKRPSGAQGK KYLFEELEPY PSGRPKYAMK DPELIENYER 3070 3080 3090 3100 3110 3120 IKEEVTSGVK PSIMTMECLK DERRKLAKIY EKPATRTFTI LSPEVNILFR QYFGDFAAMV 3130 3140 3150 3160 3170 3180 MSTRREHFSQ VGINPESMEW SDLINSLLRV NTKGFAGDYS KFDGIGSPAI YHSIVNVVNA 3190 3200 3210 3220 3230 3240 WYDDGEVNAR ARHSLISSIV HRDGICGDLI LRYSQGMPSG FAMTVIFNSF VNYYFMALAW 3250 3260 3270 3280 3290 3300 MSTVGSSLLS PQGSCKDFDT YCKIVAYGDD NVVSVHEEFL DVYNLQTVAA YLSHFGVTYT 3310 3320 3330 3340 3350 3360 DGDKNPIHMS KPYEDITKMS FLKRGFERVE SSGFLWKAPL DKTSIEERLN WIRDCPTPVE 3370 3380 3390 3400 3410 3420 ALEQNIESAL HEAAIHGRDY FDDLVQRLNS ALKRVMLPPT DISFEECQAR WWASVTGDAL 3430 3440 3450 3460 3470 RAADYSSLVR RASSGHVEFN KKYRDMFRQQ DLPLKEILMK SKPVALLDLE V

References

[1]	"Complete nucleotide sequence of the rice tungro spherical virus genome of the highly virulent strain Vt6." Isogai M., Cabauatan P.Q., Masuta C., Uyeda I., Azzam O. Virus Genes 20:79-85(2000) [PubMed: 10766310] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[2]	"3C-like protease encoded by Rice tungro spherical virus is autocatalytically processed." Sekiguchi H., Isogai M., Masuta C., Uyeda I. Arch. Virol. 150:595-601(2005) [PubMed: 15503215] [Abstract] Cited for: PROTEOLYTIC PROCESSING OF PICORNAIN 3C-LIKE PROTEASE, MUTAGENESIS OF CYS-2763.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AB064963 Genomic RNA. Translation: BAB61927.1.
3D structure databases
ModBase	Search...
Protein family/group databases
MEROPS	C03.024.
Family and domain databases
InterPro	IPR000605. Helicase_SF3_ssDNA/RNA_vir. IPR014759. Helicase_SF3_ssRNA_vir. IPR001676. Picornavirus_capsid. IPR001205. RNA_pol_P3D. IPR007094. RNA_pol_PSvir. [Graphical view]
Pfam	PF00680. RdRP_1. 1 hit. PF00073. Rhv. 1 hit. PF00910. RNA_helicase. 1 hit. [Graphical view]
PROSITE	PS50507. RDRP_SSRNA_POS. 1 hit. PS51218. SF3_HELICASE_2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

POLG_RTSVT

Accession

Primary (citable) accession number: Q91PP5

Entry history

Integrated into UniProtKB/Swiss-Prot:	August 30, 2005
Last sequence update:	December 1, 2001
Last modified:	June 16, 2009
This is version 43 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

Virus (Virus annotation project)