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Protein

Replicase polyprotein 1ab

Gene

rep

Organism
Lactate dehydrogenase elevating virus (strain Plagemann) (LDV)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

The replicase polyprotein 1ab is a multifunctional protein: it contains the activities necessary for the transcription of negative stranded RNA, leader RNA, subgenomic mRNAs and progeny virion RNA as well as proteinases responsible for the cleavage of the polyprotein into functional products.
The Nsp1 chain is essential for viral subgenomic mRNA synthesis.By similarity
The 3C-like serine proteinase chain is responsible for the majority of cleavages as it cleaves the C-terminus of the polyprotein.By similarity
The helicase chain, which contains a zinc finger structure, displays RNA and DNA duplex-unwinding activities with 5' to 3' polarity.By similarity

Catalytic activityi

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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei76 – 761For Nsp1-alpha papain-like cysteine proteinase activityPROSITE-ProRule annotation1 Publication
Active sitei147 – 1471For Nsp1-alpha papain-like cysteine proteinase activityPROSITE-ProRule annotation1 Publication
Active sitei269 – 2691For Nsp1-beta papain-like cysteine proteinase activityPROSITE-ProRule annotation1 Publication
Active sitei340 – 3401For Nsp1-beta papain-like cysteine proteinase activityPROSITE-ProRule annotation1 Publication
Active sitei390 – 3901For Nsp2 cysteine proteinase activityPROSITE-ProRule annotation
Active sitei456 – 4561For Nsp2 cysteine proteinase activityPROSITE-ProRule annotation
Active sitei1551 – 15511Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation
Active sitei1576 – 15761Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation
Active sitei1628 – 16281Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation
Metal bindingi2850 – 28501Zinc 1PROSITE-ProRule annotation
Metal bindingi2853 – 28531Zinc 1PROSITE-ProRule annotation
Metal bindingi2863 – 28631Zinc 2PROSITE-ProRule annotation
Metal bindingi2868 – 28681Zinc 1PROSITE-ProRule annotation
Metal bindingi2871 – 28711Zinc 1PROSITE-ProRule annotation
Metal bindingi2873 – 28731Zinc 2PROSITE-ProRule annotation
Metal bindingi2875 – 28751Zinc 2PROSITE-ProRule annotation
Metal bindingi2877 – 28771Zinc 2PROSITE-ProRule annotation
Metal bindingi2884 – 28841Zinc 3PROSITE-ProRule annotation
Metal bindingi2886 – 28861Zinc 3PROSITE-ProRule annotation
Metal bindingi2893 – 28931Zinc 3PROSITE-ProRule annotation
Metal bindingi2896 – 28961Zinc 3PROSITE-ProRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri8 – 2821C4-type; atypicalAdd
BLAST
Nucleotide bindingi2992 – 29998ATPBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

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

Keywords - Biological processi

Viral RNA replication

Keywords - Ligandi

ATP-binding, Metal-binding, Nucleotide-binding, Zinc

Protein family/group databases

MEROPSiC31.001.

Names & Taxonomyi

Protein namesi
Recommended name:
Replicase polyprotein 1ab
Alternative name(s):
ORF1ab polyprotein
Cleaved into the following 15 chains:
Alternative name(s):
PCP1-alpha
Alternative name(s):
PCP1-beta
Alternative name(s):
CP2
Short name:
CP
Non-structural protein 3
Short name:
Nsp3
3C-like serine proteinase (EC:3.4.21.-)
Short name:
3CLSP
Alternative name(s):
Nsp4
Non-structural protein 5-6-7
Short name:
Nsp5-6-7
Non-structural protein 5
Short name:
Nsp5
Non-structural protein 6
Short name:
Nsp6
Non-structural protein 7-alpha
Short name:
Nsp7-alpha
Non-structural protein 7-beta
Short name:
Nsp7-beta
Non-structural protein 8
Short name:
Nsp8
RNA-directed RNA polymerase (EC:2.7.7.48)
Short name:
Pol
Short name:
RdRp
Alternative name(s):
Nsp9
Helicase (EC:3.6.4.12, EC:3.6.4.13)
Short name:
Hel
Alternative name(s):
Nsp10
Non-structural protein 11
Short name:
Nsp11
Non-structural protein 12
Short name:
Nsp12
Gene namesi
Name:rep
ORF Names:1a-1b
OrganismiLactate dehydrogenase elevating virus (strain Plagemann) (LDV)
Taxonomic identifieri300016 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA positive-strand viruses, no DNA stageNidoviralesArteriviridaeArterivirus
Virus hostiMus musculus (Mouse) [TaxID: 10090]

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei942 – 96221HelicalSequence analysisAdd
BLAST
Transmembranei977 – 99721HelicalSequence analysisAdd
BLAST
Transmembranei1010 – 103021HelicalSequence analysisAdd
BLAST
Transmembranei1060 – 108021HelicalSequence analysisAdd
BLAST
Transmembranei1085 – 110521HelicalSequence analysisAdd
BLAST
Transmembranei1289 – 130921HelicalSequence analysisAdd
BLAST
Transmembranei1364 – 138421HelicalSequence analysisAdd
BLAST
Transmembranei1386 – 140621HelicalSequence analysisAdd
BLAST
Transmembranei1425 – 144521HelicalSequence analysisAdd
BLAST
Transmembranei1715 – 173521HelicalSequence analysisAdd
BLAST
Transmembranei1737 – 175721HelicalSequence analysisAdd
BLAST
Transmembranei1761 – 178121HelicalSequence analysisAdd
BLAST
Transmembranei1832 – 185221HelicalSequence analysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Host cytoplasm, Host membrane, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi76 – 761C → S: Complete loss of cleavage between nsp1-alpha and nsp1-beta. 1 Publication
Mutagenesisi269 – 2691C → A: Complete loss of cleavage between nsp1-beta and nsp2. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini? – 380Nsp1-beta papain-like cysteine proteinaseBy similarityPRO_0000036647
Chaini1 – 36163616Replicase polyprotein 1abPRO_0000036644Add
BLAST
Chaini1 – ?Nsp1-alpha papain-like cysteine proteinaseBy similarityPRO_0000036646
Chaini381 – 1286906Nsp2 cysteine proteinaseBy similarityPRO_0000036648Add
BLAST
Chaini1287 – 1512226Non-structural protein 3By similarityPRO_0000036649Add
BLAST
Chaini1513 – 17142023C-like serine proteinaseBy similarityPRO_0000036650Add
BLAST
Chaini1715 – 2161447Non-structural protein 5-6-7By similarityPRO_0000036651Add
BLAST
Chaini1715 – 1878164Non-structural protein 5By similarityPRO_0000423114Add
BLAST
Chaini1879 – 189416Non-structural protein 6By similarityPRO_0000423115Add
BLAST
Chaini1895 – 2026132Non-structural protein 7-alphaBy similarityPRO_0000423116Add
BLAST
Chaini2027 – 2161135Non-structural protein 7-betaBy similarityPRO_0000423117Add
BLAST
Chaini2162 – 2843682RNA-directed RNA polymeraseBy similarityPRO_0000036652Add
BLAST
Chaini2162 – 220645Non-structural protein 8By similarityPRO_0000036653Add
BLAST
Chaini2844 – 3272429HelicaseBy similarityPRO_0000036654Add
BLAST
Chaini3273 – 3494222Non-structural protein 11By similarityPRO_0000036655Add
BLAST
Chaini3495 – 3616122Non-structural protein 12By similarityPRO_0000036656Add
BLAST

Post-translational modificationi

Specific enzymatic cleavages in vivo by its own proteases yield mature proteins. There are two alternative pathways for processing. Either nsp4-5 is cleaved, which represents the major pathway or the nsp5-6 and nsp6-7 are processed, which represents the minor pathway. The major pathway occurs when nsp2 acts as cofactor for nsp4 (By similarity).By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei181 – 1822Cleavage; by autolysisSequence analysis
Sitei381 – 3822Cleavage; by autolysisSequence analysis
Sitei1286 – 12872Cleavage; by CP2By similarity
Sitei1512 – 15132Cleavage; by 3CLSPBy similarity
Sitei1714 – 17152Cleavage; by 3CLSPBy similarity
Sitei1878 – 18792Cleavage; by 3CLSPBy similarity
Sitei1894 – 18952Cleavage; by 3CLSPBy similarity
Sitei2026 – 20272Cleavage; by 3CLSPBy similarity
Sitei2161 – 21622Cleavage; by 3CLSPBy similarity
Sitei2843 – 28442Cleavage; by 3CLSPBy similarity
Sitei3272 – 32732Cleavage; by 3CLSPBy similarity
Sitei3494 – 34952Cleavage; by 3CLSPBy similarity

Structurei

3D structure databases

ProteinModelPortaliQ83017.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini69 – 181113Peptidase C31PROSITE-ProRule annotationAdd
BLAST
Domaini262 – 381120Peptidase C32PROSITE-ProRule annotationAdd
BLAST
Domaini381 – 486106Peptidase C33PROSITE-ProRule annotationAdd
BLAST
Domaini1513 – 1714202Peptidase S32PROSITE-ProRule annotationAdd
BLAST
Domaini2590 – 2724135RdRp catalyticPROSITE-ProRule annotationAdd
BLAST
Domaini2844 – 290764AV ZBDPROSITE-ProRule annotationAdd
BLAST
Domaini2964 – 3116153(+)RNA virus helicase ATP-bindingAdd
BLAST
Domaini3117 – 3248132(+)RNA virus helicase C-terminalAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni981 – 1105125HD1Add
BLAST
Regioni1289 – 1448160HD2Add
BLAST
Regioni1737 – 1852116HD3Add
BLAST

Domaini

The hydrophobic domains (HD) could mediate the membrane association of the replication complex and thereby alter the architecture of the host cell membrane.By similarity

Sequence similaritiesi

Belongs to the arteriviridae polyprotein family.Curated
Contains 1 AV ZBD (arterivirus zinc-binding) domain.PROSITE-ProRule annotation
Contains 1 peptidase C31 domain.PROSITE-ProRule annotation
Contains 1 peptidase C32 domain.PROSITE-ProRule annotation
Contains 1 peptidase C33 domain.PROSITE-ProRule annotation
Contains 1 peptidase S32 domain.PROSITE-ProRule annotation
Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri8 – 2821C4-type; atypicalAdd
BLAST

Keywords - Domaini

Transmembrane, Transmembrane helix, Zinc-finger

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR027351. (+)RNA_virus_helicase_core_dom.
IPR031932. Arteri_nsp7a.
IPR008743. Arterivirus_Nsp2_C33.
IPR023338. Arterivirus_NSP4_peptidase.
IPR027355. AV_MBD_dom.
IPR008741. AV_PCPalpha.
IPR025773. AV_PCPbeta.
IPR022230. DUF3756.
IPR008760. EAV_peptidase_S32.
IPR027417. P-loop_NTPase.
IPR009003. Peptidase_S1_PA.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
[Graphical view]
PfamiPF16749. Arteri_nsp7a. 1 hit.
PF12581. DUF3756. 1 hit.
PF05410. Peptidase_C31. 1 hit.
PF05411. Peptidase_C32. 1 hit.
PF05412. Peptidase_C33. 1 hit.
PF05579. Peptidase_S32. 1 hit.
PF00680. RdRP_1. 1 hit.
PF01443. Viral_helicase1. 1 hit.
[Graphical view]
SUPFAMiSSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 2 hits.
PROSITEiPS51538. AV_CP. 1 hit.
PS51493. AV_NSP4_PRO. 1 hit.
PS51539. AV_PCP_ALPHA. 1 hit.
PS51540. AV_PCP_BETA. 1 hit.
PS51652. AV_ZBD. 1 hit.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by ribosomal frameshifting. AlignAdd to basket

Isoform Replicase polyprotein 1ab (identifier: Q83017-1) [UniParc]FASTAAdd to basket
Also known as: pp1ab

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MQSGFDRCLC TPNARVFWEH GQVYCTRCLA ARPLLPLSQQ NPRLGALGLF
60 70 80 90 100
YRPATPLTWE APITYPTKEC RPGGLCWLSG IYPIARMTSG NHNFQARLNF
110 120 130 140 150
VASVVYRDGK LTSKHLEEEF EVYSRGCRWY PITGPVPGIA LYANAVHVSD
160 170 180 190 200
EPFPGCTHVL SNLPLPQQPL RKGLCPFSDA RAEVWRYKGN TIFVSEQGYL
210 220 230 240 250
WTTGSNDSVP EPWGEARRLC EKIIASLPAD HLVKIEFSNY PFDYSFTGGD
260 270 280 290 300
GAGYVLFPCK KNDTKFSKCW EKVFEDHSSW KVACEEADLA DRMGYRTPAG
310 320 330 340 350
VAGPYLARRL QYRGLRAVVK PEQNDYVVWA LGVPESYIRH ISRAGEPVEN
360 370 380 390 400
FFVRVGEFSI VSNCVATPYP KFRFQTRKYY GYSPPGDGAC GLHCISAIIN
410 420 430 440 450
DIFGDALCTK LTNCSRDSSE WLSDQDMYQL VMTARLPATL GHCPSATYKL
460 470 480 490 500
DCVNQHWTVT KRKGDRALGG LSPECVRGVC GGECKFVPTY PREINLELAA
510 520 530 540 550
KSPISALAFS LGVEPYCDCW NFTNSVLVND SLAVETARAG EAYRSAMGIP
560 570 580 590 600
KDDWVLLAEL MTENCLTRRE VLDKLQRGLR LHATSKPGSP ASVSPASSID
610 620 630 640 650
FSAAGLLLDG TESDKEAVVA VNNDCYTVLG FDKNSATKSE QELATGLFSE
660 670 680 690 700
LVEPMETSTS KHESRKILEA ASRALKSAKP KRKRNKKKKT SSPTPTPPET
710 720 730 740 750
PTREVPGAIE VVSGDEEAGA CESATIVPDK AQARPPPRPK RQALKKAEQG
760 770 780 790 800
FILKDIIWNP TESGVKCLTI VEDVRAFLKS ITPPGGALGT RARITAHIVE
810 820 830 840 850
QFHVIRESTP ELVLAHAEHQ AKNMHELLLS EKAKLILGIG EDTLKKLVSS
860 870 880 890 900
QRSLPRSIGF GAWLSDQQKT ADSCGEREFV EVPLKSGAEP TPSKRDLGVS
910 920 930 940 950
LGDQLSQDGA PRLSSSTACE IKERVPPIKD SGGGLGQKFM AWLNHQVFLL
960 970 980 990 1000
SSHLLAMWSV VLGSRQKLNW ADYVYTLFCL CCVLLCFHFP AIGFIPLAGC
1010 1020 1030 1040 1050
VFGSPWRVRL SVFSVWLCVA VVVFQEVLPE PGSVCSSASA ECAAALERYS
1060 1070 1080 1090 1100
GNGVHRPVNH IGVGLVGTVA GFVARVVGGP RHYWFYFLRL MVVLDLGLVF
1110 1120 1130 1140 1150
LAVALRGRCK KCFCKCVRVA PHEVHLRVFP LTKVARPTLE AVCDMYSAPR
1160 1170 1180 1190 1200
VDPILVATGI KGCWQGKVSP HQVTDKPVSY SNLEEKKISN KTVVPPPTDP
1210 1220 1230 1240 1250
QQAVKCLKVL QCGGSIQDVG VPEVKKVSKV PYKAPFFPNV SIDPECYIVV
1260 1270 1280 1290 1300
DPVTYSAAMR GGYGVSHLIV GTGDFAEVNG LRFVSGGHVA DFVCLGLYVM
1310 1320 1330 1340 1350
LNFLISAWLS SPVSCGRGTN DPWCKNPFSY PVVGQGVMCN SHLCISEDGL
1360 1370 1380 1390 1400
TSPMVLSYSL IDWALMIAVI ATVAIFIAKV SLLVDVICVF LCLLMYVFPP
1410 1420 1430 1440 1450
LSVIAFAFPF ALCKVHLHPV TLVWVQFFLL AVNFWAGVAV AVILISSWFL
1460 1470 1480 1490 1500
ARATSSTGLV TPYDVHLVTS TPRGASSLAS APEGTYLAAV RRSALTGRCC
1510 1520 1530 1540 1550
MFVPTNFGSV LEGSLRTRGC AKNVVSVFGS ASGSGGVFTI HGNPVVVTAT
1560 1570 1580 1590 1600
HLLSDGKARV SCVGFSQCLT FKSVGDYAFA RVAEWKGDAP KVELSDRRGR
1610 1620 1630 1640 1650
AYCSPQVEWS LVLLGPNTAF CFTKCGDSGS PVVDEDGNLI GVHTGSNKRG
1660 1670 1680 1690 1700
SGMITTHNGK TLGMSNVKLS EMCQHYGGSG VPVSTVRLPK HLIVDVEAVA
1710 1720 1730 1740 1750
SDLVAVVESL PTPEGALSSV QLLCVFFFLW RLIHVPFVPV IAVAFFFLNE
1760 1770 1780 1790 1800
ILPVVLARLM FSFALSLFSV FTGFSVQVLL LRLVIAALNR SAVSFGSFLL
1810 1820 1830 1840 1850
GQLFHCCLMP SHLETLGPVP GYFYPSTTEV ASKEIFVTLL AIHVLALLLS
1860 1870 1880 1890 1900
LFKRPMLADV LVGNGSFDAA FFLKYFAEGN LRDGVSDSCN MTPEGLTAAL
1910 1920 1930 1940 1950
AITLSDDDLE FLQRHSEFKC FVSASNMRNG AKEFIESAYA RALRAQLAAT
1960 1970 1980 1990 2000
DKIKASKSIL AKLESFAGGV VTKVEPGDVV VVLGKKIVGD LVEITINDVK
2010 2020 2030 2040 2050
HVIRVIETRV MAGTQFSVGT ICGDLENACE DPSGLVKTSK KQRRRQKRTG
2060 2070 2080 2090 2100
LGTEVVGTVE IDGVSYNKVW HKATGDVTYE GFLVSENSRL RTLGTSAIGR
2110 2120 2130 2140 2150
FQEFIRKHGS KVKTSVEKYP VGKNKHIEFA VTTYNLDGEE FDVPDHEPLE
2160 2170 2180 2190 2200
WTITIGDSDL EAERLTVDQA LRHMGHDSLL TPKEKEKLAR IIESLNGLQQ
2210 2220 2230 2240 2250
SSALNCLTTS GLERCSRGGV TVSKDAVKIV KYHSRTFSIG DVNLKVMSFD
2260 2270 2280 2290 2300
EYRRTMGKPG HLLVAKLTDG VVVMRKHEPS LVDVILTGED AEFFPRTHGP
2310 2320 2330 2340 2350
GNTGIHRFVW DFESPPVDLE LELSEQIITA CSMRRGDAPA LDLPYKLHPV
2360 2370 2380 2390 2400
RGDPYRHRGV LFNTRFGDIT YLIPEKTKEP LHAAACYNKG VPVSDSETLV
2410 2420 2430 2440 2450
ATTLPHGFEL YVPTLPPSVL EYLDSRPDTP RMLTKHGCAS AAEKDLQKFD
2460 2470 2480 2490 2500
LSRQGFVLPG VLYMVRRYLS RLIGVRRRLF MPSTYPAKNS MAGINGGRFP
2510 2520 2530 2540 2550
LTWLQSHPDI DALCKRACEE HWQTVTPCTL KKQYCSKSKT RTILGTNNFV
2560 2570 2580 2590 2600
ALGLRSALSG VTQGFMRKGI GTPICLGKNK FTPLPVRIGG RCLEADLASC
2610 2620 2630 2640 2650
DRSTPAIIRW FTTNLLFELA GAEEWIPSYV LNCCHDVVST MSGCFDKRGG
2660 2670 2680 2690 2700
LSSGDPVTSI SNTVYSLIIY AQHMVLSAFR CGHKIGGLFL QDSLEMEQLF
2710 2720 2730 2740 2750
ELQPLLVYSD DVVFYNESDE LPNYHFFVDH LDLMLGFKTD RSKTVITSEP
2760 2770 2780 2790 2800
KLPGCRISGG RVLVPQRDRI VAALAYQMKA SCVGEYFASA AAILMDACAC
2810 2820 2830 2840 2850
CDHDESWYFD LVCGIAECAG SPWFRFPGPS FFLDMWNRLS AEEKKKCRTC
2860 2870 2880 2890 2900
AHCGAPATLV SSCGLNLCDY HGHGHPHCPV VLPCGHAVGS GVCEQCSSSA
2910 2920 2930 2940 2950
MNLNTELDIL LMCVPYHPPK VELLSVNDKV SSLPPGAYQA RGGVVSVRRD
2960 2970 2980 2990 3000
ILGNVVDLPD GDYQVMKVAQ TCADISMVSV NSNILRSQFV TGAPGTGKTT
3010 3020 3030 3040 3050
YLLSVVRDDD VIYTPTHRTM LDVVKALKVC RFDPPKDTPL EFPVPGRTGP
3060 3070 3080 3090 3100
TVRLIGAGFV PGRVSYLDEA AYCNPLDVLK VLSKTPLVCV GDLNQLPPVG
3110 3120 3130 3140 3150
FNGPCFAFSL MPGRQLIEVF RFGPAVVNSI KKFYKEELVP RGPDTGVKFL
3160 3170 3180 3190 3200
KQYQPYGQVL TPYHRDRVDG AITIDSSQGC TYDVVTVYLP TPKSLNSARA
3210 3220 3230 3240 3250
LVALTRARHY VFIYDPYDQL QQYLQVFEHE PADAWAFWCG DQPKMIVGGV
3260 3270 3280 3290 3300
VKQLAGHSRT TDLKLQQLMG LEGTASPLPQ VGHNLGFYYS PDLIQFAKIP
3310 3320 3330 3340 3350
PELCKHWPVV TAQNRTEWPD RLVCGMNKMD KNSRAVFCAG YYVGPSIFLG
3360 3370 3380 3390 3400
VPGVVSYYLT KYLKGESVPL PDSIMSTGRI RLNVREYLDE NEIEFAKKCP
3410 3420 3430 3440 3450
QPFIGEVKGS NVGGCHHVTS RFLPPVLVPG SVVKVGVSCP GKAAKGLCTV
3460 3470 3480 3490 3500
TDVYLPELDS YLHPPSKSMD YKLLVDFQPV KLMVWKDATA YFHEGIRPME
3510 3520 3530 3540 3550
AMSRFLKVPE GEGVFFDLDE FVTNAKVSKL PCKYSVSAHQ FLTEVVLSMT
3560 3570 3580 3590 3600
PTSEAPPDYE LLFARAYCVP GLDVGTLNAY IYKRGPSTYT TSNFARLVKD
3610
TAVPVGCKGS GYMFPK
Note: Produced by -1 ribosomal frameshifting at the 1a-1b genes boundary.
Length:3,616
Mass (Da):396,434
Last modified:April 12, 2005 - v2
Checksum:i6167A231CDE7B611
GO
Isoform Replicase polyprotein 1a (identifier: Q83017-2) [UniParc]FASTAAdd to basket
Also known as: pp1a, ORF1a polyprotein

The sequence of this isoform differs from the canonical sequence as follows:
     2207-3616: Missing.

Note: Produced by conventional translation.
Show »
Length:2,206
Mass (Da):240,639
Checksum:iF1D239FE11780422
GO

Sequence cautioni

The sequence AAA85664 differs from that shown. Reason: Erroneous initiation. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti1185 – 11851E → K (PubMed:1870216).Curated
Sequence conflicti2748 – 27536SEPKLP → QNPNFL (PubMed:1870216).Curated
Sequence conflicti2771 – 27777VAALAYQ → RRGASVS (PubMed:1870216).Curated
Sequence conflicti2820 – 28234GSPW → RKEG (PubMed:1870216).Curated
Sequence conflicti2843 – 28431E → K (PubMed:1870216).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei2207 – 36161410Missing in isoform Replicase polyprotein 1a. CuratedVSP_032889Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U15146 Genomic RNA. Translation: AAA85663.1.
U15146 Genomic RNA. Translation: AAA85664.1. Different initiation.
S69379 Genomic RNA. Translation: AAB30448.1.
S50064 mRNA. Translation: AAB19478.1.
S50068 mRNA. Translation: AAB19479.1.
PIRiB40901.
C40901.
JQ1998.
PQ0618.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U15146 Genomic RNA. Translation: AAA85663.1.
U15146 Genomic RNA. Translation: AAA85664.1. Different initiation.
S69379 Genomic RNA. Translation: AAB30448.1.
S50064 mRNA. Translation: AAB19478.1.
S50068 mRNA. Translation: AAB19479.1.
PIRiB40901.
C40901.
JQ1998.
PQ0618.

3D structure databases

ProteinModelPortaliQ83017.
ModBaseiSearch...
MobiDBiSearch...

Protein family/group databases

MEROPSiC31.001.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR027351. (+)RNA_virus_helicase_core_dom.
IPR031932. Arteri_nsp7a.
IPR008743. Arterivirus_Nsp2_C33.
IPR023338. Arterivirus_NSP4_peptidase.
IPR027355. AV_MBD_dom.
IPR008741. AV_PCPalpha.
IPR025773. AV_PCPbeta.
IPR022230. DUF3756.
IPR008760. EAV_peptidase_S32.
IPR027417. P-loop_NTPase.
IPR009003. Peptidase_S1_PA.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
[Graphical view]
PfamiPF16749. Arteri_nsp7a. 1 hit.
PF12581. DUF3756. 1 hit.
PF05410. Peptidase_C31. 1 hit.
PF05411. Peptidase_C32. 1 hit.
PF05412. Peptidase_C33. 1 hit.
PF05579. Peptidase_S32. 1 hit.
PF00680. RdRP_1. 1 hit.
PF01443. Viral_helicase1. 1 hit.
[Graphical view]
SUPFAMiSSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 2 hits.
PROSITEiPS51538. AV_CP. 1 hit.
PS51493. AV_NSP4_PRO. 1 hit.
PS51539. AV_PCP_ALPHA. 1 hit.
PS51540. AV_PCP_BETA. 1 hit.
PS51652. AV_ZBD. 1 hit.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRPOA_LDVP
AccessioniPrimary (citable) accession number: Q83017
Secondary accession number(s): Q83018
, Q83024, Q83025, Q86716
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 12, 2005
Last sequence update: April 12, 2005
Last modified: September 7, 2016
This is version 102 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

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.