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Q9WJB2

- RPOA_PRRSR

UniProt

Q9WJB2 - RPOA_PRRSR

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Protein

Replicase polyprotein 1ab

Gene

rep

Organism
Porcine reproductive and respiratory syndrome virus (strain VR-2332) (PRRSV)
Status
Reviewed - 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.
Nsp1 is essential for viral subgenomic mRNA synthesis.By similarity
Nsp1-alpha inhibits IFN-beta production. Counteracts the action of NF-kappaB by decreasing the phosphorylation of IkappaB-alpha, such that the degradation of IkappaB-alpha is suppressed. This leads to the blockage of NF-kappaB nuclear translocation and thus interference of NF-kappaB activation. Also seems to inhibit IRF3-dependent pathways.
Nsp1-beta seems to inhibit the translocation of STAT1 into the cell nucleus.
Nsp2 cysteine proteinase which cleaves the nsp2/nsp3 site in the polyprotein. Also displays deubiquitinating and deISGylase activities. The deubiquitinating activity cleaves both ubiquitinated and ISGylated products and may therefore regulate ubiquitin and ISG15 dependent host innate immunity. Deubiquitinates host NFKBIA, thereby interfering with NFKBIA degradation and impairing subsequent NF-kappa-B activation (By similarity).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.
Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei76 – 761For Nsp1-alpha papain-like cysteine proteinase activityPROSITE-ProRule annotation
Active sitei146 – 1461For Nsp1-alpha papain-like cysteine proteinase activityPROSITE-ProRule annotation
Sitei180 – 1812Cleavage; by autolysis
Active sitei270 – 2701For Nsp1-beta papain-like cysteine proteinase activityPROSITE-ProRule annotation
Active sitei339 – 3391For Nsp1-beta papain-like cysteine proteinase activityPROSITE-ProRule annotation
Sitei383 – 3842Cleavage; by autolysis
Active sitei437 – 4371For Nsp2 cysteine proteinase activityPROSITE-ProRule annotation
Active sitei506 – 5061For Nsp2 cysteine proteinase activityPROSITE-ProRule annotation
Sitei1579 – 15802Cleavage; by CP2Sequence Analysis
Sitei1809 – 18102Cleavage; by 3CLSPBy similarity
Active sitei1848 – 18481Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation
Active sitei1873 – 18731Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation
Active sitei1927 – 19271Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation
Sitei2013 – 20142Cleavage; by 3CLSPBy similarity
Sitei2183 – 21842Cleavage; by 3CLSPBy similarity
Sitei2199 – 22002Cleavage; by 3CLSPBy similarity
Sitei2348 – 23492Cleavage; by 3CLSPBy similarity
Sitei2458 – 24592Cleavage; by 3CLSPBy similarity
Sitei3143 – 31442Cleavage; by 3CLSPBy similarity
Sitei3194 – 31941Involved in mRNA transcription processBy similarity
Sitei3584 – 35852Cleavage; by 3CLSPBy similarity
Sitei3807 – 38082Cleavage; by 3CLSPBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri8 – 2821C4-type; atypicalAdd
BLAST
Nucleotide bindingi3292 – 32998ATPBy similarity

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. cysteine-type endopeptidase activity Source: InterPro
  3. helicase activity Source: UniProtKB-KW
  4. metal ion binding Source: UniProtKB-KW
  5. RNA binding Source: InterPro
  6. RNA-directed RNA polymerase activity Source: UniProtKB-KW
  7. serine-type endopeptidase activity Source: InterPro

GO - Biological processi

  1. modulation by virus of host protein ubiquitination Source: UniProtKB-KW
  2. suppression by virus of host ISG15 activity Source: UniProtKB-KW
  3. suppression by virus of host NF-kappaB transcription factor activity Source: UniProtKB-KW
  4. suppression by virus of host STAT1 activity Source: UniProtKB-KW
  5. suppression by virus of host type I interferon-mediated signaling pathway Source: UniProtKB-KW
  6. transcription, DNA-templated Source: InterPro
  7. viral protein processing Source: InterPro
  8. viral RNA genome replication Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

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

Keywords - Biological processi

Host-virus interaction, Inhibition of host innate immune response by virus, Inhibition of host interferon signaling pathway by virus, Inhibition of host ISG15 by virus, Inhibition of host NF-kappa-B by virus, Inhibition of host STAT1 by virus, Modulation of host ubiquitin pathway by viral deubiquitinase, Modulation of host ubiquitin pathway by virus, Viral immunoevasion, Viral RNA replication

Keywords - Ligandi

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

Protein family/group databases

MEROPSiS32.002.

Names & Taxonomyi

Protein namesi
Recommended name:
Replicase polyprotein 1ab
Alternative name(s):
ORF1ab polyprotein
Cleaved into the following 16 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
OrganismiPorcine reproductive and respiratory syndrome virus (strain VR-2332) (PRRSV)
Taxonomic identifieri300559 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageNidoviralesArteriviridaeArterivirus
Virus hostiSus scrofa (Pig) [TaxID: 9823]

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei1266 – 128621HelicalSequence AnalysisAdd
BLAST
Transmembranei1296 – 131621HelicalSequence AnalysisAdd
BLAST
Transmembranei1345 – 136521HelicalSequence AnalysisAdd
BLAST
Transmembranei1368 – 138821HelicalSequence AnalysisAdd
BLAST
Transmembranei1583 – 160321HelicalSequence AnalysisAdd
BLAST
Transmembranei1650 – 167021HelicalSequence AnalysisAdd
BLAST
Transmembranei1685 – 170521HelicalSequence AnalysisAdd
BLAST
Transmembranei1719 – 173921HelicalSequence AnalysisAdd
BLAST
Transmembranei2012 – 203221HelicalSequence AnalysisAdd
BLAST
Transmembranei2060 – 208021HelicalSequence AnalysisAdd
BLAST
Transmembranei2092 – 211221HelicalSequence AnalysisAdd
BLAST
Transmembranei2137 – 215721HelicalSequence AnalysisAdd
BLAST
Transmembranei2164 – 218421HelicalSequence AnalysisAdd
BLAST

GO - Cellular componenti

  1. host cell cytoplasm Source: UniProtKB-KW
  2. host cell membrane Source: UniProtKB-KW
  3. host cell nucleus Source: UniProtKB-KW
  4. integral component of membrane Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Host cytoplasm, Host membrane, Host nucleus, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi76 – 761C → S: Complete loss of papain-like cysteine protease activity of nsp1-alpha. Loss of inhibition of IFN-beta production. Loss of inhibition of IRF-3 phosphorylation. 1 Publication
Mutagenesisi146 – 1461H → D: Complete loss of papain-like cysteine protease activity of nsp1-alpha. 1 Publication
Mutagenesisi270 – 2701C → S: No effect on inhibition of IRF-3 phosphorylation. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 39603960Replicase polyprotein 1abPRO_0000036696Add
BLAST
Chaini1 – 382382Nsp1By similarityPRO_0000410829Add
BLAST
Chaini1 – 180180Nsp1-alpha papain-like cysteine proteinasePRO_0000036698Add
BLAST
Chaini181 – 383203Nsp1-beta papain-like cysteine proteinasePRO_0000036699Add
BLAST
Chaini384 – 15791196Nsp2 cysteine proteinaseSequence AnalysisPRO_0000036700Add
BLAST
Chaini1580 – 1809230Non-structural protein 3By similarityPRO_0000036701Add
BLAST
Chaini1810 – 20132043C-like serine proteinaseBy similarityPRO_0000036702Add
BLAST
Chaini2014 – 2458445Non-structural protein 5-6-7By similarityPRO_0000036703Add
BLAST
Chaini2014 – 2183170Non-structural protein 5By similarityPRO_0000423130Add
BLAST
Chaini2184 – 219916Non-structural protein 6By similarityPRO_0000423131Add
BLAST
Chaini2200 – 2348149Non-structural protein 7-alphaBy similarityPRO_0000423132Add
BLAST
Chaini2349 – 2458110Non-structural protein 7-betaBy similarityPRO_0000423133Add
BLAST
Chaini2459 – 3143685RNA-directed RNA polymeraseBy similarityPRO_0000036704Add
BLAST
Chaini2459 – 250345Non-structural protein 8By similarityPRO_0000036705Add
BLAST
Chaini3144 – 3584441HelicaseBy similarityPRO_0000036706Add
BLAST
Chaini3585 – 3807223Non-structural protein 11By similarityPRO_0000036707Add
BLAST
Chaini3808 – 3960153Non-structural protein 12By similarityPRO_0000036708Add
BLAST

Post-translational modificationi

Specific enzymatic cleavages in vivo by its own proteases yield mature proteins. Nsp1 is autocleaved into two subunits, Nsp1-alpha and Nsp1-beta. 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

Structurei

3D structure databases

ProteinModelPortaliQ9WJB2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini69 – 180112Peptidase C31PROSITE-ProRule annotationAdd
BLAST
Domaini263 – 383121Peptidase C32PROSITE-ProRule annotationAdd
BLAST
Domaini428 – 535108Peptidase C33PROSITE-ProRule annotationAdd
BLAST
Domaini1810 – 2013204Peptidase S32PROSITE-ProRule annotationAdd
BLAST
Domaini2889 – 3023135RdRp catalyticPROSITE-ProRule annotationAdd
BLAST
Domaini3144 – 320764AV MBDAdd
BLAST
Domaini3264 – 3416153(+)RNA virus helicase ATP-bindingAdd
BLAST
Domaini3417 – 3545129(+)RNA virus helicase C-terminalAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni69 – 182114PCP1-alphaAdd
BLAST
Regioni263 – 382120PCP1-betaAdd
BLAST
Regioni426 – 51388OTU-likeAdd
BLAST
Regioni1266 – 1388123HD1Add
BLAST
Regioni1583 – 1745163HD2Add
BLAST
Regioni2036 – 2157122HD3Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi808 – 930123Pro-richAdd
BLAST
Compositional biasi2329 – 234416Pro-richAdd
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
The OTU-like region is responsible for the deubiquitinating and deISGylation activities of Nsp2.By similarity

Sequence similaritiesi

Belongs to the arteriviridae polyprotein family.Curated
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.
IPR008743. Arterivirus_Nsp2_C33.
IPR023338. Arterivirus_NSP4_peptidase.
IPR027355. AV_MBD_dom.
IPR008741. AV_PCPalpha.
IPR025773. AV_PCPbeta.
IPR008760. EAV_peptidase_S32.
IPR027417. P-loop_NTPase.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
IPR009003. Trypsin-like_Pept_dom.
[Graphical view]
PfamiPF05410. 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.
PS51652. AV_MBD. 1 hit.
PS51493. AV_NSP4_PRO. 1 hit.
PS51539. AV_PCP_ALPHA. 1 hit.
PS51540. AV_PCP_BETA. 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. Align

Isoform Replicase polyprotein 1ab (identifier: Q9WJB2-1) [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.

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        10         20         30         40         50
MSGILDRCTC TPNARVFMAE GQVYCTRCLS ARSLLPLNLQ VSELGVLGLF
60 70 80 90 100
YRPEEPLRWT LPRAFPTVEC SPAGACWLSA IFPIARMTSG NLNFQQRMVR
110 120 130 140 150
VAAELYRAGQ LTPAVLKALQ VYERGCRWYP IVGPVPGVAV FANSLHVSDK
160 170 180 190 200
PFPGATHVLT NLPLPQRPKP EDFCPFECAM ATVYDIGHDA VMYVAERKVS
210 220 230 240 250
WAPRGGDEVK FEAVPGELKL IANRLRTSFP PHHTVDMSKF AFTAPGCGVS
260 270 280 290 300
MRVERQHGCL PADTVPEGNC WWSLFDLLPL EVQNKEIRHA NQFGYQTKHG
310 320 330 340 350
VSGKYLQRRL QVNGLRAVTD LNGPIVVQYF SVKESWIRHL KLAGEPSYSG
360 370 380 390 400
FEDLLRIRVE PNTSPLADKE EKIFRFGSHK WYGAGKRARK ARSCATATVA
410 420 430 440 450
GRALSVRETR QAKEHEVAGA NKAEHLKHYS PPAEGNCGWH CISAIANRMV
460 470 480 490 500
NSKFETTLPE RVRPPDDWAT DEDLVNAIQI LRLPAALDRN GACTSAKYVL
510 520 530 540 550
KLEGEHWTVT VTPGMSPSLL PLECVQGCCG HKGGLGSPDA VEVSGFDPAC
560 570 580 590 600
LDRLAEVMHL PSSAIPAALA EMSGDSDRSA SPVTTVWTVS QFFARHSGGN
610 620 630 640 650
HPDQVRLGKI ISLCQVIEDC CCSQNKTNRV TPEEVAAKID LYLRGATNLE
660 670 680 690 700
ECLARLEKAR PPRVIDTSFD WDVVLPGVEA ATQTIKLPQV NQCRALVPVV
710 720 730 740 750
TQKSLDNNSV PLTAFSLANY YYRAQGDEVR HRERLTAVLS KLEKVVREEY
760 770 780 790 800
GLMPTEPGPR PTLPRGLDEL KDQMEEDLLK LANAQTTSDM MAWAVEQVDL
810 820 830 840 850
KTWVKNYPRW TPPPPPPKVQ PRKTKPVKSL PERKPVPAPR RKVGSDCGSP
860 870 880 890 900
VSLGGDVPNS WEDLAVSSPF DLPTPPEPAT PSSELVIVSS PQCIFRPATP
910 920 930 940 950
LSEPAPIPAP RGTVSRPVTP LSEPIPVPAP RRKFQQVKRL SSAAAIPPYQ
960 970 980 990 1000
DEPLDLSASS QTEYEASPPA PPQSGGVLGV EGHEAEETLS EISDMSGNIK
1010 1020 1030 1040 1050
PASVSSSSSL SSVRITRPKY SAQAIIDSGG PCSGHLQEVK ETCLSVMREA
1060 1070 1080 1090 1100
CDATKLDDPA TQEWLSRMWD RVDMLTWRNT SVYQAICTLD GRLKFLPKMI
1110 1120 1130 1140 1150
LETPPPYPCE FVMMPHTPAP SVGAESDLTI GSVATEDVPR ILEKIENVGE
1160 1170 1180 1190 1200
MANQGPLAFS EDKPVDDQLV NDPRISSRRP DESTSAPSAG TGGAGSFTDL
1210 1220 1230 1240 1250
PPSDGADADG GGPFRTVKRK AERLFDQLSR QVFDLVSHLP VFFSRLFYPG
1260 1270 1280 1290 1300
GGYSPGDWGF AAFTLLCLFL CYSYPAFGIA PLLGVFSGSS RRVRMGVFGC
1310 1320 1330 1340 1350
WLAFAVGLFK PVSDPVGAAC EFDSPECRNI LHSFELLKPW DPVRSLVVGP
1360 1370 1380 1390 1400
VGLGLAILGR LLGGARCIWH FLLRLGIVAD CILAGAYVLS QGRCKKCWGS
1410 1420 1430 1440 1450
CIRTAPNEVA FNVFPFTRAT RSSLIDLCDR FCAPKGMDPI FLATGWRGCW
1460 1470 1480 1490 1500
AGRSPIEQPS EKPIAFAQLD EKKITARTVV AQPYDPNQAV KCLRVLQSGG
1510 1520 1530 1540 1550
AMVAKAVPKV VKVSAVPFRA PFFPTGVKVD PDCRVVVDPD TFTAALRSGY
1560 1570 1580 1590 1600
STTNLVLGVG DFAQLNGLKI RQISKPSGGG PHLMAALHVA CSMALHMLAG
1610 1620 1630 1640 1650
IYVTAVGSCG TGTNDPWCAN PFAVPGYGPG SLCTSRLCIS QHGLTLPLTA
1660 1670 1680 1690 1700
LVAGFGIQEI ALVVLIFVSI GGMAHRLSCK ADMLCVLLAI ASYVWVPLTW
1710 1720 1730 1740 1750
LLCVFPCWLR CFSLHPLTIL WLVFFLISVN MPSGILAMVL LVSLWLLGRY
1760 1770 1780 1790 1800
TNVAGLVTPY DIHHYTSGPR GVAALATAPD GTYLAAVRRA ALTGRTMLFT
1810 1820 1830 1840 1850
PSQLGSLLEG AFRTRKPSLN TVNVIGSSMG SGGVFTIDGK VKCVTAAHVL
1860 1870 1880 1890 1900
TGNSARVSGV GFNQMLDFDV KGDFAIADCP NWQGAAPKTQ FCTDGWTGRA
1910 1920 1930 1940 1950
YWLTSSGVEP GVIGKGFAFC FTACGDSGSP VITEAGELVG VHTGSNKQGG
1960 1970 1980 1990 2000
GIVTRPSGQF CNVAPIKLSE LSEFFAGPKV PLGDVKVGSH IIKDISEVPS
2010 2020 2030 2040 2050
DLCALLAAKP ELEGGLSTVQ LLCVFFLLWR MMGHAWTPLV AVSFFILNEV
2060 2070 2080 2090 2100
LPAVLVRSVF SFGMFVLSWL TPWSAQVLMI RLLTAALNRN RWSLAFFSLG
2110 2120 2130 2140 2150
AVTGFVADLA ATQGHPLQAV MNLSTYAFLP RMMVVTSPVP VITCGVVHLL
2160 2170 2180 2190 2200
AIILYLFKYR GPHHILVGDG VFSAAFFLRY FAEGKLREGV SQSCGMNHES
2210 2220 2230 2240 2250
LTGALAMRLN DEDLDFLMKW TDFKCFVSAS NMRNAAGQFI EAAYAKALRV
2260 2270 2280 2290 2300
ELAQLVQVDK VRGTLAKLEA FADTVAPQLS PGDIVVALGH TPVGSIFDLK
2310 2320 2330 2340 2350
VGSTKHTLQA IETRVLAGSK MTVARVVDPT PTPPPAPVPI PLPPKVLENG
2360 2370 2380 2390 2400
PNAWGDEDRL NKKKRRRMEA LGIYVMGGKK YQKFWDKNSG DVFYEEVHNN
2410 2420 2430 2440 2450
TDEWECLRVG DPADFDPEKG TLCGHVTIEN KAYHVYTSPS GKKFLVPVNP
2460 2470 2480 2490 2500
ENGRVQWEAA KLSVEQALGM MNVDGELTAK ELEKLKRIID KLQGLTKEQC
2510 2520 2530 2540 2550
LNCLAASDLT RCGRGGLVVT ETAVKIVKFH NRTFTLGPVN LKVASEVELK
2560 2570 2580 2590 2600
DAVEHNQHPV ARPIDGGVVL LRSAVPSLID VLISGADASP KLLAHHGPGN
2610 2620 2630 2640 2650
TGIDGTLWDF ESEATKEEVA LSAQIIQACD IRRGDAPEIG LPYKLYPVRG
2660 2670 2680 2690 2700
NPERVKGVLQ NTRFGDIPYK TPSDTGSPVH AAACLTPNAT PVTDGRSVLA
2710 2720 2730 2740 2750
TTMPPGFELY VPTIPASVLD YLDSRPDCPK QLTEHGCEDA ALKDLSKYDL
2760 2770 2780 2790 2800
STQGFVLPGV LRLVRKYLFA HVGKCPPVHR PSTYPAKNSM AGINGNRFPT
2810 2820 2830 2840 2850
KDIQSVPEID VLCAQAVREN WQTVTPCTLK KQYCGKKKTR TILGTNNFIA
2860 2870 2880 2890 2900
LAHRAVLSGV TQGFMKKAFN SPIALGKNKF KELQTPVLGR CLEADLASCD
2910 2920 2930 2940 2950
RSTPAIVRWF AANLLYELAC AEEHLPSYVL NCCHDLLVTQ SGAVTKRGGL
2960 2970 2980 2990 3000
SSGDPITSVS NTIYSLVIYA QHMVLSYFKS GHPHGLLFLQ DQLKFEDMLK
3010 3020 3030 3040 3050
VQPLIVYSDD LVLYAESPTM PNYHWWVEHL NLMLGFQTDP KKTAITDSPS
3060 3070 3080 3090 3100
FLGCRIINGR QLVPNRDRIL AALAYHMKAS NVSEYYASAA AILMDSCACL
3110 3120 3130 3140 3150
EYDPEWFEEL VVGIAQCARK DGYSFPGTPF FMSMWEKLRS NYEGKKSRVC
3160 3170 3180 3190 3200
GYCGAPAPYA TACGLDVCIY HTHFHQHCPV TIWCGHPAGS GSCSECKSPV
3210 3220 3230 3240 3250
GKGTSPLDEV LEQVPYKPPR TVIMHVEQGL TPLDPGRYQT RRGLVSVRRG
3260 3270 3280 3290 3300
IRGNEVGLPD GDYASTALLP TCKEINMVAV ASNVLRSRFI IGPPGAGKTY
3310 3320 3330 3340 3350
WLLQQVQDGD VIYTPTHQTM LDMIRALGTC RFNVPAGTTL QFPVPSRTGP
3360 3370 3380 3390 3400
WVRILAGGWC PGKNSFLDEA AYCNHLDVLR LLSKTTLTCL GDFKQLHPVG
3410 3420 3430 3440 3450
FDSHCYVFDI MPQTQLKTIW RFGQNICDAI QPDYRDKLMS MVNTTRVTYV
3460 3470 3480 3490 3500
EKPVRYGQVL TPYHRDREDD AITIDSSQGA TFDVVTLHLP TKDSLNRQRA
3510 3520 3530 3540 3550
LVAITRARHA IFVYDPHRQL QGLFDLPAKG TPVNLAVHCD GQLIVLDRNN
3560 3570 3580 3590 3600
KECTVAQALG NGDKFRATDK RVVDSLRAIC ADLEGSSSPL PKVAHNLGFY
3610 3620 3630 3640 3650
FSPDLTQFAK LPVELAPHWP VVSTQNNEKW PDRLVASLRP IHKYSRACIG
3660 3670 3680 3690 3700
AGYMVGPSVF LGTPGVVSYY LTKFVKGGAQ VLPETVFSTG RIEVDCREYL
3710 3720 3730 3740 3750
DDREREVAAS LPHGFIGDVK GTTVGGCHHV TSRYLPRVLP KESVAVVGVS
3760 3770 3780 3790 3800
SPGKAAKALC TLTDVYLPDL EAYLHPETQS KCWKMMLDFK EVRLMVWKDK
3810 3820 3830 3840 3850
TAYFQLEGRY FTWYQLASYA SYIRVPVNST VYLDPCMGPA LCNRRVVGST
3860 3870 3880 3890 3900
HWGADLAVTP YDYGAKIILS SAYHGEMPPG YKILACAEFS LDDPVKYKHT
3910 3920 3930 3940 3950
WGFESDTAYL YEFTGNGEDW EDYNDAFRAR QEGKIYKATA TSLKFYFPPG
3960
PVIEPTLGLN

Note: Produced by -1 ribosomal frameshifting at the 1a-1b genes boundary.

Length:3,960
Mass (Da):432,887
Last modified:April 12, 2005 - v2
Checksum:iF219409DA3F3B73F
GO
Isoform Replicase polyprotein 1a (identifier: Q9WJB2-2) [UniParc]FASTAAdd to Basket

Also known as: pp1a, ORF1a polyprotein

The sequence of this isoform differs from the canonical sequence as follows:
     2504-3960: Missing.

Note: Produced by conventional translation.

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Length:2,503
Mass (Da):271,972
Checksum:iD1CCE7E7404CA4E0
GO

Sequence cautioni

The sequence AAD12125.1 differs from that shown. Reason: Erroneous initiation. Curated
The sequence AAO13192.1 differs from that shown. Reason: Erroneous initiation. Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti188 – 1881H → R in strain: BJ-4.
Natural varianti386 – 3861K → R in strain: BJ-4.
Natural varianti393 – 3931S → H in strain: BJ-4.
Natural varianti1498 – 14981S → A in strain: Isolate infectious clone VR-2332.
Natural varianti1777 – 17771T → I in strain: Isolate infectious clone VR-2332.
Natural varianti2222 – 22221D → N in strain: Isolate infectious clone VR-2332.
Natural varianti3257 – 32571G → E in strain: Isolate infectious clone VR-2332.
Natural varianti3539 – 35391C → R in strain: Isolate infectious clone VR-2332.
Natural varianti3623 – 36231S → T in strain: Isolate infectious clone VR-2332.
Natural varianti3678 – 36781G → E in strain: Isolate infectious clone VR-2332.
Natural varianti3714 – 37141G → A in strain: Isolate infectious clone VR-2332.

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei2504 – 39601457Missing in isoform Replicase polyprotein 1a. CuratedVSP_032893Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U87392 Genomic RNA. Translation: AAD12132.2.
U87392 Genomic RNA. Translation: AAD12125.1. Different initiation.
AY150564 Genomic RNA. Translation: AAO13191.1.
AY150564 Genomic RNA. Translation: AAO13192.1. Different initiation.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U87392 Genomic RNA. Translation: AAD12132.2 .
U87392 Genomic RNA. Translation: AAD12125.1 . Different initiation.
AY150564 Genomic RNA. Translation: AAO13191.1 .
AY150564 Genomic RNA. Translation: AAO13192.1 . Different initiation.

3D structure databases

ProteinModelPortali Q9WJB2.
ModBasei Search...
MobiDBi Search...

Protein family/group databases

MEROPSi S32.002.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Family and domain databases

Gene3Di 3.40.50.300. 1 hit.
InterProi IPR027351. (+)RNA_virus_helicase_core_dom.
IPR008743. Arterivirus_Nsp2_C33.
IPR023338. Arterivirus_NSP4_peptidase.
IPR027355. AV_MBD_dom.
IPR008741. AV_PCPalpha.
IPR025773. AV_PCPbeta.
IPR008760. EAV_peptidase_S32.
IPR027417. P-loop_NTPase.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
IPR009003. Trypsin-like_Pept_dom.
[Graphical view ]
Pfami 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 ]
SUPFAMi SSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 2 hits.
PROSITEi PS51538. AV_CP. 1 hit.
PS51652. AV_MBD. 1 hit.
PS51493. AV_NSP4_PRO. 1 hit.
PS51539. AV_PCP_ALPHA. 1 hit.
PS51540. AV_PCP_BETA. 1 hit.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Porcine reproductive and respiratory syndrome virus comparison: divergent evolution on two continents."
    Nelsen C.J., Murtaugh M.P., Faaberg K.S.
    J. Virol. 73:270-280(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  2. Murtaugh M.P., Faaberg K.S., Nelsen C.J.
    Submitted (APR-1999) to the EMBL/GenBank/DDBJ databases
    Cited for: SEQUENCE REVISION.
  3. "Generation of an infectious clone of VR-2332, a highly virulent North American-type isolate of porcine reproductive and respiratory syndrome virus."
    Nielsen H.S., Liu G., Nielsen J., Oleksiewicz M.B., Botner A., Storgaard T., Faaberg K.S.
    J. Virol. 77:3702-3711(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
    Strain: Infectious clone VR-2332.
  4. Cited for: FUNCTION OF NSP2.
  5. "Nonstructural protein 1alpha subunit-based inhibition of NF-kappaB activation and suppression of interferon-beta production by porcine reproductive and respiratory syndrome virus."
    Song C., Krell P., Yoo D.
    Virology 407:268-280(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION OF NSP1-ALPHA, SUBCELLULAR LOCATION.
  6. "Identification of two auto-cleavage products of nonstructural protein 1 (nsp1) in porcine reproductive and respiratory syndrome virus infected cells: nsp1 function as interferon antagonist."
    Chen Z., Lawson S., Sun Z., Zhou X., Guan X., Christopher-Hennings J., Nelson E.A., Fang Y.
    Virology 398:87-97(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION OF NSP1-ALPHA, FUNCTION OF NSP1-BETA, PROTEOLYTIC PROCESSING OF POLYPROTEIN, PROTEIN SEQUENCE OF 181-190 AND 384-393.
    Strain: Isolate SD23983.
  7. "The nonstructural protein 1 papain-like cysteine protease was necessary for porcine reproductive and respiratory syndrome virus nonstructural protein 1 to inhibit interferon-beta induction."
    Shi X., Zhang G., Wang L., Li X., Zhi Y., Wang F., Fan J., Deng R.
    DNA Cell Biol. 30:355-362(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION OF NSP1-ALPHA, MUTAGENESIS OF CYS-76; HIS-146 AND CYS-270.
    Strain: BJ-4.

Entry informationi

Entry nameiRPOA_PRRSR
AccessioniPrimary (citable) accession number: Q9WJB2
Secondary accession number(s): Q80KX0, Q80KX1, Q9WJB3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 12, 2005
Last sequence update: April 12, 2005
Last modified: October 29, 2014
This is version 98 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Direct protein sequencing, Multifunctional enzyme

Documents

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

External Data

Dasty 3