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Q9WJB2

- RPOA_PRRSR

UniProt

Q9WJB2 - RPOA_PRRSR

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
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    • History
      Entry version 97 (01 Oct 2014)
      Sequence version 2 (12 Apr 2005)
      Previous versions | rss
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    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

    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

    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

    GO - Cellular componenti

    1. host cell membrane Source: UniProtKB-SubCell
    2. host cell nucleus Source: UniProtKB-SubCell
    3. host cell perinuclear region of cytoplasm Source: UniProtKB-SubCell
    4. integral component of membrane Source: UniProtKB-KW

    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...

    Transmembrane

    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

    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.

    « Hide

    MSGILDRCTC TPNARVFMAE GQVYCTRCLS ARSLLPLNLQ VSELGVLGLF     50
    YRPEEPLRWT LPRAFPTVEC SPAGACWLSA IFPIARMTSG NLNFQQRMVR 100
    VAAELYRAGQ LTPAVLKALQ VYERGCRWYP IVGPVPGVAV FANSLHVSDK 150
    PFPGATHVLT NLPLPQRPKP EDFCPFECAM ATVYDIGHDA VMYVAERKVS 200
    WAPRGGDEVK FEAVPGELKL IANRLRTSFP PHHTVDMSKF AFTAPGCGVS 250
    MRVERQHGCL PADTVPEGNC WWSLFDLLPL EVQNKEIRHA NQFGYQTKHG 300
    VSGKYLQRRL QVNGLRAVTD LNGPIVVQYF SVKESWIRHL KLAGEPSYSG 350
    FEDLLRIRVE PNTSPLADKE EKIFRFGSHK WYGAGKRARK ARSCATATVA 400
    GRALSVRETR QAKEHEVAGA NKAEHLKHYS PPAEGNCGWH CISAIANRMV 450
    NSKFETTLPE RVRPPDDWAT DEDLVNAIQI LRLPAALDRN GACTSAKYVL 500
    KLEGEHWTVT VTPGMSPSLL PLECVQGCCG HKGGLGSPDA VEVSGFDPAC 550
    LDRLAEVMHL PSSAIPAALA EMSGDSDRSA SPVTTVWTVS QFFARHSGGN 600
    HPDQVRLGKI ISLCQVIEDC CCSQNKTNRV TPEEVAAKID LYLRGATNLE 650
    ECLARLEKAR PPRVIDTSFD WDVVLPGVEA ATQTIKLPQV NQCRALVPVV 700
    TQKSLDNNSV PLTAFSLANY YYRAQGDEVR HRERLTAVLS KLEKVVREEY 750
    GLMPTEPGPR PTLPRGLDEL KDQMEEDLLK LANAQTTSDM MAWAVEQVDL 800
    KTWVKNYPRW TPPPPPPKVQ PRKTKPVKSL PERKPVPAPR RKVGSDCGSP 850
    VSLGGDVPNS WEDLAVSSPF DLPTPPEPAT PSSELVIVSS PQCIFRPATP 900
    LSEPAPIPAP RGTVSRPVTP LSEPIPVPAP RRKFQQVKRL SSAAAIPPYQ 950
    DEPLDLSASS QTEYEASPPA PPQSGGVLGV EGHEAEETLS EISDMSGNIK 1000
    PASVSSSSSL SSVRITRPKY SAQAIIDSGG PCSGHLQEVK ETCLSVMREA 1050
    CDATKLDDPA TQEWLSRMWD RVDMLTWRNT SVYQAICTLD GRLKFLPKMI 1100
    LETPPPYPCE FVMMPHTPAP SVGAESDLTI GSVATEDVPR ILEKIENVGE 1150
    MANQGPLAFS EDKPVDDQLV NDPRISSRRP DESTSAPSAG TGGAGSFTDL 1200
    PPSDGADADG GGPFRTVKRK AERLFDQLSR QVFDLVSHLP VFFSRLFYPG 1250
    GGYSPGDWGF AAFTLLCLFL CYSYPAFGIA PLLGVFSGSS RRVRMGVFGC 1300
    WLAFAVGLFK PVSDPVGAAC EFDSPECRNI LHSFELLKPW DPVRSLVVGP 1350
    VGLGLAILGR LLGGARCIWH FLLRLGIVAD CILAGAYVLS QGRCKKCWGS 1400
    CIRTAPNEVA FNVFPFTRAT RSSLIDLCDR FCAPKGMDPI FLATGWRGCW 1450
    AGRSPIEQPS EKPIAFAQLD EKKITARTVV AQPYDPNQAV KCLRVLQSGG 1500
    AMVAKAVPKV VKVSAVPFRA PFFPTGVKVD PDCRVVVDPD TFTAALRSGY 1550
    STTNLVLGVG DFAQLNGLKI RQISKPSGGG PHLMAALHVA CSMALHMLAG 1600
    IYVTAVGSCG TGTNDPWCAN PFAVPGYGPG SLCTSRLCIS QHGLTLPLTA 1650
    LVAGFGIQEI ALVVLIFVSI GGMAHRLSCK ADMLCVLLAI ASYVWVPLTW 1700
    LLCVFPCWLR CFSLHPLTIL WLVFFLISVN MPSGILAMVL LVSLWLLGRY 1750
    TNVAGLVTPY DIHHYTSGPR GVAALATAPD GTYLAAVRRA ALTGRTMLFT 1800
    PSQLGSLLEG AFRTRKPSLN TVNVIGSSMG SGGVFTIDGK VKCVTAAHVL 1850
    TGNSARVSGV GFNQMLDFDV KGDFAIADCP NWQGAAPKTQ FCTDGWTGRA 1900
    YWLTSSGVEP GVIGKGFAFC FTACGDSGSP VITEAGELVG VHTGSNKQGG 1950
    GIVTRPSGQF CNVAPIKLSE LSEFFAGPKV PLGDVKVGSH IIKDISEVPS 2000
    DLCALLAAKP ELEGGLSTVQ LLCVFFLLWR MMGHAWTPLV AVSFFILNEV 2050
    LPAVLVRSVF SFGMFVLSWL TPWSAQVLMI RLLTAALNRN RWSLAFFSLG 2100
    AVTGFVADLA ATQGHPLQAV MNLSTYAFLP RMMVVTSPVP VITCGVVHLL 2150
    AIILYLFKYR GPHHILVGDG VFSAAFFLRY FAEGKLREGV SQSCGMNHES 2200
    LTGALAMRLN DEDLDFLMKW TDFKCFVSAS NMRNAAGQFI EAAYAKALRV 2250
    ELAQLVQVDK VRGTLAKLEA FADTVAPQLS PGDIVVALGH TPVGSIFDLK 2300
    VGSTKHTLQA IETRVLAGSK MTVARVVDPT PTPPPAPVPI PLPPKVLENG 2350
    PNAWGDEDRL NKKKRRRMEA LGIYVMGGKK YQKFWDKNSG DVFYEEVHNN 2400
    TDEWECLRVG DPADFDPEKG TLCGHVTIEN KAYHVYTSPS GKKFLVPVNP 2450
    ENGRVQWEAA KLSVEQALGM MNVDGELTAK ELEKLKRIID KLQGLTKEQC 2500
    LNCLAASDLT RCGRGGLVVT ETAVKIVKFH NRTFTLGPVN LKVASEVELK 2550
    DAVEHNQHPV ARPIDGGVVL LRSAVPSLID VLISGADASP KLLAHHGPGN 2600
    TGIDGTLWDF ESEATKEEVA LSAQIIQACD IRRGDAPEIG LPYKLYPVRG 2650
    NPERVKGVLQ NTRFGDIPYK TPSDTGSPVH AAACLTPNAT PVTDGRSVLA 2700
    TTMPPGFELY VPTIPASVLD YLDSRPDCPK QLTEHGCEDA ALKDLSKYDL 2750
    STQGFVLPGV LRLVRKYLFA HVGKCPPVHR PSTYPAKNSM AGINGNRFPT 2800
    KDIQSVPEID VLCAQAVREN WQTVTPCTLK KQYCGKKKTR TILGTNNFIA 2850
    LAHRAVLSGV TQGFMKKAFN SPIALGKNKF KELQTPVLGR CLEADLASCD 2900
    RSTPAIVRWF AANLLYELAC AEEHLPSYVL NCCHDLLVTQ SGAVTKRGGL 2950
    SSGDPITSVS NTIYSLVIYA QHMVLSYFKS GHPHGLLFLQ DQLKFEDMLK 3000
    VQPLIVYSDD LVLYAESPTM PNYHWWVEHL NLMLGFQTDP KKTAITDSPS 3050
    FLGCRIINGR QLVPNRDRIL AALAYHMKAS NVSEYYASAA AILMDSCACL 3100
    EYDPEWFEEL VVGIAQCARK DGYSFPGTPF FMSMWEKLRS NYEGKKSRVC 3150
    GYCGAPAPYA TACGLDVCIY HTHFHQHCPV TIWCGHPAGS GSCSECKSPV 3200
    GKGTSPLDEV LEQVPYKPPR TVIMHVEQGL TPLDPGRYQT RRGLVSVRRG 3250
    IRGNEVGLPD GDYASTALLP TCKEINMVAV ASNVLRSRFI IGPPGAGKTY 3300
    WLLQQVQDGD VIYTPTHQTM LDMIRALGTC RFNVPAGTTL QFPVPSRTGP 3350
    WVRILAGGWC PGKNSFLDEA AYCNHLDVLR LLSKTTLTCL GDFKQLHPVG 3400
    FDSHCYVFDI MPQTQLKTIW RFGQNICDAI QPDYRDKLMS MVNTTRVTYV 3450
    EKPVRYGQVL TPYHRDREDD AITIDSSQGA TFDVVTLHLP TKDSLNRQRA 3500
    LVAITRARHA IFVYDPHRQL QGLFDLPAKG TPVNLAVHCD GQLIVLDRNN 3550
    KECTVAQALG NGDKFRATDK RVVDSLRAIC ADLEGSSSPL PKVAHNLGFY 3600
    FSPDLTQFAK LPVELAPHWP VVSTQNNEKW PDRLVASLRP IHKYSRACIG 3650
    AGYMVGPSVF LGTPGVVSYY LTKFVKGGAQ VLPETVFSTG RIEVDCREYL 3700
    DDREREVAAS LPHGFIGDVK GTTVGGCHHV TSRYLPRVLP KESVAVVGVS 3750
    SPGKAAKALC TLTDVYLPDL EAYLHPETQS KCWKMMLDFK EVRLMVWKDK 3800
    TAYFQLEGRY FTWYQLASYA SYIRVPVNST VYLDPCMGPA LCNRRVVGST 3850
    HWGADLAVTP YDYGAKIILS SAYHGEMPPG YKILACAEFS LDDPVKYKHT 3900
    WGFESDTAYL YEFTGNGEDW EDYNDAFRAR QEGKIYKATA TSLKFYFPPG 3950
    PVIEPTLGLN 3960

    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.

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

    Sequence cautioni

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

    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:
    EMBL
    GenBank
    DDBJ
    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:
    EMBL
    GenBank
    DDBJ
    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...

    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 1, 2014
    This is version 97 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