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Q9WJB2

- RPOA_PRRSR

UniProt

Q9WJB2 - RPOA_PRRSR

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Protein

Replicase polyprotein 1ab

Gene
rep, 1a-1b
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.4 Publications
Nsp1 is essential for viral subgenomic mRNA synthesis By similarity.4 Publications
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.4 Publications
Nsp1-beta seems to inhibit the translocation of STAT1 into the cell nucleus.4 Publications
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.4 Publications
The 3C-like serine proteinase chain is responsible for the majority of cleavages as it cleaves the C-terminus of the polyprotein By similarity.4 Publications
The helicase chain, which contains a zinc finger structure, displays RNA and DNA duplex-unwinding activities with 5' to 3' polarity By similarity.4 Publications

Catalytic activityi

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).
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 activity By similarity
Active sitei146 – 1461For Nsp1-alpha papain-like cysteine proteinase activity By similarity
Sitei180 – 1812Cleavage; by autolysis
Active sitei270 – 2701For Nsp1-beta papain-like cysteine proteinase activity By similarity
Active sitei339 – 3391For Nsp1-beta papain-like cysteine proteinase activity By similarity
Sitei383 – 3842Cleavage; by autolysis
Active sitei437 – 4371For Nsp2 cysteine proteinase activity By similarity
Active sitei506 – 5061For Nsp2 cysteine proteinase activity By similarity
Sitei1579 – 15802Cleavage; by CP2 Reviewed prediction
Sitei1809 – 18102Cleavage; by 3CLSP By similarity
Active sitei1848 – 18481Charge relay system; for 3C-like serine proteinase activity By similarity
Active sitei1873 – 18731Charge relay system; for 3C-like serine proteinase activity By similarity
Active sitei1927 – 19271Charge relay system; for 3C-like serine proteinase activity By similarity
Sitei2013 – 20142Cleavage; by 3CLSP By similarity
Sitei2183 – 21842Cleavage; by 3CLSP By similarity
Sitei2199 – 22002Cleavage; by 3CLSP By similarity
Sitei2348 – 23492Cleavage; by 3CLSP By similarity
Sitei2458 – 24592Cleavage; by 3CLSP By similarity
Sitei3143 – 31442Cleavage; by 3CLSP By similarity
Sitei3194 – 31941Involved in mRNA transcription process By similarity
Sitei3584 – 35852Cleavage; by 3CLSP By similarity
Sitei3807 – 38082Cleavage; by 3CLSP By similarity

Regions

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

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

Chain Nsp1 : Host nucleus. Host cytoplasm 1 Publication
Chain Nsp1-alpha papain-like cysteine proteinase : Host nucleus. Host cytoplasm 1 Publication
Chain Nsp1-beta papain-like cysteine proteinase : Host cytoplasm 1 Publication
Chain Nsp2 cysteine proteinase : Host membrane; Multi-pass membrane protein Reviewed prediction 1 Publication
Chain Non-structural protein 3 : Host membrane; Multi-pass membrane protein Reviewed prediction 1 Publication
Chain Non-structural protein 5-6-7 : Host membrane; Multi-pass membrane protein Reviewed prediction 1 Publication
Chain 3C-like serine proteinase : Host cytoplasm Reviewed prediction 1 Publication
Chain RNA-directed RNA polymerase : Host cytoplasmhost perinuclear region Reviewed prediction 1 Publication
Chain Helicase : Host cytoplasmhost perinuclear region Reviewed prediction 1 Publication

Topology

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

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
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 – 382382Nsp1 By similarityPRO_0000410829Add
BLAST
Chaini1 – 180180Nsp1-alpha papain-like cysteine proteinasePRO_0000036698Add
BLAST
Chaini181 – 383203Nsp1-beta papain-like cysteine proteinasePRO_0000036699Add
BLAST
Chaini384 – 15791196Nsp2 cysteine proteinase Reviewed predictionPRO_0000036700Add
BLAST
Chaini1580 – 1809230Non-structural protein 3 By similarityPRO_0000036701Add
BLAST
Chaini1810 – 20132043C-like serine proteinase By similarityPRO_0000036702Add
BLAST
Chaini2014 – 2458445Non-structural protein 5-6-7 By similarityPRO_0000036703Add
BLAST
Chaini2014 – 2183170Non-structural protein 5 By similarityPRO_0000423130Add
BLAST
Chaini2184 – 219916Non-structural protein 6 By similarityPRO_0000423131Add
BLAST
Chaini2200 – 2348149Non-structural protein 7-alpha By similarityPRO_0000423132Add
BLAST
Chaini2349 – 2458110Non-structural protein 7-beta By similarityPRO_0000423133Add
BLAST
Chaini2459 – 3143685RNA-directed RNA polymerase By similarityPRO_0000036704Add
BLAST
Chaini2459 – 250345Non-structural protein 8 By similarityPRO_0000036705Add
BLAST
Chaini3144 – 3584441Helicase By similarityPRO_0000036706Add
BLAST
Chaini3585 – 3807223Non-structural protein 11 By similarityPRO_0000036707Add
BLAST
Chaini3808 – 3960153Non-structural protein 12 By 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.1 Publication

Structurei

3D structure databases

ProteinModelPortaliQ9WJB2.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini69 – 180112Peptidase C31Add
BLAST
Domaini263 – 383121Peptidase C32Add
BLAST
Domaini428 – 535108Peptidase C33Add
BLAST
Domaini1810 – 2013204Peptidase S32Add
BLAST
Domaini2889 – 3023135RdRp catalyticAdd
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

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. VSP_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: May 14, 2014
This is version 96 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

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