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Q04561

- RPOA_PRRSL

UniProt

Q04561 - RPOA_PRRSL

Protein

Replicase polyprotein 1ab

Gene

rep

Organism
Porcine reproductive and respiratory syndrome virus (strain Lelystad) (PRRSV)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 113 (01 Oct 2014)
      Sequence version 3 (10 Aug 2010)
      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 By similarity.By similarity
    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 activity1 PublicationPROSITE-ProRule annotation
    Active sitei146 – 1461For Nsp1-alpha papain-like cysteine proteinase activity1 PublicationPROSITE-ProRule annotation
    Sitei180 – 1812Cleavage; by autolysisSequence Analysis
    Active sitei276 – 2761For Nsp1-beta papain-like cysteine proteinase activity1 PublicationPROSITE-ProRule annotation
    Active sitei345 – 3451For Nsp1-beta papain-like cysteine proteinase activity1 PublicationPROSITE-ProRule annotation
    Sitei385 – 3862Cleavage; by autolysisBy similarity
    Active sitei429 – 4291For Nsp2 cysteine proteinase activityPROSITE-ProRule annotation
    Active sitei498 – 4981For Nsp2 cysteine proteinase activityPROSITE-ProRule annotation
    Sitei1463 – 14642Cleavage; by CP2Sequence Analysis
    Sitei1693 – 16942Cleavage; by 3CLSPBy similarity
    Active sitei1732 – 17321Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation
    Active sitei1757 – 17571Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation
    Active sitei1810 – 18101Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation
    Sitei1896 – 18972Cleavage; by 3CLSPBy similarity
    Sitei2066 – 20672Cleavage; by 3CLSPBy similarity
    Sitei2082 – 20832Cleavage; by 3CLSPBy similarity
    Sitei2231 – 22322Cleavage; by 3CLSPBy similarity
    Sitei2351 – 23522Cleavage; by 3CLSPBy similarity
    Sitei3037 – 30382Cleavage; by 3CLSPBy similarity
    Sitei3088 – 30881Involved in mRNA transcription processBy similarity
    Sitei3479 – 34802Cleavage; by 3CLSPBy similarity
    Sitei3703 – 37042Cleavage; by 3CLSPBy similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri8 – 2821C4-type; atypicalAdd
    BLAST
    Nucleotide bindingi3186 – 31938ATPBy 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

    Protein family/group databases

    MEROPSiC32.001.

    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 Lelystad) (PRRSV)
    Taxonomic identifieri11049 [NCBI]
    Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageNidoviralesArteriviridaeArterivirus
    Virus hostiSus scrofa (Pig) [TaxID: 9823]
    ProteomesiUP000006687: Genome

    Subcellular locationi

    Chain Nsp1 : Host nucleus By similarity. Host cytoplasm By similarity

    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 → G or S: Complete loss of cleavage between nsp1-alpha and nsp1-beta. 1 Publication
    Mutagenesisi92 – 921H → F or Y: No effect. 1 Publication
    Mutagenesisi115 – 1151H → A: No effect. 1 Publication
    Mutagenesisi115 – 1151H → Y: 50% loss of cleavage between nsp1-alpha and nsp1-beta. 1 Publication
    Mutagenesisi146 – 1461H → D, F, I, N or Y: Complete loss of cleavage between nsp1-alpha and nsp1-beta. 1 Publication
    Mutagenesisi157 – 1571H → D: 20% loss of cleavage between nsp1-alpha and nsp1-beta. 1 Publication
    Mutagenesisi157 – 1571H → I: 90% loss of cleavage between nsp1-alpha and nsp1-beta. 1 Publication
    Mutagenesisi157 – 1571H → N: 50% loss of cleavage between nsp1-alpha and nsp1-beta. 1 Publication
    Mutagenesisi157 – 1571H → Y: No effect. 1 Publication
    Mutagenesisi276 – 2761C → I, L, R or S: Complete loss of cleavage between nsp1-beta and nsp2. 1 Publication
    Mutagenesisi345 – 3451H → D or Y: Complete loss of cleavage between nsp1-beta and nsp2. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 38553855Replicase polyprotein 1abPRO_0000036683Add
    BLAST
    Chaini1 – 384384Nsp1By similarityPRO_0000410828Add
    BLAST
    Chaini1 – 180180Nsp1-alpha papain-like cysteine proteinaseSequence AnalysisPRO_0000036685Add
    BLAST
    Chaini181 – 385205Nsp1-beta papain-like cysteine proteinaseSequence AnalysisPRO_0000036686Add
    BLAST
    Chaini386 – 14631078Nsp2 cysteine proteinaseSequence AnalysisPRO_0000036687Add
    BLAST
    Chaini1464 – 1693230Non-structural protein 3By similarityPRO_0000036688Add
    BLAST
    Chaini1694 – 18962033C-like serine proteinaseBy similarityPRO_0000036689Add
    BLAST
    Chaini1897 – 2351455Non-structural protein 5-6-7By similarityPRO_0000036690Add
    BLAST
    Chaini1897 – 2066170Non-structural protein 5By similarityPRO_0000423126Add
    BLAST
    Chaini2067 – 208216Non-structural protein 6By similarityPRO_0000423127Add
    BLAST
    Chaini2083 – 2231149Non-structural protein 7-alphaBy similarityPRO_0000423128Add
    BLAST
    Chaini2232 – 2351120Non-structural protein 7-betaBy similarityPRO_0000423129Add
    BLAST
    Chaini2352 – 3037686RNA-directed RNA polymeraseBy similarityPRO_0000036691Add
    BLAST
    Chaini2352 – 239645Non-structural protein 8By similarityPRO_0000036692Add
    BLAST
    Chaini3038 – 3479442HelicaseBy similarityPRO_0000036693Add
    BLAST
    Chaini3480 – 3703224Non-structural protein 11By similarityPRO_0000036694Add
    BLAST
    Chaini3704 – 3855152Non-structural protein 12By similarityPRO_0000036695Add
    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

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei1134 – 115421HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1179 – 119921HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1252 – 127221HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1468 – 148821HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1521 – 154121HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1543 – 156321HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1573 – 159321HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1609 – 162921HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1919 – 193921HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1943 – 196321HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1977 – 199721HelicalSequence AnalysisAdd
    BLAST
    Transmembranei2020 – 204021HelicalSequence AnalysisAdd
    BLAST

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini69 – 180112Peptidase C31PROSITE-ProRule annotationAdd
    BLAST
    Domaini269 – 385117Peptidase C32PROSITE-ProRule annotationAdd
    BLAST
    Domaini420 – 527108Peptidase C33PROSITE-ProRule annotationAdd
    BLAST
    Domaini1694 – 1896203Peptidase S32PROSITE-ProRule annotationAdd
    BLAST
    Domaini2783 – 2917135RdRp catalyticPROSITE-ProRule annotationAdd
    BLAST
    Domaini3038 – 310164AV MBDAdd
    BLAST
    Domaini3151 – 3310160(+)RNA virus helicase ATP-bindingAdd
    BLAST
    Domaini3311 – 3440130(+)RNA virus helicase C-terminalAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni69 – 182114PCP1-alphaAdd
    BLAST
    Regioni269 – 384116PCP1-betaAdd
    BLAST
    Regioni418 – 50588OTU-likeAdd
    BLAST
    Regioni1149 – 1272124HD1Add
    BLAST
    Regioni1327 – 135125WCCHAdd
    BLAST
    Regioni1468 – 1629162HD2Add
    BLAST
    Regioni1919 – 2040122HD3Add
    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. 1 hit.
    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: Q04561-1) [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

    MSGTFSRCMC TPAARVFWNA GQVFCTRCLS ARSLLSPELQ DTDLGAVGLF     50
    YKPRDKLHWK VPIGIPQVEC TPSGCCWLSA VFPLARMTSG NHNFLQRLVK 100
    VADVLYRDGC LAPRHLRELQ VYERGCNWYP ITGPVPGMGL FANSMHVSDQ 150
    PFPGATHVLT NSPLPQQACR QPFCPFEEAH SSVYRWKKFV VFTDSSLNGR 200
    SRMMWTPESD DSAALEVLPP ELERQVEILI RSFPAHHPVD LADWELTESP 250
    ENGFSFNTSH SCGHLVQNPD VFDGKCWLSC FLGQSVEVRC HEEHLADAFG 300
    YQTKWGVHGK YLQRRLQVRG IRAVVDPDGP IHVEALSCPQ SWIRHLTLDD 350
    DVTPGFVRLT SLRIVPNTEP TTSRIFRFGA HKWYGAAGKR ARAKRAAKSE 400
    KDSAPTPKVA LPVPTCGITT YSPPTDGSCG WHVLAAIMNR MINGDFTSPL 450
    TQYNRPEDDW ASDYDLVQAI QCLRLPATVV RNRACPNAKY LIKLNGVHWE 500
    VEVRSGMAPR SLSRECVVGV CSEGCVAPPY PADGLPKRAL EALASAYRLP 550
    SDCVSSGIAD FLANPPPQEF WTLDKMLTSP SPERSGFSSL YKLLLEVVPQ 600
    KCGATEGAFI YAVERMLKDC PSSKQAMALL AKIKVPSSKA PSVSLDECFP 650
    TDVLADFEPA SQERPQSSGA AVVLCSPDAK EFEEAAPEEV QESGHKAVHS 700
    ALLAEGPNNE QVQVVAGEQL KLGGCGLAVG NAHEGALVSA GLINLVGGNL 750
    SPSDPMKENM LNSREDEPLD LSQPAPASTT TLVREQTPDN PGSDAGALPV 800
    TVREFVPTGP ILCHVEHCGT ESGDSSSPLD LSDAQTLDQP LNLSLAAWPV 850
    RATASDPGWV HGRREPVFVK PRNAFSDGDS ALQFGELSES SSVIEFDRTK 900
    DAPVVDAPVD LTTSNEALSV VDPFEFAELK RPRFSAQALI DRGGPLADVH 950
    AKIKNRVYEQ CLQACEPGSR ATPATREWLD KMWDRVDMKT WRCTSQFQAG 1000
    RILASLKFLP DMIQDTPPPV PRKNRASDNA GLKQLVAQWD RKLSVTPPPK 1050
    PVGPVLDQIV PPPTDIQQED VTPSDGPPHA PDFPSRVSTG GSWKGLMLSG 1100
    TRLAGSISQR LMTWVFEVFS HLPAFMLTLF SPRGSMAPGD WLFAGVVLLA 1150
    LLLCRSYPIL GCLPLLGVFS GSLRRVRLGV FGSWMAFAVF LFSTPSNPVG 1200
    SSCDHDSPEC HAELLALEQR QLWEPVRGLV VGPSGLLCVI LGKLLGGSRY 1250
    LWHVLLRLCM LADLALSLVY VVSQGRCHKC WGKCIRTAPA EVALNVFPFS 1300
    RATRVSLVSL CDRFQTPKGV DPVHLATGWR GCWRGESPIH QPHQKPIAYA 1350
    NLDEKKMSAQ TVVAVPYDPS QAIKCLKVLQ AGGAIVDQPT PEVVRVSEIP 1400
    FSAPFFPKVP VNPDCRVVVD SDTFVAAVRC GYSTAQLVLG RGNFAKLNQT 1450
    PPRNSISTKT TGGASYTLAV AQVSAWTLVH FILGLWFTSP QVCGRGTADP 1500
    WCSNPFSYPT YGPGVVCSSR LCVSADGVTL PLFSAVAQLS GREVGIFILV 1550
    LVSLTALAHR MALKADMLVV FSAFCAYAWP MSSWLICFFP ILLKWVTLHP 1600
    LTMLWVHSFL VFCLPAAGIL SLGITGLLWA IGRFTQVAGI ITPYDIHQYT 1650
    SGPRGAAAVA TAPEGTYMAA VRRAALTGRT LIFTPSAVGS LLEGAFRTHK 1700
    PCLNTVNVVG SSLGSGGVFT IDGRRTVVTA AHVLNGDTAR VTGDSYNRMH 1750
    TFKTNGDYAW SHADDWQGVA PVVKVAKGYR GRAYWQTSTG VEPGIIGEGF 1800
    AFCFTNCGDS GSPVISESGD LIGIHTGSNK LGSGLVTTPE GETCTIKETK 1850
    LSDLSRHFAG PSVPLGDIKL SPAIIPDVTS IPSDLASLLA SVPVVEGGLS 1900
    TVQLLCVFFL LWRMMGHAWT PIVAVGFFLL NEILPAVLVR AVFSFALFVL 1950
    AWATPWSAQV LMIRLLTASL NRNKLSLAFY ALGGVVGLAA EIGTFAGRLS 2000
    ELSQALSTYC FLPRVLAMTS CVPTIIIGGL HTLGVILWLF KYRCLHNMLV 2050
    GDGSFSSAFF LRYFAEGNLR KGVSQSCGMN NESLTAALAC KLSQADLDFL 2100
    SSLTNFKCFV SASNMKNAAG QYIEAAYAKA LRQELASLVQ IDKMKGVLSK 2150
    LEAFAETATP SLDIGDVIVL LGQHPHGSIL DINVGTERKT VSVQETRSLG 2200
    GSKFSVCTVV SNTPVDALTG IPLQTPTPLF ENGPRHRSEE DDLKVERMKK 2250
    HCVSLGFHNI NGKVYCKIWD KSTGDTFYTD DSRYTQDHAF QDRSADYRDR 2300
    DYEGVQTTPQ QGFDPKSETP VGTVVIGGIT YNRYLIKGKE VLVPKPDNCL 2350
    EAAKLSLEQA LAGMGQTCDL TAAEVEKLKR IISQLQGLTT EQALNCLLAA 2400
    SGLTRCGRGG LVVTETAVKI IKYHSRTFTL GPLDLKVTSE VEVKKSTEQG 2450
    HAVVANLCSG VILMRPHPPS LVDVLLKPGL DTIPGIQPGH GAGNMGVDGS 2500
    IWDFETAPTK AELELSKQII QACEVRRGDA PNLQLPYKLY PVRGDPERHK 2550
    GRLINTRFGD LPYKTPQDTK SAIHAACCLH PNGAPVSDGK STLGTTLQHG 2600
    FELYVPTVPY SVMEYLDSRP DTPFMCTKHG TSKAAAEDLQ KYDLSTQGFV 2650
    LPGVLRLVRR FIFGHIGKAP PLFLPSTYPA KNSMAGINGQ RFPTKDVQSI 2700
    PEIDEMCARA VKENWQTVTP CTLKKQYCSK PKTRTILGTN NFIALAHRSA 2750
    LSGVTQAFMK KAWKSPIALG KNKFKELHCT VAGRCLEADL ASCDRSTPAI 2800
    VRWFVANLLY ELAGCEEYLP SYVLNCCHDL VATQDGAFTK RGGLSSGDPV 2850
    TSVSNTVYSL VIYAQHMVLS ALKMGHEIGL KFLEEQLKFE DLLEIQPMLV 2900
    YSDDLVLYAE RPTFPNYHWW VEHLDLMLGF RTDPKKTVIT DKPSFLGCRI 2950
    EAGRQLVPNR DRILAALAYH MKAQNASEYY ASAAAILMDS CACIDHDPEW 3000
    YEDLICGIAR CARQDGYSFP GPAFFMSMWE KLRSHNEGKK FRHCGICDAK 3050
    ADYASACGLD LCLFHSHFHQ HCPVTLSCGH HAGSKECSQC QSPVGAGRSP 3100
    LDAVLKQIPY KPPRTVIMKV GNKTTALDPG RYQSRRGLVA VKRGIAGNEV 3150
    DLSDGDYQVV PLLPTCKDIN MVKVACNVLL SKFIVGPPGS GKTTWLLSQV 3200
    QDDDVIYTPT HQTMFDIVSA LKVCRYSIPG ASGLPFPPPA RSGPWVRLIA 3250
    SGHVPGRVSY LDEAGYCNHL DILRLLSKTP LVCLGDLQQL HPVGFDSYCY 3300
    VFDQMPQKQL TTIYRFGPNI CAAIQPCYRE KLESKARNTR VVFTTRPVAF 3350
    GQVLTPYHKD RIGSAITIDS SQGATFDIVT LHLPSPKSLN KSRALVAITR 3400
    ARHGLFIYDP HNQLQEFFNL TPERTDCNLV FSRGDELVVL NADNAVTTVA 3450
    KALETGPSRF RVSDPRCKSL LAACSASLEG SCMPLPQVAH NLGFYFSPDS 3500
    PTFAPLPKEL APHWPVVTHQ NNRAWPDRLV ASMRPIDARY SKPMVGAGYV 3550
    VGPSTFLGTP GVVSYYLTLY IRGEPQALPE TLVSTGRIAT DCREYLDAAE 3600
    EEAAKELPHA FIGDVKGTTV GGCHHITSKY LPRSLPKDSV AVVGVSSPGR 3650
    AAKAVCTLTD VYLPELRPYL QPETASKCWK LKLDFRDVRL MVWKGATAYF 3700
    QLEGLTWSAL PDYARFIQLP KDAVVYIDPC IGPATANRKV VRTTDWRADL 3750
    AVTPYDYGAQ NILTTAWFED LGPQWKILGL QPFRRAFGFE NTEDWAILAR 3800
    RMNDGKDYTD YNWNCVRERP HAIYGRARDH TYHFAPGTEL QVELGKPRLP 3850
    PGQVP 3855

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

    Length:3,855
    Mass (Da):421,332
    Last modified:August 10, 2010 - v3
    Checksum:i421F613ED2E4858F
    GO
    Isoform Replicase polyprotein 1a (identifier: Q04561-2) [UniParc]FASTAAdd to Basket

    Also known as: pp1a, ORF1a polyprotein

    The sequence of this isoform differs from the canonical sequence as follows:
         2397-3855: Missing.

    Note: Produced by conventional translation.

    Show »
    Length:2,396
    Mass (Da):260,039
    Checksum:i570868D98DA3DE84
    GO

    Sequence cautioni

    The sequence AAA46273.2 differs from that shown. Reason: Erroneous initiation.
    The sequence AAA46274.1 differs from that shown. Reason: Erroneous initiation.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti3502 – 35021T → V in AAA47101. (PubMed:8438574)Curated
    Sequence conflicti3740 – 37401V → I in AAA47101. (PubMed:8438574)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei2397 – 38551459Missing in isoform Replicase polyprotein 1a. CuratedVSP_032892Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M96262 Genomic RNA. Translation: AAA46273.2. Different initiation.
    M96262 Genomic RNA. Translation: AAA46274.1. Different initiation.
    L04493 Genomic RNA. Translation: AAA47101.1.
    PIRiA36861.
    A45392.
    B36861.

    Keywords - Coding sequence diversityi

    Ribosomal frameshifting

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M96262 Genomic RNA. Translation: AAA46273.2 . Different initiation.
    M96262 Genomic RNA. Translation: AAA46274.1 . Different initiation.
    L04493 Genomic RNA. Translation: AAA47101.1 .
    PIRi A36861.
    A45392.
    B36861.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protein family/group databases

    MEROPSi C32.001.

    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. 1 hit.
    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. "Lelystad virus, the causative agent of porcine epidemic abortion and respiratory syndrome (PEARS), is related to LDV and EAV."
      Meulenberg J.J.M., Hulst M.M., de Meijer E.J., Moonen P.L.J.M., den Besten A., de Kluyver E.P., Wensvoort G., Moormann R.J.M.
      Virology 192:62-72(1993) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
    2. Kroese M.V., Moormann R.J.M.
      Submitted (NOV-2000) to the EMBL/GenBank/DDBJ databases
      Cited for: SEQUENCE REVISION TO 3327.
    3. "Molecular characterization of porcine reproductive and respiratory syndrome virus, a member of the arterivirus group."
      Conzelmann K.K., Visser N., van Woensel P., Thiel H.J.
      Virology 193:329-339(1993) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA] OF 3323-3855.
      Strain: Isolate Boxmeer 10.
    4. "Processing and evolution of the N-terminal region of the arterivirus replicase ORF1a protein: identification of two papainlike cysteine proteases."
      den Boon J.A., Faaberg K.S., Meulenberg J.J.M., Wassenaar A.L.M., Plagemann P.G.W., Gorbalenya A.E., Snijder E.J.
      J. Virol. 69:4500-4505(1995) [PubMed] [Europe PMC] [Abstract]
      Cited for: ACTIVE SITES OF PCP1-ALPHA AND PCP1-BETA, MUTAGENESIS OF CYS-76; HIS-92; HIS-115; HIS-146; HIS-157; HIS-157; CYS-276 AND HIS-345.

    Entry informationi

    Entry nameiRPOA_PRRSL
    AccessioniPrimary (citable) accession number: Q04561
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 1, 1993
    Last sequence update: August 10, 2010
    Last modified: October 1, 2014
    This is version 113 of the entry and version 3 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programViral Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, 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