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A0MD28

- RPOA_PRRSS

UniProt

A0MD28 - RPOA_PRRSS

Protein

Replicase polyprotein 1ab

Gene
N/A
Organism
Porcine reproductive and respiratory syndrome virus (isolate Pig/United States/SD 01-08/2001) (PRRSV)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 38 (01 Oct 2014)
      Sequence version 2 (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.By similarity
    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 By similarity. Deubiquitinates host NFKBIA, thereby interfering with NFKBIA degradation and impairing subsequent NF-kappa-B activation.By similarity1 Publication
    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 autolysisSequence Analysis
    Active sitei276 – 2761For Nsp1-beta papain-like cysteine proteinase activityPROSITE-ProRule annotation
    Active sitei345 – 3451For Nsp1-beta papain-like cysteine proteinase activityPROSITE-ProRule annotation
    Sitei385 – 3862Cleavage; by autolysis
    Active sitei429 – 4291For Nsp2 cysteine proteinase activityPROSITE-ProRule annotation
    Active sitei498 – 4981For Nsp2 cysteine proteinase activityPROSITE-ProRule annotation
    Sitei1446 – 14472Cleavage; by CP2Sequence Analysis
    Sitei1676 – 16772Cleavage; by 3CLSP
    Active sitei1715 – 17151Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation
    Active sitei1740 – 17401Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation
    Active sitei1793 – 17931Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation
    Sitei1879 – 18802Cleavage; by 3CLSP
    Sitei2049 – 20502Cleavage; by 3CLSP
    Sitei2065 – 20662Cleavage; by 3CLSP
    Sitei2214 – 22152Cleavage; by 3CLSP
    Sitei2334 – 23352Cleavage; by 3CLSP
    Sitei3020 – 30212Cleavage; by 3CLSP
    Sitei3071 – 30711Involved in mRNA transcription processBy similarity
    Sitei3462 – 34632Cleavage; by 3CLSPBy similarity
    Sitei3686 – 36872Cleavage; by 3CLSPBy similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri8 – 2821C4-type; atypicalAdd
    BLAST
    Nucleotide bindingi3168 – 31758ATPBy 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
    OrganismiPorcine reproductive and respiratory syndrome virus (isolate Pig/United States/SD 01-08/2001) (PRRSV)
    Taxonomic identifieri857306 [NCBI]
    Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageNidoviralesArteriviridaeArterivirus
    Virus hostiSus scrofa (Pig) [TaxID: 9823]
    ProteomesiUP000000937: Genome

    Subcellular locationi

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

    GO - Cellular componenti

    1. host cell endoplasmic reticulum 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 endoplasmic reticulum, Host membrane, Host nucleus, Membrane

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi429 – 4291C → A: Lethal. 1 Publication
    Mutagenesisi458 – 4581D → A: Slight reduction in the ability of Nsp2 to impair NF-kappaB activation. 1 Publication
    Mutagenesisi462 – 4621S → A: Reduction in the ability of Nsp2 to impair NF-kappaB activation. 1 Publication
    Mutagenesisi463 – 4631D → A: Lethal. 1 Publication
    Mutagenesisi465 – 4651D → A: Reduction in the ability of Nsp2 to impair NF-kappaB activation. 1 Publication
    Mutagenesisi498 – 4981H → A: Lethal. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 38383838Replicase polyprotein 1abBy similarityPRO_0000397084Add
    BLAST
    Chaini1 – 385385Nsp1PRO_0000410830Add
    BLAST
    Chaini1 – 180180Nsp1-alpha papain-like cysteine proteinaseSequence AnalysisPRO_0000397085Add
    BLAST
    Chaini181 – 385205Nsp1-beta papain-like cysteine proteinaseSequence AnalysisPRO_0000397086Add
    BLAST
    Chaini386 – 14461061Nsp2 cysteine proteinasePRO_0000397087Add
    BLAST
    Chaini1447 – 1676230Non-structural protein 3PRO_0000397088Add
    BLAST
    Chaini1677 – 18792033C-like serine proteinasePRO_0000397089Add
    BLAST
    Chaini1880 – 2334455Non-structural protein 5-6-7By similarityPRO_0000397090Add
    BLAST
    Chaini1880 – 2049170Non-structural protein 5PRO_0000423134Add
    BLAST
    Chaini2050 – 206516Non-structural protein 6PRO_0000423135Add
    BLAST
    Chaini2066 – 2214149Non-structural protein 7-alphaPRO_0000423136Add
    BLAST
    Chaini2215 – 2334120Non-structural protein 7-betaPRO_0000423137Add
    BLAST
    Chaini2335 – 3020686RNA-directed RNA polymeraseBy similarityPRO_0000397091Add
    BLAST
    Chaini2335 – 237945Non-structural protein 8By similarityPRO_0000397092Add
    BLAST
    Chaini3021 – 3462442HelicaseBy similarityPRO_0000397093Add
    BLAST
    Chaini3463 – 3686224Non-structural protein 11By similarityPRO_0000397094Add
    BLAST
    Chaini3687 – 3838152Non-structural protein 12By similarityPRO_0000397095Add
    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. Many long-lived processing intermediates exist such as nsp3-4, nsp5-7, nsp5-8 and nsp3-8.By similarity1 Publication

    Structurei

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei1094 – 111421HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1117 – 113721HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1162 – 118221HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1211 – 123121HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1235 – 125521HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1450 – 147021HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1526 – 154621HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1556 – 157621HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1592 – 161221HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1875 – 189521HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1916 – 193621HelicalSequence AnalysisAdd
    BLAST
    Transmembranei1960 – 198021HelicalSequence AnalysisAdd
    BLAST
    Transmembranei2003 – 202321HelicalSequence AnalysisAdd
    BLAST
    Transmembranei2029 – 204820HelicalSequence 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
    Domaini1677 – 1879203Peptidase S32PROSITE-ProRule annotationAdd
    BLAST
    Domaini2765 – 2899135RdRp catalyticPROSITE-ProRule annotationAdd
    BLAST
    Domaini3021 – 308464AV MBDAdd
    BLAST
    Domaini3134 – 3293160(+)RNA virus helicase ATP-bindingAdd
    BLAST
    Domaini3294 – 3423130(+)RNA virus helicase C-terminalAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni69 – 182114PCP1-alphaBy similarityAdd
    BLAST
    Regioni269 – 384116PCP1-betaBy similarityAdd
    BLAST
    Regioni418 – 50588OTU-likeAdd
    BLAST
    Regioni1132 – 1255124HD1By similarityAdd
    BLAST
    Regioni1310 – 133425WCCHBy similarityAdd
    BLAST
    Regioni1451 – 1612162HD2By similarityAdd
    BLAST
    Regioni1902 – 2023122HD3By similarityAdd
    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.Curated

    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 (3)i

    Sequence statusi: Complete.

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

    This entry describes 3 isoformsi produced by ribosomal frameshifting. Align

    Isoform Replicase polyprotein 1ab (identifier: A0MD28-1) [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 ARPLLSPELQ DTDLGVVGLF     50
    YKPKDKIHWK VPIGIPQVEC TPSGCCWLSA VFPLARMTSG NHNFLQRLVK 100
    VADVLYRDGC LAPRHLRELQ VYERGCSWYP ITGPVPGMGL FANSMHVSDQ 150
    PFPGATHVLT NSPLPQRACR QPFCPFEEAH SDVYRWKKFV IFTDSSPNGR 200
    FRMMWTPESD DSAALEVLPP ELERQVEILT RSFPAHHPIN LADWELTESP 250
    ENGFSFGTSH SCGHIVQNPN VFDGKCWLTC FLGQSAEVCY HEEHLANALG 300
    YQTKWGVHGK YLQRRLQVRG MRAVVDPDGP IHVEALSCSQ SWVRHLTLNN 350
    DVTPGFVRLT SIRIVSNTEP TAFRIFRFGA HKWYGAAGKR ARAKRATKSG 400
    KDSALAPKIA PPVPTCGITT YSPPTDGSCG WHVLAAIVNR MINGDFTSPL 450
    PQYNRPEDDW ASDYDLAQAI QCLQLPATVV RNRACPNAKY LIKLNGVHWE 500
    VEVRSGMAPR SLSRECVVGV CSEGCVAPPY PADGLPKRAL EALASAYRLP 550
    SDCVSSGIAD FLADPPPQEF WTLDKMLTSP SPERSGFSSL YKLLLEVVPQ 600
    KCGATEGAFV YAVERMLKDC PSPEQAMALL AKIKVPSSKA PSVSLDECFP 650
    AGVPADFEPA FQERPRSPGA AVALCSPDAK GFEGTASEEA QESGHKAVHA 700
    VPLAEGPNNE QVQVVAGEQL ELGGCGLAIG SAQSSSDSKR ENMHNSREDE 750
    PLDLSHPAPA ATTTLVGEQT PDNPGSDASA LPIAVRGFVP TGPILRHVEH 800
    CGTESGDSSS PLDLSFAQTL DQPLDLSLAA WPVKATASDP GWVRGRCEPV 850
    FLKPRKAFSD GDSALQFGEL SESSSVIEFD QTKDTLVADA PVDLTTSNEA 900
    LSAVDPSEFV ELRRPRHSAQ ALIDRGGPLA DVHAKIKNRV YEQCLQACEP 950
    GSRATPATRE WLDKMWDRVD MKTWRCTSQF QAGRILASLK FLPDMIQDTP 1000
    PPVPRKNRAS DNAGLKQLVA RWDKKLSVTP PPKSAGLVLD QTVPPPTDIQ 1050
    QEDATPSDGL SHASDFSSRV STSWSWKGLM LSGTRLAGSA GQRLMTWVFE 1100
    VYSHLPAFIL TLFSPRGSMA PGDWLFAGVV LLALLLCRSY PILGCLPLLG 1150
    VFSGSLRRVR LGVFGSWMAF AVFLFSTPSN PVGSSCDHDS PECHAELLAL 1200
    EQRQLWEPVR GLVVGPSGLL CVILGKLLGG SRHLWHVILR LCMLTDLALS 1250
    LVYVVSQGRC HKCWGKCIRT APAEVALNVF PFSRATRNSL TSLCDRFQTP 1300
    KGVDPVHLAT GWRGCWRGES PIHQPHQKPI AYANLDEKKI SAQTVVAVPY 1350
    DPSQAIKCLK VLQAGGAIVD QPTPEVVRVS EIPFSAPFFP KVPVNPDCRI 1400
    VVDSDTFVAA VRCGYSTAQL VLGRGNFAKL NQTPLRDSAS TKTTGGASYT 1450
    LAVAQVSVWT LVHFILGLWF TSPQVCGRGT ADPWCSNPFS YPAYGPGVVC 1500
    SSRLCVSADG VTLPLFSAVA QLSGREVGIF ILVLVSLTAL AHRLALKADM 1550
    LVVFSAFCAY AWPMSSWLIC FFPILLKWVT LHPLTMLWVH SFLVFCMPAA 1600
    GILSLGITGL LWAVGRFTQV AGIITPYDIH QYTSGPRGAA AVATAPEGTY 1650
    MAAVRRAALT GRTLIFTPSA VGSLLEGAFR THKPCLNTVN VVGSSLGSGG 1700
    VFTIDGRKTV VTAAHVLNGD TARVTGDSYN RMHTFKTSGD YAWSHADDWQ 1750
    GVAPVVKVAK GYRGRAYWQT STGVEPGVIG EGFAFCFTNC GDSGSPVISE 1800
    SGDLIGIHTG SNKLGSGLVT TPEGETCAIK ETKLSDLSRH FAGPSVPLGD 1850
    IKLSPAIVPD VTSIPSDLAS LLASVPVMEG GLSTVQLLCV FFLLWRMMGH 1900
    AWTPIVAVGF FLLNEILPAV LVRAVFSFAL FILAWATPWS AQVLMIRLLT 1950
    ASLNRNKLSL AFYALGGVVG LAAEIGAFAG RLPELSQALS TYCFLPRVLA 2000
    MASYVPIIII GGLHALGVIL WLFKYRCLHN MLVGDGSFSS AFFLRYFAEG 2050
    NLRKGVSQSC GMSNESLTAA LACKLSQADL DFLSSLTNFK CFVSASNMKN 2100
    AAGQYIEAAY AKALRQELAS LVQVDKMKGI LSKLEAFAET ATPSLDAGDV 2150
    VVLLGQHPHG SILDINVGTE RKTVSVQETR SLGGSKFSVC TVVSNTPVDA 2200
    LTGIPLQTPT PLFENGPRHR GEEDDLRVER MKKHCVSLGF HNINGKVYCK 2250
    IWDKSTGDTF YTDDSRYTQD LAFQDRSADY RDRDYEGVQT APQQGFDPKS 2300
    ETPIGTVVIG GITYNRYLIK GKEVLVPKPD NCLEAAKLSL EQALAGMGQT 2350
    CDLTAAEVEK LRRIISQLQG LTTEQALNCL LAASGLTRCG RGGLVVTETA 2400
    VKIVKYHSRT FTLGPLDLKV TSEAEVKKST EQGHAVVANL CSGVILMRPH 2450
    PPSLVDVLLK PGLDTKPGIQ PGHGAGNMGV DGSTWDFETA PTKAELELSK 2500
    QIIQACEVRR GDAPNLQLPY KLYPVRGDPE RHGGRLINTR FGDLSYKTPQ 2550
    DTKSAIHAAC CLHPNGAPVS DGKSTLGTTL QHGFELYVPT VPYSVMEYLD 2600
    SRPDTPFMCT KHGTSKAAAE DLQKYDLSTQ GFVLPGVLRL VRRFIFGHIG 2650
    KAPPLFLPST YPAKNSMAGI NGQRFPTKDV QSIPEIDEMC ARAVKENWQT 2700
    VTPCTLKKQY CSKPKTRTIL GTNNFIALAH RSALSGVTQA FMKKAWKSPI 2750
    ALGKNKFKEL HCTVAGRCLE ADLASCDRST PAIVRWFVAN LLYELAGCEE 2800
    YLPSYVLNCC HDLVATQDGA FTKRGGLSSG DPVTSVSNTV YSLIIYAQHM 2850
    VLSALKMGHE IGLKFLEEQL KFEDLLEIQP MLVYSDDLVL YAERPTFPNY 2900
    HWWVEHLDLM LGFRTDPKKT VITDKPSFLG CRIEAGRQLV PNRDRILAAL 2950
    AYHMKAQNAS EYYASAAAIL MDSCACIDHD PEWYEDLICG IARCARQDGY 3000
    SFPGPAFFMS MWEKLRSHNE GKKFRHCGIC DAKADHASAC GLDLCLFHSH 3050
    FHQHCPVTLS CGHHAGSREC SQCQSPVGAG RSPLDAVLKQ IPYKPPRTVI 3100
    MKVGNKTTAL DPGRYQSRRG LVAVKRGIAG NEVDLPDGDY QVVPLLPTCK 3150
    DINMVKVACN VLLSKFIVGP PGSGKTTWLL SQVQDDDVIY TPTHQTMFDI 3200
    VSALKVCRYS IPGASGLPFP PPARSGPWVR LVASGHVPGR TSYLDEAGYC 3250
    NHLDILRLLS KTPLVCLGDL QQLHPVGFDS YCYVFDQMPQ KQLTTIYRFG 3300
    PNICAAIQPC YREKLESKAR NTRVVFTTWP VAFGQVLTPY HKDRIGSAIT 3350
    IDSSQGATFD IVTLHLPSPK SLNKSRALVA ITRARHGLFI YDPHNQLQEF 3400
    FNLIPERTDC NLVFSRGDDL VVLSADNAVT TVAKALGTGP SRFRVSDPRC 3450
    KSLLAACSAS LEGSCMPLPQ VAHNLGFYFS PDSPAFAPLP KELAPHWPVV 3500
    THQNNRAWPD RLVASMRPID ARYSKPMVGA GYVVGPSTFL GTPGVVSYYL 3550
    TLYIRGEPQA LPETLVSTGR IATDCREYLD AAEEEAAKEL PHAFIGDVKG 3600
    TTVGGCHHIT SKYLPRTLPK DSVAVVGVSS PGRAAKAMCT LTDVYLPELR 3650
    PYLQPETASK CWKLKLDFRD VRLMVWKGAT AYFQLEGLTW SALPDYARFI 3700
    QLPKDAVVYI DPCIGPATAN RKVVRTTDWR ADLAVTPYDY GAQNILTTAW 3750
    FEDLGPQWKI LGLQPFRRAF GFENTEDWAI LARRMSDGKD YTDYNWDCVR 3800
    ERPHAIYGRA RDHTYHFAPG TELQVELGKP RLPPGREP 3838

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

    Length:3,838
    Mass (Da):418,948
    Last modified:August 10, 2010 - v2
    Checksum:i07ADB34E6578FFC9
    GO
    Isoform Replicase polyprotein 1a (identifier: A0MD28-2) [UniParc]FASTAAdd to Basket

    Also known as: pp1a, ORF1a polyprotein

    The sequence of this isoform differs from the canonical sequence as follows:
         2380-3838: Missing.

    Note: Produced by conventional translation.

    Show »
    Length:2,379
    Mass (Da):257,784
    Checksum:i6CAC6C94BDABDF8D
    GO
    Isoform Truncated polyprotein 1aTF (identifier: P0DJY0-1) [UniParc]FASTAAdd to Basket

    The sequence of this isoform can be found in the external entry P0DJY0.
    Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

    Note: Produced by -2 ribosomal frameshifting in the nsp2 gene.

    Length:1,268
    Mass (Da):139,092
    GO

    Sequence cautioni

    The sequence AAR37017.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti666 – 6661R → Q in strain: Infectious clone SD 01-08.
    Natural varianti1005 – 10051R → K in strain: Infectious clone SD 01-08.
    Natural varianti1012 – 10121N → S in strain: Infectious clone SD 01-08.
    Natural varianti3092 – 30921P → L in strain: Infectious clone SD 01-08.
    Natural varianti3682 – 36821Y → H in strain: Infectious clone SD 01-08.

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei2380 – 38381459Missing in isoform Replicase polyprotein 1a. CuratedVSP_039634Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY375474 Genomic RNA. Translation: AAR37016.1.
    AY375474 Genomic RNA. Translation: AAR37017.1. Different initiation.
    DQ489311 Genomic RNA. Translation: ABF66340.1.
    DQ489311 Genomic RNA. Translation: ABF66341.1.

    Keywords - Coding sequence diversityi

    Ribosomal frameshifting

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY375474 Genomic RNA. Translation: AAR37016.1 .
    AY375474 Genomic RNA. Translation: AAR37017.1 . Different initiation.
    DQ489311 Genomic RNA. Translation: ABF66340.1 .
    DQ489311 Genomic RNA. Translation: ABF66341.1 .

    3D structure databases

    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. 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. "Heterogeneity in Nsp2 of European-like porcine reproductive and respiratory syndrome viruses isolated in the United States."
      Fang Y., Kim D.Y., Ropp S., Steen P., Christopher-Hennings J., Nelson E.A., Rowland R.R.
      Virus Res. 100:229-235(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
    2. "A full-length cDNA infectious clone of North American type 1 porcine reproductive and respiratory syndrome virus: expression of green fluorescent protein in the Nsp2 region."
      Fang Y., Rowland R.R., Roof M., Lunney J.K., Christopher-Hennings J., Nelson E.A.
      J. Virol. 80:11447-11455(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
      Strain: Infectious clone SD 01-08.
    3. "The cysteine protease domain of porcine reproductive and respiratory syndrome virus nonstructural protein 2 possesses deubiquitinating and interferon antagonism functions."
      Sun Z., Chen Z., Lawson S.R., Fang Y.
      J. Virol. 84:7832-7846(2010) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION OF NSP2 IN DEUBIQUITINATION, MUTAGENESIS OF CYS-429; ASP-458; SER-462; ASP-463; ASP-465 AND HIS-498.
    4. "Identification of porcine reproductive and respiratory syndrome virus ORF1a-encoded non-structural proteins in virus-infected cells."
      Li Y., Tas A., Snijder E.J., Fang Y.
      J. Gen. Virol. 93:829-839(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEOLYTIC PROCESSING OF POLYPROTEIN 1A, PROTEOLYTIC PROCESSING OF POLYPROTEIN 1B.
    5. "Efficient -2 frameshifting by mammalian ribosomes to synthesize an additional arterivirus protein."
      Fang Y., Treffers E.E., Li Y., Tas A., Sun Z., van der Meer Y., de Ru A.H., van Veelen P.A., Atkins J.F., Snijder E.J., Firth A.E.
      Proc. Natl. Acad. Sci. U.S.A. 109:E2920-E2928(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: SUBCELLULAR LOCATION OF NSP2.

    Entry informationi

    Entry nameiRPOA_PRRSS
    AccessioniPrimary (citable) accession number: A0MD28
    Secondary accession number(s): A0MD29, Q6U9W7, Q6U9W8
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: August 10, 2010
    Last sequence update: August 10, 2010
    Last modified: October 1, 2014
    This is version 38 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

    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