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A0MD28 (RPOA_PRRSS) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 37. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Replicase polyprotein 1ab
Alternative name(s):
ORF1ab polyprotein

Cleaved into the following 16 chains:

  1. Nsp1
    EC=3.4.22.-
  2. Nsp1-alpha papain-like cysteine proteinase
    EC=3.4.22.-
    Alternative name(s):
    PCP1-alpha
  3. Nsp1-beta papain-like cysteine proteinase
    EC=3.4.22.-
    Alternative name(s):
    PCP1-beta
  4. Nsp2 cysteine proteinase
    EC=3.4.19.12
    EC=3.4.22.-
    Alternative name(s):
    CP2
    Short name=CP
  5. Non-structural protein 3
    Short name=Nsp3
  6. 3C-like serine proteinase
    Short name=3CLSP
    EC=3.4.21.-
    Alternative name(s):
    Nsp4
  7. Non-structural protein 5-6-7
    Short name=Nsp5-6-7
  8. Non-structural protein 5
    Short name=Nsp5
  9. Non-structural protein 6
    Short name=Nsp6
  10. Non-structural protein 7-alpha
    Short name=Nsp7-alpha
  11. Non-structural protein 7-beta
    Short name=Nsp7-beta
  12. Non-structural protein 8
    Short name=Nsp8
  13. RNA-directed RNA polymerase
    Short name=Pol
    Short name=RdRp
    EC=2.7.7.48
    Alternative name(s):
    Nsp9
  14. Helicase
    Short name=Hel
    EC=3.6.4.12
    EC=3.6.4.13
    Alternative name(s):
    Nsp10
  15. Non-structural protein 11
    Short name=Nsp11
  16. Non-structural protein 12
    Short name=Nsp12
OrganismPorcine reproductive and respiratory syndrome virus (isolate Pig/United States/SD 01-08/2001) (PRRSV) [Complete proteome]
Taxonomic identifier857306 [NCBI]
Taxonomic lineageVirusesssRNA positive-strand viruses, no DNA stageNidoviralesArteriviridaeArterivirus
Virus hostSus scrofa (Pig) [TaxID: 9823]

Protein attributes

Sequence length3838 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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. Ref.3

Nsp1 is essential for viral subgenomic mRNA synthesis By similarity. Ref.3

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. Ref.3

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. Ref.3

The 3C-like serine proteinase chain is responsible for the majority of cleavages as it cleaves the C-terminus of the polyprotein By similarity. Ref.3

The helicase chain, which contains a zinc finger structure, displays RNA and DNA duplex-unwinding activities with 5' to 3' polarity By similarity. Ref.3

Catalytic activity

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).

Subcellular location

Nsp1: Host nucleus By similarity. Host cytoplasm By similarity Ref.5.

Nsp1-alpha papain-like cysteine proteinase: Host nucleus By similarity. Host cytoplasm By similarity Ref.5.

Nsp1-beta papain-like cysteine proteinase: Host cytoplasm By similarity Ref.5.

Nsp2 cysteine proteinase: Host endoplasmic reticulum membrane; Multi-pass membrane protein Probable Ref.5.

Non-structural protein 3: Host membrane; Multi-pass membrane protein Potential Ref.5.

Non-structural protein 5-6-7: Host membrane; Multi-pass membrane protein Potential Ref.5.

3C-like serine proteinase: Host cytoplasm Potential Ref.5.

RNA-directed RNA polymerase: Host cytoplasmhost perinuclear region Potential Ref.5.

Helicase: Host cytoplasmhost perinuclear region Potential Ref.5.

Domain

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 Probable.

Post-translational modification

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. Ref.4

Sequence similarities

Belongs to the arteriviridae polyprotein family.

Contains 1 (+)RNA virus helicase ATP-binding domain.

Contains 1 (+)RNA virus helicase C-terminal domain.

Contains 1 AV MBD (arterivirus metal-binding) domain.

Contains 1 peptidase C31 domain.

Contains 1 peptidase C32 domain.

Contains 1 peptidase C33 domain.

Contains 1 peptidase S32 domain.

Contains 1 RdRp catalytic domain.

Sequence caution

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

Ontologies

Keywords
   Biological processHost-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
   Cellular componentHost cytoplasm
Host endoplasmic reticulum
Host membrane
Host nucleus
Membrane
   Coding sequence diversityRibosomal frameshifting
   DomainTransmembrane
Transmembrane helix
Zinc-finger
   LigandATP-binding
Metal-binding
Nucleotide-binding
Zinc
   Molecular functionHelicase
Hydrolase
Nucleotidyltransferase
Protease
RNA-directed RNA polymerase
Serine protease
Thiol protease
Transferase
   Technical termComplete proteome
Multifunctional enzyme
Gene Ontology (GO)
   Biological_processmodulation by virus of host protein ubiquitination

Inferred from electronic annotation. Source: UniProtKB-KW

suppression by virus of host ISG15 activity

Inferred from electronic annotation. Source: UniProtKB-KW

suppression by virus of host NF-kappaB transcription factor activity

Inferred from electronic annotation. Source: UniProtKB-KW

suppression by virus of host STAT1 activity

Inferred from electronic annotation. Source: UniProtKB-KW

suppression by virus of host type I interferon-mediated signaling pathway

Inferred from electronic annotation. Source: UniProtKB-KW

transcription, DNA-templated

Inferred from electronic annotation. Source: InterPro

viral RNA genome replication

Inferred from electronic annotation. Source: InterPro

viral protein processing

Inferred from electronic annotation. Source: InterPro

   Cellular_componenthost cell endoplasmic reticulum membrane

Inferred from electronic annotation. Source: UniProtKB-SubCell

host cell nucleus

Inferred from electronic annotation. Source: UniProtKB-SubCell

host cell perinuclear region of cytoplasm

Inferred from electronic annotation. Source: UniProtKB-SubCell

integral component of membrane

Inferred from electronic annotation. Source: UniProtKB-KW

   Molecular_functionATP binding

Inferred from electronic annotation. Source: UniProtKB-KW

RNA binding

Inferred from electronic annotation. Source: InterPro

RNA-directed RNA polymerase activity

Inferred from electronic annotation. Source: UniProtKB-KW

cysteine-type endopeptidase activity

Inferred from electronic annotation. Source: InterPro

helicase activity

Inferred from electronic annotation. Source: UniProtKB-KW

metal ion binding

Inferred from electronic annotation. Source: UniProtKB-KW

serine-type endopeptidase activity

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Alternative products

This entry describes 3 isoforms produced by ribosomal frameshifting. [Align] [Select]
Isoform Replicase polyprotein 1ab (identifier: A0MD28-1)

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.
Note: Produced by -1 ribosomal frameshifting at the 1a-1b genes boundary.
Isoform Replicase polyprotein 1a (identifier: A0MD28-2)

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.
Isoform Truncated polyprotein 1aTF (identifier: P0DJY0-1)

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.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 38383838Replicase polyprotein 1ab By similarity
PRO_0000397084
Chain1 – 385385Nsp1
PRO_0000410830
Chain1 – 180180Nsp1-alpha papain-like cysteine proteinase Potential
PRO_0000397085
Chain181 – 385205Nsp1-beta papain-like cysteine proteinase Potential
PRO_0000397086
Chain386 – 14461061Nsp2 cysteine proteinase
PRO_0000397087
Chain1447 – 1676230Non-structural protein 3
PRO_0000397088
Chain1677 – 18792033C-like serine proteinase
PRO_0000397089
Chain1880 – 2334455Non-structural protein 5-6-7 By similarity
PRO_0000397090
Chain1880 – 2049170Non-structural protein 5
PRO_0000423134
Chain2050 – 206516Non-structural protein 6
PRO_0000423135
Chain2066 – 2214149Non-structural protein 7-alpha
PRO_0000423136
Chain2215 – 2334120Non-structural protein 7-beta
PRO_0000423137
Chain2335 – 3020686RNA-directed RNA polymerase By similarity
PRO_0000397091
Chain2335 – 237945Non-structural protein 8 By similarity
PRO_0000397092
Chain3021 – 3462442Helicase By similarity
PRO_0000397093
Chain3463 – 3686224Non-structural protein 11 By similarity
PRO_0000397094
Chain3687 – 3838152Non-structural protein 12 By similarity
PRO_0000397095

Regions

Transmembrane1094 – 111421Helical; Potential
Transmembrane1117 – 113721Helical; Potential
Transmembrane1162 – 118221Helical; Potential
Transmembrane1211 – 123121Helical; Potential
Transmembrane1235 – 125521Helical; Potential
Transmembrane1450 – 147021Helical; Potential
Transmembrane1526 – 154621Helical; Potential
Transmembrane1556 – 157621Helical; Potential
Transmembrane1592 – 161221Helical; Potential
Transmembrane1875 – 189521Helical; Potential
Transmembrane1916 – 193621Helical; Potential
Transmembrane1960 – 198021Helical; Potential
Transmembrane2003 – 202321Helical; Potential
Transmembrane2029 – 204820Helical; Potential
Domain69 – 180112Peptidase C31
Domain269 – 385117Peptidase C32
Domain420 – 527108Peptidase C33
Domain1677 – 1879203Peptidase S32
Domain2765 – 2899135RdRp catalytic
Domain3021 – 308464AV MBD
Domain3134 – 3293160(+)RNA virus helicase ATP-binding
Domain3294 – 3423130(+)RNA virus helicase C-terminal
Zinc finger8 – 2821C4-type; atypical
Nucleotide binding3168 – 31758ATP By similarity
Region69 – 182114PCP1-alpha By similarity
Region269 – 384116PCP1-beta By similarity
Region418 – 50588OTU-like
Region1132 – 1255124HD1 By similarity
Region1310 – 133425WCCH By similarity
Region1451 – 1612162HD2 By similarity
Region1902 – 2023122HD3 By similarity

Sites

Active site761For Nsp1-alpha papain-like cysteine proteinase activity By similarity
Active site1461For Nsp1-alpha papain-like cysteine proteinase activity By similarity
Active site2761For Nsp1-beta papain-like cysteine proteinase activity By similarity
Active site3451For Nsp1-beta papain-like cysteine proteinase activity By similarity
Active site4291For Nsp2 cysteine proteinase activity By similarity
Active site4981For Nsp2 cysteine proteinase activity By similarity
Active site17151Charge relay system; for 3C-like serine proteinase activity By similarity
Active site17401Charge relay system; for 3C-like serine proteinase activity By similarity
Active site17931Charge relay system; for 3C-like serine proteinase activity By similarity
Site180 – 1812Cleavage; by autolysis Potential
Site385 – 3862Cleavage; by autolysis
Site1446 – 14472Cleavage; by CP2 Potential
Site1676 – 16772Cleavage; by 3CLSP
Site1879 – 18802Cleavage; by 3CLSP
Site2049 – 20502Cleavage; by 3CLSP
Site2065 – 20662Cleavage; by 3CLSP
Site2214 – 22152Cleavage; by 3CLSP
Site2334 – 23352Cleavage; by 3CLSP
Site3020 – 30212Cleavage; by 3CLSP
Site30711Involved in mRNA transcription process By similarity
Site3462 – 34632Cleavage; by 3CLSP By similarity
Site3686 – 36872Cleavage; by 3CLSP By similarity

Natural variations

Alternative sequence2380 – 38381459Missing in isoform Replicase polyprotein 1a.
VSP_039634
Natural variant6661R → Q in strain: Infectious clone SD 01-08.
Natural variant10051R → K in strain: Infectious clone SD 01-08.
Natural variant10121N → S in strain: Infectious clone SD 01-08.
Natural variant30921P → L in strain: Infectious clone SD 01-08.
Natural variant36821Y → H in strain: Infectious clone SD 01-08.

Experimental info

Mutagenesis4291C → A: Lethal. Ref.3
Mutagenesis4581D → A: Slight reduction in the ability of Nsp2 to impair NF-kappaB activation. Ref.3
Mutagenesis4621S → A: Reduction in the ability of Nsp2 to impair NF-kappaB activation. Ref.3
Mutagenesis4631D → A: Lethal. Ref.3
Mutagenesis4651D → A: Reduction in the ability of Nsp2 to impair NF-kappaB activation. Ref.3
Mutagenesis4981H → A: Lethal. Ref.3

Sequences

Sequence LengthMass (Da)Tools
Isoform Replicase polyprotein 1ab (pp1ab) [UniParc].

Last modified August 10, 2010. Version 2.
Checksum: 07ADB34E6578FFC9

FASTA3,838418,948
        10         20         30         40         50         60 
MSGTFSRCMC TPAARVFWNA GQVFCTRCLS ARPLLSPELQ DTDLGVVGLF YKPKDKIHWK 

        70         80         90        100        110        120 
VPIGIPQVEC TPSGCCWLSA VFPLARMTSG NHNFLQRLVK VADVLYRDGC LAPRHLRELQ 

       130        140        150        160        170        180 
VYERGCSWYP ITGPVPGMGL FANSMHVSDQ PFPGATHVLT NSPLPQRACR QPFCPFEEAH 

       190        200        210        220        230        240 
SDVYRWKKFV IFTDSSPNGR FRMMWTPESD DSAALEVLPP ELERQVEILT RSFPAHHPIN 

       250        260        270        280        290        300 
LADWELTESP ENGFSFGTSH SCGHIVQNPN VFDGKCWLTC FLGQSAEVCY HEEHLANALG 

       310        320        330        340        350        360 
YQTKWGVHGK YLQRRLQVRG MRAVVDPDGP IHVEALSCSQ SWVRHLTLNN DVTPGFVRLT 

       370        380        390        400        410        420 
SIRIVSNTEP TAFRIFRFGA HKWYGAAGKR ARAKRATKSG KDSALAPKIA PPVPTCGITT 

       430        440        450        460        470        480 
YSPPTDGSCG WHVLAAIVNR MINGDFTSPL PQYNRPEDDW ASDYDLAQAI QCLQLPATVV 

       490        500        510        520        530        540 
RNRACPNAKY LIKLNGVHWE VEVRSGMAPR SLSRECVVGV CSEGCVAPPY PADGLPKRAL 

       550        560        570        580        590        600 
EALASAYRLP SDCVSSGIAD FLADPPPQEF WTLDKMLTSP SPERSGFSSL YKLLLEVVPQ 

       610        620        630        640        650        660 
KCGATEGAFV YAVERMLKDC PSPEQAMALL AKIKVPSSKA PSVSLDECFP AGVPADFEPA 

       670        680        690        700        710        720 
FQERPRSPGA AVALCSPDAK GFEGTASEEA QESGHKAVHA VPLAEGPNNE QVQVVAGEQL 

       730        740        750        760        770        780 
ELGGCGLAIG SAQSSSDSKR ENMHNSREDE PLDLSHPAPA ATTTLVGEQT PDNPGSDASA 

       790        800        810        820        830        840 
LPIAVRGFVP TGPILRHVEH CGTESGDSSS PLDLSFAQTL DQPLDLSLAA WPVKATASDP 

       850        860        870        880        890        900 
GWVRGRCEPV FLKPRKAFSD GDSALQFGEL SESSSVIEFD QTKDTLVADA PVDLTTSNEA 

       910        920        930        940        950        960 
LSAVDPSEFV ELRRPRHSAQ ALIDRGGPLA DVHAKIKNRV YEQCLQACEP GSRATPATRE 

       970        980        990       1000       1010       1020 
WLDKMWDRVD MKTWRCTSQF QAGRILASLK FLPDMIQDTP PPVPRKNRAS DNAGLKQLVA 

      1030       1040       1050       1060       1070       1080 
RWDKKLSVTP PPKSAGLVLD QTVPPPTDIQ QEDATPSDGL SHASDFSSRV STSWSWKGLM 

      1090       1100       1110       1120       1130       1140 
LSGTRLAGSA GQRLMTWVFE VYSHLPAFIL TLFSPRGSMA PGDWLFAGVV LLALLLCRSY 

      1150       1160       1170       1180       1190       1200 
PILGCLPLLG VFSGSLRRVR LGVFGSWMAF AVFLFSTPSN PVGSSCDHDS PECHAELLAL 

      1210       1220       1230       1240       1250       1260 
EQRQLWEPVR GLVVGPSGLL CVILGKLLGG SRHLWHVILR LCMLTDLALS LVYVVSQGRC 

      1270       1280       1290       1300       1310       1320 
HKCWGKCIRT APAEVALNVF PFSRATRNSL TSLCDRFQTP KGVDPVHLAT GWRGCWRGES 

      1330       1340       1350       1360       1370       1380 
PIHQPHQKPI AYANLDEKKI SAQTVVAVPY DPSQAIKCLK VLQAGGAIVD QPTPEVVRVS 

      1390       1400       1410       1420       1430       1440 
EIPFSAPFFP KVPVNPDCRI VVDSDTFVAA VRCGYSTAQL VLGRGNFAKL NQTPLRDSAS 

      1450       1460       1470       1480       1490       1500 
TKTTGGASYT LAVAQVSVWT LVHFILGLWF TSPQVCGRGT ADPWCSNPFS YPAYGPGVVC 

      1510       1520       1530       1540       1550       1560 
SSRLCVSADG VTLPLFSAVA QLSGREVGIF ILVLVSLTAL AHRLALKADM LVVFSAFCAY 

      1570       1580       1590       1600       1610       1620 
AWPMSSWLIC FFPILLKWVT LHPLTMLWVH SFLVFCMPAA GILSLGITGL LWAVGRFTQV 

      1630       1640       1650       1660       1670       1680 
AGIITPYDIH QYTSGPRGAA AVATAPEGTY MAAVRRAALT GRTLIFTPSA VGSLLEGAFR 

      1690       1700       1710       1720       1730       1740 
THKPCLNTVN VVGSSLGSGG VFTIDGRKTV VTAAHVLNGD TARVTGDSYN RMHTFKTSGD 

      1750       1760       1770       1780       1790       1800 
YAWSHADDWQ GVAPVVKVAK GYRGRAYWQT STGVEPGVIG EGFAFCFTNC GDSGSPVISE 

      1810       1820       1830       1840       1850       1860 
SGDLIGIHTG SNKLGSGLVT TPEGETCAIK ETKLSDLSRH FAGPSVPLGD IKLSPAIVPD 

      1870       1880       1890       1900       1910       1920 
VTSIPSDLAS LLASVPVMEG GLSTVQLLCV FFLLWRMMGH AWTPIVAVGF FLLNEILPAV 

      1930       1940       1950       1960       1970       1980 
LVRAVFSFAL FILAWATPWS AQVLMIRLLT ASLNRNKLSL AFYALGGVVG LAAEIGAFAG 

      1990       2000       2010       2020       2030       2040 
RLPELSQALS TYCFLPRVLA MASYVPIIII GGLHALGVIL WLFKYRCLHN MLVGDGSFSS 

      2050       2060       2070       2080       2090       2100 
AFFLRYFAEG NLRKGVSQSC GMSNESLTAA LACKLSQADL DFLSSLTNFK CFVSASNMKN 

      2110       2120       2130       2140       2150       2160 
AAGQYIEAAY AKALRQELAS LVQVDKMKGI LSKLEAFAET ATPSLDAGDV VVLLGQHPHG 

      2170       2180       2190       2200       2210       2220 
SILDINVGTE RKTVSVQETR SLGGSKFSVC TVVSNTPVDA LTGIPLQTPT PLFENGPRHR 

      2230       2240       2250       2260       2270       2280 
GEEDDLRVER MKKHCVSLGF HNINGKVYCK IWDKSTGDTF YTDDSRYTQD LAFQDRSADY 

      2290       2300       2310       2320       2330       2340 
RDRDYEGVQT APQQGFDPKS ETPIGTVVIG GITYNRYLIK GKEVLVPKPD NCLEAAKLSL 

      2350       2360       2370       2380       2390       2400 
EQALAGMGQT CDLTAAEVEK LRRIISQLQG LTTEQALNCL LAASGLTRCG RGGLVVTETA 

      2410       2420       2430       2440       2450       2460 
VKIVKYHSRT FTLGPLDLKV TSEAEVKKST EQGHAVVANL CSGVILMRPH PPSLVDVLLK 

      2470       2480       2490       2500       2510       2520 
PGLDTKPGIQ PGHGAGNMGV DGSTWDFETA PTKAELELSK QIIQACEVRR GDAPNLQLPY 

      2530       2540       2550       2560       2570       2580 
KLYPVRGDPE RHGGRLINTR FGDLSYKTPQ DTKSAIHAAC CLHPNGAPVS DGKSTLGTTL 

      2590       2600       2610       2620       2630       2640 
QHGFELYVPT VPYSVMEYLD SRPDTPFMCT KHGTSKAAAE DLQKYDLSTQ GFVLPGVLRL 

      2650       2660       2670       2680       2690       2700 
VRRFIFGHIG KAPPLFLPST YPAKNSMAGI NGQRFPTKDV QSIPEIDEMC ARAVKENWQT 

      2710       2720       2730       2740       2750       2760 
VTPCTLKKQY CSKPKTRTIL GTNNFIALAH RSALSGVTQA FMKKAWKSPI ALGKNKFKEL 

      2770       2780       2790       2800       2810       2820 
HCTVAGRCLE ADLASCDRST PAIVRWFVAN LLYELAGCEE YLPSYVLNCC HDLVATQDGA 

      2830       2840       2850       2860       2870       2880 
FTKRGGLSSG DPVTSVSNTV YSLIIYAQHM VLSALKMGHE IGLKFLEEQL KFEDLLEIQP 

      2890       2900       2910       2920       2930       2940 
MLVYSDDLVL YAERPTFPNY HWWVEHLDLM LGFRTDPKKT VITDKPSFLG CRIEAGRQLV 

      2950       2960       2970       2980       2990       3000 
PNRDRILAAL AYHMKAQNAS EYYASAAAIL MDSCACIDHD PEWYEDLICG IARCARQDGY 

      3010       3020       3030       3040       3050       3060 
SFPGPAFFMS MWEKLRSHNE GKKFRHCGIC DAKADHASAC GLDLCLFHSH FHQHCPVTLS 

      3070       3080       3090       3100       3110       3120 
CGHHAGSREC SQCQSPVGAG RSPLDAVLKQ IPYKPPRTVI MKVGNKTTAL DPGRYQSRRG 

      3130       3140       3150       3160       3170       3180 
LVAVKRGIAG NEVDLPDGDY QVVPLLPTCK DINMVKVACN VLLSKFIVGP PGSGKTTWLL 

      3190       3200       3210       3220       3230       3240 
SQVQDDDVIY TPTHQTMFDI VSALKVCRYS IPGASGLPFP PPARSGPWVR LVASGHVPGR 

      3250       3260       3270       3280       3290       3300 
TSYLDEAGYC NHLDILRLLS KTPLVCLGDL QQLHPVGFDS YCYVFDQMPQ KQLTTIYRFG 

      3310       3320       3330       3340       3350       3360 
PNICAAIQPC YREKLESKAR NTRVVFTTWP VAFGQVLTPY HKDRIGSAIT IDSSQGATFD 

      3370       3380       3390       3400       3410       3420 
IVTLHLPSPK SLNKSRALVA ITRARHGLFI YDPHNQLQEF FNLIPERTDC NLVFSRGDDL 

      3430       3440       3450       3460       3470       3480 
VVLSADNAVT TVAKALGTGP SRFRVSDPRC KSLLAACSAS LEGSCMPLPQ VAHNLGFYFS 

      3490       3500       3510       3520       3530       3540 
PDSPAFAPLP KELAPHWPVV THQNNRAWPD RLVASMRPID ARYSKPMVGA GYVVGPSTFL 

      3550       3560       3570       3580       3590       3600 
GTPGVVSYYL TLYIRGEPQA LPETLVSTGR IATDCREYLD AAEEEAAKEL PHAFIGDVKG 

      3610       3620       3630       3640       3650       3660 
TTVGGCHHIT SKYLPRTLPK DSVAVVGVSS PGRAAKAMCT LTDVYLPELR PYLQPETASK 

      3670       3680       3690       3700       3710       3720 
CWKLKLDFRD VRLMVWKGAT AYFQLEGLTW SALPDYARFI QLPKDAVVYI DPCIGPATAN 

      3730       3740       3750       3760       3770       3780 
RKVVRTTDWR ADLAVTPYDY GAQNILTTAW FEDLGPQWKI LGLQPFRRAF GFENTEDWAI 

      3790       3800       3810       3820       3830 
LARRMSDGKD YTDYNWDCVR ERPHAIYGRA RDHTYHFAPG TELQVELGKP RLPPGREP 

« Hide

Isoform Replicase polyprotein 1a (pp1a) (ORF1a polyprotein) [UniParc].

Checksum: 6CAC6C94BDABDF8D
Show »

FASTA2,379257,784
Isoform Truncated polyprotein 1aTF [UniParc].

See P0DJY0.

References

[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.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
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

ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Family and domain databases

Gene3D3.40.50.300. 1 hit.
InterProIPR027351. (+)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]
PfamPF05410. 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]
SUPFAMSSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
PROSITEPS51538. 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]
ProtoNetSearch...

Entry information

Entry nameRPOA_PRRSS
AccessionPrimary (citable) accession number: A0MD28
Secondary accession number(s): A0MD29, Q6U9W7, Q6U9W8
Entry history
Integrated into UniProtKB/Swiss-Prot: August 10, 2010
Last sequence update: August 10, 2010
Last modified: May 14, 2014
This is version 37 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Peptidase families

Classification of peptidase families and list of entries