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Q04561 (RPOA_PRRSL) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 112. 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
Gene names
Name:rep
ORF Names:1a-1b
OrganismPorcine reproductive and respiratory syndrome virus (strain Lelystad) (PRRSV) [Complete proteome]
Taxonomic identifier11049 [NCBI]
Taxonomic lineageVirusesssRNA positive-strand viruses, no DNA stageNidoviralesArteriviridaeArterivirus
Virus hostSus scrofa (Pig) [TaxID: 9823]

Protein attributes

Sequence length3855 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.

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.

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.

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 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.

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

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

Nsp2 cysteine proteinase: Host membrane; Multi-pass membrane protein Potential.

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

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

3C-like serine proteinase: Host cytoplasm Potential.

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

Helicase: Host cytoplasmhost perinuclear region Potential.

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 By similarity.

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.

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 AAA46273.2 differs from that shown. Reason: Erroneous initiation.

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

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 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 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 2 isoforms produced by ribosomal frameshifting. [Align] [Select]
Isoform Replicase polyprotein 1ab (identifier: Q04561-1)

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: Q04561-2)

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.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 38553855Replicase polyprotein 1ab
PRO_0000036683
Chain1 – 384384Nsp1 By similarity
PRO_0000410828
Chain1 – 180180Nsp1-alpha papain-like cysteine proteinase Potential
PRO_0000036685
Chain181 – 385205Nsp1-beta papain-like cysteine proteinase Potential
PRO_0000036686
Chain386 – 14631078Nsp2 cysteine proteinase Potential
PRO_0000036687
Chain1464 – 1693230Non-structural protein 3 By similarity
PRO_0000036688
Chain1694 – 18962033C-like serine proteinase By similarity
PRO_0000036689
Chain1897 – 2351455Non-structural protein 5-6-7 By similarity
PRO_0000036690
Chain1897 – 2066170Non-structural protein 5 By similarity
PRO_0000423126
Chain2067 – 208216Non-structural protein 6 By similarity
PRO_0000423127
Chain2083 – 2231149Non-structural protein 7-alpha By similarity
PRO_0000423128
Chain2232 – 2351120Non-structural protein 7-beta By similarity
PRO_0000423129
Chain2352 – 3037686RNA-directed RNA polymerase By similarity
PRO_0000036691
Chain2352 – 239645Non-structural protein 8 By similarity
PRO_0000036692
Chain3038 – 3479442Helicase By similarity
PRO_0000036693
Chain3480 – 3703224Non-structural protein 11 By similarity
PRO_0000036694
Chain3704 – 3855152Non-structural protein 12 By similarity
PRO_0000036695

Regions

Transmembrane1134 – 115421Helical; Potential
Transmembrane1179 – 119921Helical; Potential
Transmembrane1252 – 127221Helical; Potential
Transmembrane1468 – 148821Helical; Potential
Transmembrane1521 – 154121Helical; Potential
Transmembrane1543 – 156321Helical; Potential
Transmembrane1573 – 159321Helical; Potential
Transmembrane1609 – 162921Helical; Potential
Transmembrane1919 – 193921Helical; Potential
Transmembrane1943 – 196321Helical; Potential
Transmembrane1977 – 199721Helical; Potential
Transmembrane2020 – 204021Helical; Potential
Domain69 – 180112Peptidase C31
Domain269 – 385117Peptidase C32
Domain420 – 527108Peptidase C33
Domain1694 – 1896203Peptidase S32
Domain2783 – 2917135RdRp catalytic
Domain3038 – 310164AV MBD
Domain3151 – 3310160(+)RNA virus helicase ATP-binding
Domain3311 – 3440130(+)RNA virus helicase C-terminal
Zinc finger8 – 2821C4-type; atypical
Nucleotide binding3186 – 31938ATP By similarity
Region69 – 182114PCP1-alpha
Region269 – 384116PCP1-beta
Region418 – 50588OTU-like
Region1149 – 1272124HD1
Region1327 – 135125WCCH
Region1468 – 1629162HD2
Region1919 – 2040122HD3

Sites

Active site761For Nsp1-alpha papain-like cysteine proteinase activity Ref.4
Active site1461For Nsp1-alpha papain-like cysteine proteinase activity Ref.4
Active site2761For Nsp1-beta papain-like cysteine proteinase activity Ref.4
Active site3451For Nsp1-beta papain-like cysteine proteinase activity Ref.4
Active site4291For Nsp2 cysteine proteinase activity By similarity
Active site4981For Nsp2 cysteine proteinase activity By similarity
Active site17321Charge relay system; for 3C-like serine proteinase activity By similarity
Active site17571Charge relay system; for 3C-like serine proteinase activity By similarity
Active site18101Charge relay system; for 3C-like serine proteinase activity By similarity
Site180 – 1812Cleavage; by autolysis Potential
Site385 – 3862Cleavage; by autolysis By similarity
Site1463 – 14642Cleavage; by CP2 Potential
Site1693 – 16942Cleavage; by 3CLSP By similarity
Site1896 – 18972Cleavage; by 3CLSP By similarity
Site2066 – 20672Cleavage; by 3CLSP By similarity
Site2082 – 20832Cleavage; by 3CLSP By similarity
Site2231 – 22322Cleavage; by 3CLSP By similarity
Site2351 – 23522Cleavage; by 3CLSP By similarity
Site3037 – 30382Cleavage; by 3CLSP By similarity
Site30881Involved in mRNA transcription process By similarity
Site3479 – 34802Cleavage; by 3CLSP By similarity
Site3703 – 37042Cleavage; by 3CLSP By similarity

Natural variations

Alternative sequence2397 – 38551459Missing in isoform Replicase polyprotein 1a.
VSP_032892

Experimental info

Mutagenesis761C → G or S: Complete loss of cleavage between nsp1-alpha and nsp1-beta. Ref.4
Mutagenesis921H → F or Y: No effect. Ref.4
Mutagenesis1151H → A: No effect. Ref.4
Mutagenesis1151H → Y: 50% loss of cleavage between nsp1-alpha and nsp1-beta. Ref.4
Mutagenesis1461H → D, F, I, N or Y: Complete loss of cleavage between nsp1-alpha and nsp1-beta. Ref.4
Mutagenesis1571H → D: 20% loss of cleavage between nsp1-alpha and nsp1-beta. Ref.4
Mutagenesis1571H → I: 90% loss of cleavage between nsp1-alpha and nsp1-beta. Ref.4
Mutagenesis1571H → N: 50% loss of cleavage between nsp1-alpha and nsp1-beta. Ref.4
Mutagenesis1571H → Y: No effect. Ref.4
Mutagenesis2761C → I, L, R or S: Complete loss of cleavage between nsp1-beta and nsp2. Ref.4
Mutagenesis3451H → D or Y: Complete loss of cleavage between nsp1-beta and nsp2. Ref.4
Sequence conflict35021T → V in AAA47101. Ref.3
Sequence conflict37401V → I in AAA47101. Ref.3

Sequences

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

Last modified August 10, 2010. Version 3.
Checksum: 421F613ED2E4858F

FASTA3,855421,332
        10         20         30         40         50         60 
MSGTFSRCMC TPAARVFWNA GQVFCTRCLS ARSLLSPELQ DTDLGAVGLF YKPRDKLHWK 

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

       130        140        150        160        170        180 
VYERGCNWYP ITGPVPGMGL FANSMHVSDQ PFPGATHVLT NSPLPQQACR QPFCPFEEAH 

       190        200        210        220        230        240 
SSVYRWKKFV VFTDSSLNGR SRMMWTPESD DSAALEVLPP ELERQVEILI RSFPAHHPVD 

       250        260        270        280        290        300 
LADWELTESP ENGFSFNTSH SCGHLVQNPD VFDGKCWLSC FLGQSVEVRC HEEHLADAFG 

       310        320        330        340        350        360 
YQTKWGVHGK YLQRRLQVRG IRAVVDPDGP IHVEALSCPQ SWIRHLTLDD DVTPGFVRLT 

       370        380        390        400        410        420 
SLRIVPNTEP TTSRIFRFGA HKWYGAAGKR ARAKRAAKSE KDSAPTPKVA LPVPTCGITT 

       430        440        450        460        470        480 
YSPPTDGSCG WHVLAAIMNR MINGDFTSPL TQYNRPEDDW ASDYDLVQAI QCLRLPATVV 

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

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

       610        620        630        640        650        660 
KCGATEGAFI YAVERMLKDC PSSKQAMALL AKIKVPSSKA PSVSLDECFP TDVLADFEPA 

       670        680        690        700        710        720 
SQERPQSSGA AVVLCSPDAK EFEEAAPEEV QESGHKAVHS ALLAEGPNNE QVQVVAGEQL 

       730        740        750        760        770        780 
KLGGCGLAVG NAHEGALVSA GLINLVGGNL SPSDPMKENM LNSREDEPLD LSQPAPASTT 

       790        800        810        820        830        840 
TLVREQTPDN PGSDAGALPV TVREFVPTGP ILCHVEHCGT ESGDSSSPLD LSDAQTLDQP 

       850        860        870        880        890        900 
LNLSLAAWPV RATASDPGWV HGRREPVFVK PRNAFSDGDS ALQFGELSES SSVIEFDRTK 

       910        920        930        940        950        960 
DAPVVDAPVD LTTSNEALSV VDPFEFAELK RPRFSAQALI DRGGPLADVH AKIKNRVYEQ 

       970        980        990       1000       1010       1020 
CLQACEPGSR ATPATREWLD KMWDRVDMKT WRCTSQFQAG RILASLKFLP DMIQDTPPPV 

      1030       1040       1050       1060       1070       1080 
PRKNRASDNA GLKQLVAQWD RKLSVTPPPK PVGPVLDQIV PPPTDIQQED VTPSDGPPHA 

      1090       1100       1110       1120       1130       1140 
PDFPSRVSTG GSWKGLMLSG TRLAGSISQR LMTWVFEVFS HLPAFMLTLF SPRGSMAPGD 

      1150       1160       1170       1180       1190       1200 
WLFAGVVLLA LLLCRSYPIL GCLPLLGVFS GSLRRVRLGV FGSWMAFAVF LFSTPSNPVG 

      1210       1220       1230       1240       1250       1260 
SSCDHDSPEC HAELLALEQR QLWEPVRGLV VGPSGLLCVI LGKLLGGSRY LWHVLLRLCM 

      1270       1280       1290       1300       1310       1320 
LADLALSLVY VVSQGRCHKC WGKCIRTAPA EVALNVFPFS RATRVSLVSL CDRFQTPKGV 

      1330       1340       1350       1360       1370       1380 
DPVHLATGWR GCWRGESPIH QPHQKPIAYA NLDEKKMSAQ TVVAVPYDPS QAIKCLKVLQ 

      1390       1400       1410       1420       1430       1440 
AGGAIVDQPT PEVVRVSEIP FSAPFFPKVP VNPDCRVVVD SDTFVAAVRC GYSTAQLVLG 

      1450       1460       1470       1480       1490       1500 
RGNFAKLNQT PPRNSISTKT TGGASYTLAV AQVSAWTLVH FILGLWFTSP QVCGRGTADP 

      1510       1520       1530       1540       1550       1560 
WCSNPFSYPT YGPGVVCSSR LCVSADGVTL PLFSAVAQLS GREVGIFILV LVSLTALAHR 

      1570       1580       1590       1600       1610       1620 
MALKADMLVV FSAFCAYAWP MSSWLICFFP ILLKWVTLHP LTMLWVHSFL VFCLPAAGIL 

      1630       1640       1650       1660       1670       1680 
SLGITGLLWA IGRFTQVAGI ITPYDIHQYT SGPRGAAAVA TAPEGTYMAA VRRAALTGRT 

      1690       1700       1710       1720       1730       1740 
LIFTPSAVGS LLEGAFRTHK PCLNTVNVVG SSLGSGGVFT IDGRRTVVTA AHVLNGDTAR 

      1750       1760       1770       1780       1790       1800 
VTGDSYNRMH TFKTNGDYAW SHADDWQGVA PVVKVAKGYR GRAYWQTSTG VEPGIIGEGF 

      1810       1820       1830       1840       1850       1860 
AFCFTNCGDS GSPVISESGD LIGIHTGSNK LGSGLVTTPE GETCTIKETK LSDLSRHFAG 

      1870       1880       1890       1900       1910       1920 
PSVPLGDIKL SPAIIPDVTS IPSDLASLLA SVPVVEGGLS TVQLLCVFFL LWRMMGHAWT 

      1930       1940       1950       1960       1970       1980 
PIVAVGFFLL NEILPAVLVR AVFSFALFVL AWATPWSAQV LMIRLLTASL NRNKLSLAFY 

      1990       2000       2010       2020       2030       2040 
ALGGVVGLAA EIGTFAGRLS ELSQALSTYC FLPRVLAMTS CVPTIIIGGL HTLGVILWLF 

      2050       2060       2070       2080       2090       2100 
KYRCLHNMLV GDGSFSSAFF LRYFAEGNLR KGVSQSCGMN NESLTAALAC KLSQADLDFL 

      2110       2120       2130       2140       2150       2160 
SSLTNFKCFV SASNMKNAAG QYIEAAYAKA LRQELASLVQ IDKMKGVLSK LEAFAETATP 

      2170       2180       2190       2200       2210       2220 
SLDIGDVIVL LGQHPHGSIL DINVGTERKT VSVQETRSLG GSKFSVCTVV SNTPVDALTG 

      2230       2240       2250       2260       2270       2280 
IPLQTPTPLF ENGPRHRSEE DDLKVERMKK HCVSLGFHNI NGKVYCKIWD KSTGDTFYTD 

      2290       2300       2310       2320       2330       2340 
DSRYTQDHAF QDRSADYRDR DYEGVQTTPQ QGFDPKSETP VGTVVIGGIT YNRYLIKGKE 

      2350       2360       2370       2380       2390       2400 
VLVPKPDNCL EAAKLSLEQA LAGMGQTCDL TAAEVEKLKR IISQLQGLTT EQALNCLLAA 

      2410       2420       2430       2440       2450       2460 
SGLTRCGRGG LVVTETAVKI IKYHSRTFTL GPLDLKVTSE VEVKKSTEQG HAVVANLCSG 

      2470       2480       2490       2500       2510       2520 
VILMRPHPPS LVDVLLKPGL DTIPGIQPGH GAGNMGVDGS IWDFETAPTK AELELSKQII 

      2530       2540       2550       2560       2570       2580 
QACEVRRGDA PNLQLPYKLY PVRGDPERHK GRLINTRFGD LPYKTPQDTK SAIHAACCLH 

      2590       2600       2610       2620       2630       2640 
PNGAPVSDGK STLGTTLQHG FELYVPTVPY SVMEYLDSRP DTPFMCTKHG TSKAAAEDLQ 

      2650       2660       2670       2680       2690       2700 
KYDLSTQGFV LPGVLRLVRR FIFGHIGKAP PLFLPSTYPA KNSMAGINGQ RFPTKDVQSI 

      2710       2720       2730       2740       2750       2760 
PEIDEMCARA VKENWQTVTP CTLKKQYCSK PKTRTILGTN NFIALAHRSA LSGVTQAFMK 

      2770       2780       2790       2800       2810       2820 
KAWKSPIALG KNKFKELHCT VAGRCLEADL ASCDRSTPAI VRWFVANLLY ELAGCEEYLP 

      2830       2840       2850       2860       2870       2880 
SYVLNCCHDL VATQDGAFTK RGGLSSGDPV TSVSNTVYSL VIYAQHMVLS ALKMGHEIGL 

      2890       2900       2910       2920       2930       2940 
KFLEEQLKFE DLLEIQPMLV YSDDLVLYAE RPTFPNYHWW VEHLDLMLGF RTDPKKTVIT 

      2950       2960       2970       2980       2990       3000 
DKPSFLGCRI EAGRQLVPNR DRILAALAYH MKAQNASEYY ASAAAILMDS CACIDHDPEW 

      3010       3020       3030       3040       3050       3060 
YEDLICGIAR CARQDGYSFP GPAFFMSMWE KLRSHNEGKK FRHCGICDAK ADYASACGLD 

      3070       3080       3090       3100       3110       3120 
LCLFHSHFHQ HCPVTLSCGH HAGSKECSQC QSPVGAGRSP LDAVLKQIPY KPPRTVIMKV 

      3130       3140       3150       3160       3170       3180 
GNKTTALDPG RYQSRRGLVA VKRGIAGNEV DLSDGDYQVV PLLPTCKDIN MVKVACNVLL 

      3190       3200       3210       3220       3230       3240 
SKFIVGPPGS GKTTWLLSQV QDDDVIYTPT HQTMFDIVSA LKVCRYSIPG ASGLPFPPPA 

      3250       3260       3270       3280       3290       3300 
RSGPWVRLIA SGHVPGRVSY LDEAGYCNHL DILRLLSKTP LVCLGDLQQL HPVGFDSYCY 

      3310       3320       3330       3340       3350       3360 
VFDQMPQKQL TTIYRFGPNI CAAIQPCYRE KLESKARNTR VVFTTRPVAF GQVLTPYHKD 

      3370       3380       3390       3400       3410       3420 
RIGSAITIDS SQGATFDIVT LHLPSPKSLN KSRALVAITR ARHGLFIYDP HNQLQEFFNL 

      3430       3440       3450       3460       3470       3480 
TPERTDCNLV FSRGDELVVL NADNAVTTVA KALETGPSRF RVSDPRCKSL LAACSASLEG 

      3490       3500       3510       3520       3530       3540 
SCMPLPQVAH NLGFYFSPDS PTFAPLPKEL APHWPVVTHQ NNRAWPDRLV ASMRPIDARY 

      3550       3560       3570       3580       3590       3600 
SKPMVGAGYV VGPSTFLGTP GVVSYYLTLY IRGEPQALPE TLVSTGRIAT DCREYLDAAE 

      3610       3620       3630       3640       3650       3660 
EEAAKELPHA FIGDVKGTTV GGCHHITSKY LPRSLPKDSV AVVGVSSPGR AAKAVCTLTD 

      3670       3680       3690       3700       3710       3720 
VYLPELRPYL QPETASKCWK LKLDFRDVRL MVWKGATAYF QLEGLTWSAL PDYARFIQLP 

      3730       3740       3750       3760       3770       3780 
KDAVVYIDPC IGPATANRKV VRTTDWRADL AVTPYDYGAQ NILTTAWFED LGPQWKILGL 

      3790       3800       3810       3820       3830       3840 
QPFRRAFGFE NTEDWAILAR RMNDGKDYTD YNWNCVRERP HAIYGRARDH TYHFAPGTEL 

      3850 
QVELGKPRLP PGQVP 

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

Checksum: 570868D98DA3DE84
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FASTA2,396260,039

References

[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.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
M96262 Genomic RNA. Translation: AAA46273.2. Different initiation.
M96262 Genomic RNA. Translation: AAA46274.1. Different initiation.
L04493 Genomic RNA. Translation: AAA47101.1.
PIRA36861.
A45392.
B36861.

3D structure databases

ModBaseSearch...
MobiDBSearch...

Protein family/group databases

MEROPSC32.001.

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_PRRSL
AccessionPrimary (citable) accession number: Q04561
Entry history
Integrated into UniProtKB/Swiss-Prot: October 1, 1993
Last sequence update: August 10, 2010
Last modified: May 14, 2014
This is version 112 of the entry and version 3 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