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Q04561

- RPOA_PRRSL

UniProt

Q04561 - RPOA_PRRSL

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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

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
Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase, Nucleotidyltransferase, Protease, RNA-directed RNA polymerase, Serine protease, Thiol protease, Transferase

Keywords - Biological processi

Host-virus interaction, Inhibition of host innate immune response by virus, Inhibition of host interferon signaling pathway by virus, Inhibition of host ISG15 by virus, Inhibition of host NF-kappa-B by virus, Inhibition of host STAT1 by virus, Modulation of host ubiquitin pathway by viral deubiquitinase, Modulation of host ubiquitin pathway by virus, Viral immunoevasion, Viral RNA replication

Keywords - Ligandi

ATP-binding, Metal-binding, Nucleotide-binding, Zinc

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 cytoplasm Source: UniProtKB-KW
  2. host cell membrane Source: UniProtKB-KW
  3. host cell nucleus Source: UniProtKB-KW
  4. integral component of membrane Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Host cytoplasm, Host membrane, Host nucleus, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi76 – 761C → 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.

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        10         20         30         40         50
MSGTFSRCMC TPAARVFWNA GQVFCTRCLS ARSLLSPELQ DTDLGAVGLF
60 70 80 90 100
YKPRDKLHWK VPIGIPQVEC TPSGCCWLSA VFPLARMTSG NHNFLQRLVK
110 120 130 140 150
VADVLYRDGC LAPRHLRELQ VYERGCNWYP ITGPVPGMGL FANSMHVSDQ
160 170 180 190 200
PFPGATHVLT NSPLPQQACR QPFCPFEEAH SSVYRWKKFV VFTDSSLNGR
210 220 230 240 250
SRMMWTPESD DSAALEVLPP ELERQVEILI RSFPAHHPVD LADWELTESP
260 270 280 290 300
ENGFSFNTSH SCGHLVQNPD VFDGKCWLSC FLGQSVEVRC HEEHLADAFG
310 320 330 340 350
YQTKWGVHGK YLQRRLQVRG IRAVVDPDGP IHVEALSCPQ SWIRHLTLDD
360 370 380 390 400
DVTPGFVRLT SLRIVPNTEP TTSRIFRFGA HKWYGAAGKR ARAKRAAKSE
410 420 430 440 450
KDSAPTPKVA LPVPTCGITT YSPPTDGSCG WHVLAAIMNR MINGDFTSPL
460 470 480 490 500
TQYNRPEDDW ASDYDLVQAI QCLRLPATVV RNRACPNAKY LIKLNGVHWE
510 520 530 540 550
VEVRSGMAPR SLSRECVVGV CSEGCVAPPY PADGLPKRAL EALASAYRLP
560 570 580 590 600
SDCVSSGIAD FLANPPPQEF WTLDKMLTSP SPERSGFSSL YKLLLEVVPQ
610 620 630 640 650
KCGATEGAFI YAVERMLKDC PSSKQAMALL AKIKVPSSKA PSVSLDECFP
660 670 680 690 700
TDVLADFEPA SQERPQSSGA AVVLCSPDAK EFEEAAPEEV QESGHKAVHS
710 720 730 740 750
ALLAEGPNNE QVQVVAGEQL KLGGCGLAVG NAHEGALVSA GLINLVGGNL
760 770 780 790 800
SPSDPMKENM LNSREDEPLD LSQPAPASTT TLVREQTPDN PGSDAGALPV
810 820 830 840 850
TVREFVPTGP ILCHVEHCGT ESGDSSSPLD LSDAQTLDQP LNLSLAAWPV
860 870 880 890 900
RATASDPGWV HGRREPVFVK PRNAFSDGDS ALQFGELSES SSVIEFDRTK
910 920 930 940 950
DAPVVDAPVD LTTSNEALSV VDPFEFAELK RPRFSAQALI DRGGPLADVH
960 970 980 990 1000
AKIKNRVYEQ CLQACEPGSR ATPATREWLD KMWDRVDMKT WRCTSQFQAG
1010 1020 1030 1040 1050
RILASLKFLP DMIQDTPPPV PRKNRASDNA GLKQLVAQWD RKLSVTPPPK
1060 1070 1080 1090 1100
PVGPVLDQIV PPPTDIQQED VTPSDGPPHA PDFPSRVSTG GSWKGLMLSG
1110 1120 1130 1140 1150
TRLAGSISQR LMTWVFEVFS HLPAFMLTLF SPRGSMAPGD WLFAGVVLLA
1160 1170 1180 1190 1200
LLLCRSYPIL GCLPLLGVFS GSLRRVRLGV FGSWMAFAVF LFSTPSNPVG
1210 1220 1230 1240 1250
SSCDHDSPEC HAELLALEQR QLWEPVRGLV VGPSGLLCVI LGKLLGGSRY
1260 1270 1280 1290 1300
LWHVLLRLCM LADLALSLVY VVSQGRCHKC WGKCIRTAPA EVALNVFPFS
1310 1320 1330 1340 1350
RATRVSLVSL CDRFQTPKGV DPVHLATGWR GCWRGESPIH QPHQKPIAYA
1360 1370 1380 1390 1400
NLDEKKMSAQ TVVAVPYDPS QAIKCLKVLQ AGGAIVDQPT PEVVRVSEIP
1410 1420 1430 1440 1450
FSAPFFPKVP VNPDCRVVVD SDTFVAAVRC GYSTAQLVLG RGNFAKLNQT
1460 1470 1480 1490 1500
PPRNSISTKT TGGASYTLAV AQVSAWTLVH FILGLWFTSP QVCGRGTADP
1510 1520 1530 1540 1550
WCSNPFSYPT YGPGVVCSSR LCVSADGVTL PLFSAVAQLS GREVGIFILV
1560 1570 1580 1590 1600
LVSLTALAHR MALKADMLVV FSAFCAYAWP MSSWLICFFP ILLKWVTLHP
1610 1620 1630 1640 1650
LTMLWVHSFL VFCLPAAGIL SLGITGLLWA IGRFTQVAGI ITPYDIHQYT
1660 1670 1680 1690 1700
SGPRGAAAVA TAPEGTYMAA VRRAALTGRT LIFTPSAVGS LLEGAFRTHK
1710 1720 1730 1740 1750
PCLNTVNVVG SSLGSGGVFT IDGRRTVVTA AHVLNGDTAR VTGDSYNRMH
1760 1770 1780 1790 1800
TFKTNGDYAW SHADDWQGVA PVVKVAKGYR GRAYWQTSTG VEPGIIGEGF
1810 1820 1830 1840 1850
AFCFTNCGDS GSPVISESGD LIGIHTGSNK LGSGLVTTPE GETCTIKETK
1860 1870 1880 1890 1900
LSDLSRHFAG PSVPLGDIKL SPAIIPDVTS IPSDLASLLA SVPVVEGGLS
1910 1920 1930 1940 1950
TVQLLCVFFL LWRMMGHAWT PIVAVGFFLL NEILPAVLVR AVFSFALFVL
1960 1970 1980 1990 2000
AWATPWSAQV LMIRLLTASL NRNKLSLAFY ALGGVVGLAA EIGTFAGRLS
2010 2020 2030 2040 2050
ELSQALSTYC FLPRVLAMTS CVPTIIIGGL HTLGVILWLF KYRCLHNMLV
2060 2070 2080 2090 2100
GDGSFSSAFF LRYFAEGNLR KGVSQSCGMN NESLTAALAC KLSQADLDFL
2110 2120 2130 2140 2150
SSLTNFKCFV SASNMKNAAG QYIEAAYAKA LRQELASLVQ IDKMKGVLSK
2160 2170 2180 2190 2200
LEAFAETATP SLDIGDVIVL LGQHPHGSIL DINVGTERKT VSVQETRSLG
2210 2220 2230 2240 2250
GSKFSVCTVV SNTPVDALTG IPLQTPTPLF ENGPRHRSEE DDLKVERMKK
2260 2270 2280 2290 2300
HCVSLGFHNI NGKVYCKIWD KSTGDTFYTD DSRYTQDHAF QDRSADYRDR
2310 2320 2330 2340 2350
DYEGVQTTPQ QGFDPKSETP VGTVVIGGIT YNRYLIKGKE VLVPKPDNCL
2360 2370 2380 2390 2400
EAAKLSLEQA LAGMGQTCDL TAAEVEKLKR IISQLQGLTT EQALNCLLAA
2410 2420 2430 2440 2450
SGLTRCGRGG LVVTETAVKI IKYHSRTFTL GPLDLKVTSE VEVKKSTEQG
2460 2470 2480 2490 2500
HAVVANLCSG VILMRPHPPS LVDVLLKPGL DTIPGIQPGH GAGNMGVDGS
2510 2520 2530 2540 2550
IWDFETAPTK AELELSKQII QACEVRRGDA PNLQLPYKLY PVRGDPERHK
2560 2570 2580 2590 2600
GRLINTRFGD LPYKTPQDTK SAIHAACCLH PNGAPVSDGK STLGTTLQHG
2610 2620 2630 2640 2650
FELYVPTVPY SVMEYLDSRP DTPFMCTKHG TSKAAAEDLQ KYDLSTQGFV
2660 2670 2680 2690 2700
LPGVLRLVRR FIFGHIGKAP PLFLPSTYPA KNSMAGINGQ RFPTKDVQSI
2710 2720 2730 2740 2750
PEIDEMCARA VKENWQTVTP CTLKKQYCSK PKTRTILGTN NFIALAHRSA
2760 2770 2780 2790 2800
LSGVTQAFMK KAWKSPIALG KNKFKELHCT VAGRCLEADL ASCDRSTPAI
2810 2820 2830 2840 2850
VRWFVANLLY ELAGCEEYLP SYVLNCCHDL VATQDGAFTK RGGLSSGDPV
2860 2870 2880 2890 2900
TSVSNTVYSL VIYAQHMVLS ALKMGHEIGL KFLEEQLKFE DLLEIQPMLV
2910 2920 2930 2940 2950
YSDDLVLYAE RPTFPNYHWW VEHLDLMLGF RTDPKKTVIT DKPSFLGCRI
2960 2970 2980 2990 3000
EAGRQLVPNR DRILAALAYH MKAQNASEYY ASAAAILMDS CACIDHDPEW
3010 3020 3030 3040 3050
YEDLICGIAR CARQDGYSFP GPAFFMSMWE KLRSHNEGKK FRHCGICDAK
3060 3070 3080 3090 3100
ADYASACGLD LCLFHSHFHQ HCPVTLSCGH HAGSKECSQC QSPVGAGRSP
3110 3120 3130 3140 3150
LDAVLKQIPY KPPRTVIMKV GNKTTALDPG RYQSRRGLVA VKRGIAGNEV
3160 3170 3180 3190 3200
DLSDGDYQVV PLLPTCKDIN MVKVACNVLL SKFIVGPPGS GKTTWLLSQV
3210 3220 3230 3240 3250
QDDDVIYTPT HQTMFDIVSA LKVCRYSIPG ASGLPFPPPA RSGPWVRLIA
3260 3270 3280 3290 3300
SGHVPGRVSY LDEAGYCNHL DILRLLSKTP LVCLGDLQQL HPVGFDSYCY
3310 3320 3330 3340 3350
VFDQMPQKQL TTIYRFGPNI CAAIQPCYRE KLESKARNTR VVFTTRPVAF
3360 3370 3380 3390 3400
GQVLTPYHKD RIGSAITIDS SQGATFDIVT LHLPSPKSLN KSRALVAITR
3410 3420 3430 3440 3450
ARHGLFIYDP HNQLQEFFNL TPERTDCNLV FSRGDELVVL NADNAVTTVA
3460 3470 3480 3490 3500
KALETGPSRF RVSDPRCKSL LAACSASLEG SCMPLPQVAH NLGFYFSPDS
3510 3520 3530 3540 3550
PTFAPLPKEL APHWPVVTHQ NNRAWPDRLV ASMRPIDARY SKPMVGAGYV
3560 3570 3580 3590 3600
VGPSTFLGTP GVVSYYLTLY IRGEPQALPE TLVSTGRIAT DCREYLDAAE
3610 3620 3630 3640 3650
EEAAKELPHA FIGDVKGTTV GGCHHITSKY LPRSLPKDSV AVVGVSSPGR
3660 3670 3680 3690 3700
AAKAVCTLTD VYLPELRPYL QPETASKCWK LKLDFRDVRL MVWKGATAYF
3710 3720 3730 3740 3750
QLEGLTWSAL PDYARFIQLP KDAVVYIDPC IGPATANRKV VRTTDWRADL
3760 3770 3780 3790 3800
AVTPYDYGAQ NILTTAWFED LGPQWKILGL QPFRRAFGFE NTEDWAILAR
3810 3820 3830 3840 3850
RMNDGKDYTD YNWNCVRERP HAIYGRARDH TYHFAPGTEL QVELGKPRLP

PGQVP

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.

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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 29, 2014
This is version 114 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