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Protein

Replicase polyprotein 1ab

Gene

rep

Organism
Porcine reproductive and respiratory syndrome virus (strain VR-2332) (PRRSV)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Replicase polyprotein 1ab: 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: essential for viral subgenomic mRNA synthesis.By similarity
Nsp1-alpha papain-like cysteine proteinase: inhibits host IFN-beta production. Plays a role in the degradation of the host transcriptional activator CREBBP protein. The degradation of host CREBBP which is a key component of the IFN enhanceosome is likely responsible for the inhibition of interferon mediated by Nsp1-alpha. Participates also in the inhibition of host NF-kappa-B activation.By similarity1 Publication
Nsp1-beta papain-like cysteine proteinase: plays a role in the inhibition of the interferon-activated JAK/STAT signal transduction by mediating the ubiquitination and subsequent proteasomal degradation of host KPNA1.1 Publication
Nsp2 cysteine proteinase: multifunctional protein that acts as a viral protease and as a viral antagonist of host immune response. Cleaves the nsp2/nsp3 site in the viral polyprotein. Displays deubiquitinating activity that cleaves both ubiquitinated and ISGylated products and therefore inhibits ubiquitin and ISG15-dependent host innate immunity. Deubiquitinates also host NFKBIA, thereby interfering with NFKBIA degradation and impairing subsequent NF-kappa-B activation.By similarity
Non-structural protein 3: plays a role in the inhibition of the immune response by interacting with host IFITM1. This interaction leads to the proteasomal degradation of the IFN-induced antiviral protein IFITM1.By similarity
3C-like serine proteinase: Cleaves the majority of cleavage sites present in the C-terminus of the polyprotein. Triggers host apoptosis through caspase-3, -8, and -9 activations.By similarity
Non-structural protein 5-6-7: Plays a role in the initial induction of autophagosomes from host reticulum endoplasmic.By similarity
RNA-directed RNA polymerase: Responsible for replication and transcription of the viral RNA genome.By similarity
Helicase: Displays RNA and DNA duplex-unwinding activities with 5' to 3' polarity.By similarity
Non-structural protein 11: Plays a role in the inhibition of the secretion of host IL-1beta by the NLRP3 inflammasome through its endonuclease activity.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)DescriptionActionsGraphical viewLength
Active sitei76For Nsp1-alpha papain-like cysteine proteinase activityPROSITE-ProRule annotation1
Active sitei146For Nsp1-alpha papain-like cysteine proteinase activityPROSITE-ProRule annotation1
Active sitei270For Nsp1-beta papain-like cysteine proteinase activityPROSITE-ProRule annotation1
Active sitei339For Nsp1-beta papain-like cysteine proteinase activityPROSITE-ProRule annotation1
Active sitei437For Nsp2 cysteine proteinase activityPROSITE-ProRule annotation1
Active sitei506For Nsp2 cysteine proteinase activityPROSITE-ProRule annotation1
Active sitei1848Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation1
Active sitei1873Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation1
Active sitei1927Charge relay system; for 3C-like serine proteinase activityPROSITE-ProRule annotation1
Metal bindingi3150Zinc 1PROSITE-ProRule annotation1
Metal bindingi3153Zinc 1PROSITE-ProRule annotation1
Metal bindingi3163Zinc 2PROSITE-ProRule annotation1
Metal bindingi3168Zinc 1PROSITE-ProRule annotation1
Metal bindingi3171Zinc 1PROSITE-ProRule annotation1
Metal bindingi3173Zinc 2PROSITE-ProRule annotation1
Metal bindingi3175Zinc 2PROSITE-ProRule annotation1
Metal bindingi3177Zinc 2PROSITE-ProRule annotation1
Metal bindingi3184Zinc 3PROSITE-ProRule annotation1
Metal bindingi3186Zinc 3PROSITE-ProRule annotation1
Metal bindingi3193Zinc 3PROSITE-ProRule annotation1
Sitei3194Involved in mRNA transcription processBy similarity1
Metal bindingi3196Zinc 3PROSITE-ProRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri8 – 28C4-type; atypicalAdd BLAST21
Nucleotide bindingi3292 – 3299ATPBy similarity8

GO - Molecular functioni

GO - Biological processi

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

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 VR-2332) (PRRSV)
Taxonomic identifieri300559 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA positive-strand viruses, no DNA stageNidoviralesArteriviridaeArterivirus
Virus hostiSus scrofa (Pig) [TaxID: 9823]

Subcellular locationi

Nsp1 :
  • Host nucleus
  • Host cytoplasm By similarity
Nsp1-alpha papain-like cysteine proteinase :
  • Host nucleus 1 Publication
  • Host cytoplasm 1 Publication
Nsp1-beta papain-like cysteine proteinase :
  • Host nucleus By similarity
Nsp2 cysteine proteinase :
  • Host membrane 1 Publication; Multi-pass membrane protein 1 Publication
Non-structural protein 5-6-7 :
RNA-directed RNA polymerase :

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transmembranei1266 – 1286HelicalSequence analysisAdd BLAST21
Transmembranei1296 – 1316HelicalSequence analysisAdd BLAST21
Transmembranei1345 – 1365HelicalSequence analysisAdd BLAST21
Transmembranei1368 – 1388HelicalSequence analysisAdd BLAST21
Transmembranei1583 – 1603HelicalSequence analysisAdd BLAST21
Transmembranei1650 – 1670HelicalSequence analysisAdd BLAST21
Transmembranei1685 – 1705HelicalSequence analysisAdd BLAST21
Transmembranei1719 – 1739HelicalSequence analysisAdd BLAST21
Transmembranei2012 – 2032HelicalSequence analysisAdd BLAST21
Transmembranei2060 – 2080HelicalSequence analysisAdd BLAST21
Transmembranei2092 – 2112HelicalSequence analysisAdd BLAST21
Transmembranei2137 – 2157HelicalSequence analysisAdd BLAST21
Transmembranei2164 – 2184HelicalSequence analysisAdd BLAST21

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Host cytoplasm, Host endoplasmic reticulum, Host membrane, Host nucleus, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi76C → S: Complete loss of papain-like cysteine protease activity of nsp1-alpha. Loss of inhibition of IFN-beta production. Loss of inhibition of IRF-3 phosphorylation. 1 Publication1
Mutagenesisi146H → D: Complete loss of papain-like cysteine protease activity of nsp1-alpha. 1 Publication1
Mutagenesisi270C → S: No effect on inhibition of IRF-3 phosphorylation. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000366961 – 3960Replicase polyprotein 1abAdd BLAST3960
ChainiPRO_00004108291 – 382Nsp1By similarityAdd BLAST382
ChainiPRO_00000366981 – 180Nsp1-alpha papain-like cysteine proteinaseAdd BLAST180
ChainiPRO_0000036699181 – 383Nsp1-beta papain-like cysteine proteinaseAdd BLAST203
ChainiPRO_0000036700384 – 1579Nsp2 cysteine proteinaseSequence analysisAdd BLAST1196
ChainiPRO_00000367011580 – 1809Non-structural protein 3By similarityAdd BLAST230
ChainiPRO_00000367021810 – 20133C-like serine proteinaseBy similarityAdd BLAST204
ChainiPRO_00000367032014 – 2458Non-structural protein 5-6-7By similarityAdd BLAST445
ChainiPRO_00004231302014 – 2183Non-structural protein 5By similarityAdd BLAST170
ChainiPRO_00004231312184 – 2199Non-structural protein 6By similarityAdd BLAST16
ChainiPRO_00004231322200 – 2348Non-structural protein 7-alphaBy similarityAdd BLAST149
ChainiPRO_00004231332349 – 2458Non-structural protein 7-betaBy similarityAdd BLAST110
ChainiPRO_00000367042459 – 3143RNA-directed RNA polymeraseBy similarityAdd BLAST685
ChainiPRO_00000367052459 – 2503Non-structural protein 8By similarityAdd BLAST45
ChainiPRO_00000367063144 – 3584HelicaseBy similarityAdd BLAST441
ChainiPRO_00000367073585 – 3807Non-structural protein 11By similarityAdd BLAST223
ChainiPRO_00000367083808 – 3960Non-structural protein 12By similarityAdd BLAST153

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei180 – 181Cleavage; by autolysis2
Sitei383 – 384Cleavage; by autolysis2
Sitei1579 – 1580Cleavage; by CP2Sequence analysis2
Sitei1809 – 1810Cleavage; by 3CLSPBy similarity2
Sitei2013 – 2014Cleavage; by 3CLSPBy similarity2
Sitei2183 – 2184Cleavage; by 3CLSPBy similarity2
Sitei2199 – 2200Cleavage; by 3CLSPBy similarity2
Sitei2348 – 2349Cleavage; by 3CLSPBy similarity2
Sitei2458 – 2459Cleavage; by 3CLSPBy similarity2
Sitei3143 – 3144Cleavage; by 3CLSPBy similarity2
Sitei3584 – 3585Cleavage; by 3CLSPBy similarity2
Sitei3807 – 3808Cleavage; by 3CLSPBy similarity2

Interactioni

Subunit structurei

Nsp3 interacts with host IFITM1. Nsp9 interacts with host DDX5.By similarity

Structurei

3D structure databases

ProteinModelPortaliQ9WJB2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini69 – 180Peptidase C31PROSITE-ProRule annotationAdd BLAST112
Domaini263 – 383Peptidase C32PROSITE-ProRule annotationAdd BLAST121
Domaini428 – 535Peptidase C33PROSITE-ProRule annotationAdd BLAST108
Domaini1810 – 2013Peptidase S32PROSITE-ProRule annotationAdd BLAST204
Domaini2889 – 3023RdRp catalyticPROSITE-ProRule annotationAdd BLAST135
Domaini3144 – 3207AV ZBDPROSITE-ProRule annotationAdd BLAST64
Domaini3264 – 3416(+)RNA virus helicase ATP-bindingAdd BLAST153
Domaini3417 – 3545(+)RNA virus helicase C-terminalAdd BLAST129

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni69 – 182PCP1-alphaAdd BLAST114
Regioni263 – 382PCP1-betaAdd BLAST120
Regioni426 – 513OTU-likeAdd BLAST88
Regioni1266 – 1388HD1Add BLAST123
Regioni1583 – 1745HD2Add BLAST163
Regioni2036 – 2157HD3Add BLAST122

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi808 – 930Pro-richAdd BLAST123
Compositional biasi2329 – 2344Pro-richAdd BLAST16

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 AV ZBD (arterivirus zinc-binding) domain.PROSITE-ProRule annotation
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)DescriptionActionsGraphical viewLength
Zinc fingeri8 – 28C4-type; atypicalAdd BLAST21

Keywords - Domaini

Transmembrane, Transmembrane helix, Zinc-finger

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR027351. (+)RNA_virus_helicase_core_dom.
IPR031932. Arteri_nsp7a.
IPR008743. Arterivirus_Nsp2_C33.
IPR023338. Arterivirus_NSP4_peptidase.
IPR027355. AV_MBD_dom.
IPR008741. AV_PCPalpha.
IPR025773. AV_PCPbeta.
IPR008760. EAV_peptidase_S32.
IPR032855. NSP2-B_epitope.
IPR027417. P-loop_NTPase.
IPR032785. Pdase_C33_assoc.
IPR009003. Peptidase_S1_PA.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
[Graphical view]
PfamiPF16749. Arteri_nsp7a. 1 hit.
PF14757. NSP2-B_epitope. 1 hit.
PF14756. Pdase_C33_assoc. 1 hit.
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]
SUPFAMiSSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 2 hits.
PROSITEiPS51538. AV_CP. 1 hit.
PS51493. AV_NSP4_PRO. 1 hit.
PS51539. AV_PCP_ALPHA. 1 hit.
PS51540. AV_PCP_BETA. 1 hit.
PS51652. AV_ZBD. 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. AlignAdd to basket

Isoform Replicase polyprotein 1ab (identifier: Q9WJB2-1) [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
MSGILDRCTC TPNARVFMAE GQVYCTRCLS ARSLLPLNLQ VSELGVLGLF
60 70 80 90 100
YRPEEPLRWT LPRAFPTVEC SPAGACWLSA IFPIARMTSG NLNFQQRMVR
110 120 130 140 150
VAAELYRAGQ LTPAVLKALQ VYERGCRWYP IVGPVPGVAV FANSLHVSDK
160 170 180 190 200
PFPGATHVLT NLPLPQRPKP EDFCPFECAM ATVYDIGHDA VMYVAERKVS
210 220 230 240 250
WAPRGGDEVK FEAVPGELKL IANRLRTSFP PHHTVDMSKF AFTAPGCGVS
260 270 280 290 300
MRVERQHGCL PADTVPEGNC WWSLFDLLPL EVQNKEIRHA NQFGYQTKHG
310 320 330 340 350
VSGKYLQRRL QVNGLRAVTD LNGPIVVQYF SVKESWIRHL KLAGEPSYSG
360 370 380 390 400
FEDLLRIRVE PNTSPLADKE EKIFRFGSHK WYGAGKRARK ARSCATATVA
410 420 430 440 450
GRALSVRETR QAKEHEVAGA NKAEHLKHYS PPAEGNCGWH CISAIANRMV
460 470 480 490 500
NSKFETTLPE RVRPPDDWAT DEDLVNAIQI LRLPAALDRN GACTSAKYVL
510 520 530 540 550
KLEGEHWTVT VTPGMSPSLL PLECVQGCCG HKGGLGSPDA VEVSGFDPAC
560 570 580 590 600
LDRLAEVMHL PSSAIPAALA EMSGDSDRSA SPVTTVWTVS QFFARHSGGN
610 620 630 640 650
HPDQVRLGKI ISLCQVIEDC CCSQNKTNRV TPEEVAAKID LYLRGATNLE
660 670 680 690 700
ECLARLEKAR PPRVIDTSFD WDVVLPGVEA ATQTIKLPQV NQCRALVPVV
710 720 730 740 750
TQKSLDNNSV PLTAFSLANY YYRAQGDEVR HRERLTAVLS KLEKVVREEY
760 770 780 790 800
GLMPTEPGPR PTLPRGLDEL KDQMEEDLLK LANAQTTSDM MAWAVEQVDL
810 820 830 840 850
KTWVKNYPRW TPPPPPPKVQ PRKTKPVKSL PERKPVPAPR RKVGSDCGSP
860 870 880 890 900
VSLGGDVPNS WEDLAVSSPF DLPTPPEPAT PSSELVIVSS PQCIFRPATP
910 920 930 940 950
LSEPAPIPAP RGTVSRPVTP LSEPIPVPAP RRKFQQVKRL SSAAAIPPYQ
960 970 980 990 1000
DEPLDLSASS QTEYEASPPA PPQSGGVLGV EGHEAEETLS EISDMSGNIK
1010 1020 1030 1040 1050
PASVSSSSSL SSVRITRPKY SAQAIIDSGG PCSGHLQEVK ETCLSVMREA
1060 1070 1080 1090 1100
CDATKLDDPA TQEWLSRMWD RVDMLTWRNT SVYQAICTLD GRLKFLPKMI
1110 1120 1130 1140 1150
LETPPPYPCE FVMMPHTPAP SVGAESDLTI GSVATEDVPR ILEKIENVGE
1160 1170 1180 1190 1200
MANQGPLAFS EDKPVDDQLV NDPRISSRRP DESTSAPSAG TGGAGSFTDL
1210 1220 1230 1240 1250
PPSDGADADG GGPFRTVKRK AERLFDQLSR QVFDLVSHLP VFFSRLFYPG
1260 1270 1280 1290 1300
GGYSPGDWGF AAFTLLCLFL CYSYPAFGIA PLLGVFSGSS RRVRMGVFGC
1310 1320 1330 1340 1350
WLAFAVGLFK PVSDPVGAAC EFDSPECRNI LHSFELLKPW DPVRSLVVGP
1360 1370 1380 1390 1400
VGLGLAILGR LLGGARCIWH FLLRLGIVAD CILAGAYVLS QGRCKKCWGS
1410 1420 1430 1440 1450
CIRTAPNEVA FNVFPFTRAT RSSLIDLCDR FCAPKGMDPI FLATGWRGCW
1460 1470 1480 1490 1500
AGRSPIEQPS EKPIAFAQLD EKKITARTVV AQPYDPNQAV KCLRVLQSGG
1510 1520 1530 1540 1550
AMVAKAVPKV VKVSAVPFRA PFFPTGVKVD PDCRVVVDPD TFTAALRSGY
1560 1570 1580 1590 1600
STTNLVLGVG DFAQLNGLKI RQISKPSGGG PHLMAALHVA CSMALHMLAG
1610 1620 1630 1640 1650
IYVTAVGSCG TGTNDPWCAN PFAVPGYGPG SLCTSRLCIS QHGLTLPLTA
1660 1670 1680 1690 1700
LVAGFGIQEI ALVVLIFVSI GGMAHRLSCK ADMLCVLLAI ASYVWVPLTW
1710 1720 1730 1740 1750
LLCVFPCWLR CFSLHPLTIL WLVFFLISVN MPSGILAMVL LVSLWLLGRY
1760 1770 1780 1790 1800
TNVAGLVTPY DIHHYTSGPR GVAALATAPD GTYLAAVRRA ALTGRTMLFT
1810 1820 1830 1840 1850
PSQLGSLLEG AFRTRKPSLN TVNVIGSSMG SGGVFTIDGK VKCVTAAHVL
1860 1870 1880 1890 1900
TGNSARVSGV GFNQMLDFDV KGDFAIADCP NWQGAAPKTQ FCTDGWTGRA
1910 1920 1930 1940 1950
YWLTSSGVEP GVIGKGFAFC FTACGDSGSP VITEAGELVG VHTGSNKQGG
1960 1970 1980 1990 2000
GIVTRPSGQF CNVAPIKLSE LSEFFAGPKV PLGDVKVGSH IIKDISEVPS
2010 2020 2030 2040 2050
DLCALLAAKP ELEGGLSTVQ LLCVFFLLWR MMGHAWTPLV AVSFFILNEV
2060 2070 2080 2090 2100
LPAVLVRSVF SFGMFVLSWL TPWSAQVLMI RLLTAALNRN RWSLAFFSLG
2110 2120 2130 2140 2150
AVTGFVADLA ATQGHPLQAV MNLSTYAFLP RMMVVTSPVP VITCGVVHLL
2160 2170 2180 2190 2200
AIILYLFKYR GPHHILVGDG VFSAAFFLRY FAEGKLREGV SQSCGMNHES
2210 2220 2230 2240 2250
LTGALAMRLN DEDLDFLMKW TDFKCFVSAS NMRNAAGQFI EAAYAKALRV
2260 2270 2280 2290 2300
ELAQLVQVDK VRGTLAKLEA FADTVAPQLS PGDIVVALGH TPVGSIFDLK
2310 2320 2330 2340 2350
VGSTKHTLQA IETRVLAGSK MTVARVVDPT PTPPPAPVPI PLPPKVLENG
2360 2370 2380 2390 2400
PNAWGDEDRL NKKKRRRMEA LGIYVMGGKK YQKFWDKNSG DVFYEEVHNN
2410 2420 2430 2440 2450
TDEWECLRVG DPADFDPEKG TLCGHVTIEN KAYHVYTSPS GKKFLVPVNP
2460 2470 2480 2490 2500
ENGRVQWEAA KLSVEQALGM MNVDGELTAK ELEKLKRIID KLQGLTKEQC
2510 2520 2530 2540 2550
LNCLAASDLT RCGRGGLVVT ETAVKIVKFH NRTFTLGPVN LKVASEVELK
2560 2570 2580 2590 2600
DAVEHNQHPV ARPIDGGVVL LRSAVPSLID VLISGADASP KLLAHHGPGN
2610 2620 2630 2640 2650
TGIDGTLWDF ESEATKEEVA LSAQIIQACD IRRGDAPEIG LPYKLYPVRG
2660 2670 2680 2690 2700
NPERVKGVLQ NTRFGDIPYK TPSDTGSPVH AAACLTPNAT PVTDGRSVLA
2710 2720 2730 2740 2750
TTMPPGFELY VPTIPASVLD YLDSRPDCPK QLTEHGCEDA ALKDLSKYDL
2760 2770 2780 2790 2800
STQGFVLPGV LRLVRKYLFA HVGKCPPVHR PSTYPAKNSM AGINGNRFPT
2810 2820 2830 2840 2850
KDIQSVPEID VLCAQAVREN WQTVTPCTLK KQYCGKKKTR TILGTNNFIA
2860 2870 2880 2890 2900
LAHRAVLSGV TQGFMKKAFN SPIALGKNKF KELQTPVLGR CLEADLASCD
2910 2920 2930 2940 2950
RSTPAIVRWF AANLLYELAC AEEHLPSYVL NCCHDLLVTQ SGAVTKRGGL
2960 2970 2980 2990 3000
SSGDPITSVS NTIYSLVIYA QHMVLSYFKS GHPHGLLFLQ DQLKFEDMLK
3010 3020 3030 3040 3050
VQPLIVYSDD LVLYAESPTM PNYHWWVEHL NLMLGFQTDP KKTAITDSPS
3060 3070 3080 3090 3100
FLGCRIINGR QLVPNRDRIL AALAYHMKAS NVSEYYASAA AILMDSCACL
3110 3120 3130 3140 3150
EYDPEWFEEL VVGIAQCARK DGYSFPGTPF FMSMWEKLRS NYEGKKSRVC
3160 3170 3180 3190 3200
GYCGAPAPYA TACGLDVCIY HTHFHQHCPV TIWCGHPAGS GSCSECKSPV
3210 3220 3230 3240 3250
GKGTSPLDEV LEQVPYKPPR TVIMHVEQGL TPLDPGRYQT RRGLVSVRRG
3260 3270 3280 3290 3300
IRGNEVGLPD GDYASTALLP TCKEINMVAV ASNVLRSRFI IGPPGAGKTY
3310 3320 3330 3340 3350
WLLQQVQDGD VIYTPTHQTM LDMIRALGTC RFNVPAGTTL QFPVPSRTGP
3360 3370 3380 3390 3400
WVRILAGGWC PGKNSFLDEA AYCNHLDVLR LLSKTTLTCL GDFKQLHPVG
3410 3420 3430 3440 3450
FDSHCYVFDI MPQTQLKTIW RFGQNICDAI QPDYRDKLMS MVNTTRVTYV
3460 3470 3480 3490 3500
EKPVRYGQVL TPYHRDREDD AITIDSSQGA TFDVVTLHLP TKDSLNRQRA
3510 3520 3530 3540 3550
LVAITRARHA IFVYDPHRQL QGLFDLPAKG TPVNLAVHCD GQLIVLDRNN
3560 3570 3580 3590 3600
KECTVAQALG NGDKFRATDK RVVDSLRAIC ADLEGSSSPL PKVAHNLGFY
3610 3620 3630 3640 3650
FSPDLTQFAK LPVELAPHWP VVSTQNNEKW PDRLVASLRP IHKYSRACIG
3660 3670 3680 3690 3700
AGYMVGPSVF LGTPGVVSYY LTKFVKGGAQ VLPETVFSTG RIEVDCREYL
3710 3720 3730 3740 3750
DDREREVAAS LPHGFIGDVK GTTVGGCHHV TSRYLPRVLP KESVAVVGVS
3760 3770 3780 3790 3800
SPGKAAKALC TLTDVYLPDL EAYLHPETQS KCWKMMLDFK EVRLMVWKDK
3810 3820 3830 3840 3850
TAYFQLEGRY FTWYQLASYA SYIRVPVNST VYLDPCMGPA LCNRRVVGST
3860 3870 3880 3890 3900
HWGADLAVTP YDYGAKIILS SAYHGEMPPG YKILACAEFS LDDPVKYKHT
3910 3920 3930 3940 3950
WGFESDTAYL YEFTGNGEDW EDYNDAFRAR QEGKIYKATA TSLKFYFPPG
3960
PVIEPTLGLN
Note: Produced by -1 ribosomal frameshifting at the 1a-1b genes boundary.
Length:3,960
Mass (Da):432,887
Last modified:April 12, 2005 - v2
Checksum:iF219409DA3F3B73F
GO
Isoform Replicase polyprotein 1a (identifier: Q9WJB2-2) [UniParc]FASTAAdd to basket
Also known as: pp1a, ORF1a polyprotein

The sequence of this isoform differs from the canonical sequence as follows:
     2504-3960: Missing.

Note: Produced by conventional translation.
Show »
Length:2,503
Mass (Da):271,972
Checksum:iD1CCE7E7404CA4E0
GO

Sequence cautioni

The sequence AAD12125 differs from that shown. Reason: Erroneous initiation.Curated
The sequence AAO13192 differs from that shown. Reason: Erroneous initiation.Curated

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural varianti188H → R in strain: BJ-4. 1
Natural varianti386K → R in strain: BJ-4. 1
Natural varianti393S → H in strain: BJ-4. 1
Natural varianti1498S → A in strain: Isolate infectious clone VR-2332. 1
Natural varianti1777T → I in strain: Isolate infectious clone VR-2332. 1
Natural varianti2222D → N in strain: Isolate infectious clone VR-2332. 1
Natural varianti3257G → E in strain: Isolate infectious clone VR-2332. 1
Natural varianti3539C → R in strain: Isolate infectious clone VR-2332. 1
Natural varianti3623S → T in strain: Isolate infectious clone VR-2332. 1
Natural varianti3678G → E in strain: Isolate infectious clone VR-2332. 1
Natural varianti3714G → A in strain: Isolate infectious clone VR-2332. 1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0328932504 – 3960Missing in isoform Replicase polyprotein 1a. CuratedAdd BLAST1457

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U87392 Genomic RNA. Translation: AAD12132.2.
U87392 Genomic RNA. Translation: AAD12125.1. Different initiation.
AY150564 Genomic RNA. Translation: AAO13191.1.
AY150564 Genomic RNA. Translation: AAO13192.1. Different initiation.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U87392 Genomic RNA. Translation: AAD12132.2.
U87392 Genomic RNA. Translation: AAD12125.1. Different initiation.
AY150564 Genomic RNA. Translation: AAO13191.1.
AY150564 Genomic RNA. Translation: AAO13192.1. Different initiation.

3D structure databases

ProteinModelPortaliQ9WJB2.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR027351. (+)RNA_virus_helicase_core_dom.
IPR031932. Arteri_nsp7a.
IPR008743. Arterivirus_Nsp2_C33.
IPR023338. Arterivirus_NSP4_peptidase.
IPR027355. AV_MBD_dom.
IPR008741. AV_PCPalpha.
IPR025773. AV_PCPbeta.
IPR008760. EAV_peptidase_S32.
IPR032855. NSP2-B_epitope.
IPR027417. P-loop_NTPase.
IPR032785. Pdase_C33_assoc.
IPR009003. Peptidase_S1_PA.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
[Graphical view]
PfamiPF16749. Arteri_nsp7a. 1 hit.
PF14757. NSP2-B_epitope. 1 hit.
PF14756. Pdase_C33_assoc. 1 hit.
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]
SUPFAMiSSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 2 hits.
PROSITEiPS51538. AV_CP. 1 hit.
PS51493. AV_NSP4_PRO. 1 hit.
PS51539. AV_PCP_ALPHA. 1 hit.
PS51540. AV_PCP_BETA. 1 hit.
PS51652. AV_ZBD. 1 hit.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRPOA_PRRSR
AccessioniPrimary (citable) accession number: Q9WJB2
Secondary accession number(s): Q80KX0, Q80KX1, Q9WJB3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 12, 2005
Last sequence update: April 12, 2005
Last modified: November 30, 2016
This is version 107 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

Direct protein sequencing, Multifunctional enzyme

Documents

  1. Peptidase families
    Classification of peptidase families and list of entries
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.