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Protein

Replicase polyprotein 1ab

Gene

rep

Organism
Porcine reproductive and respiratory syndrome virus (strain 16244B) (PRRSV)
Status
Reviewed-Annotation score: 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)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 bindingi3151Zinc 1PROSITE-ProRule annotation1
Metal bindingi3154Zinc 1PROSITE-ProRule annotation1
Metal bindingi3164Zinc 2PROSITE-ProRule annotation1
Metal bindingi3169Zinc 1PROSITE-ProRule annotation1
Metal bindingi3172Zinc 1PROSITE-ProRule annotation1
Metal bindingi3174Zinc 2PROSITE-ProRule annotation1
Metal bindingi3176Zinc 2PROSITE-ProRule annotation1
Metal bindingi3178Zinc 2PROSITE-ProRule annotation1
Metal bindingi3185Zinc 3PROSITE-ProRule annotation1
Metal bindingi3187Zinc 3PROSITE-ProRule annotation1
Metal bindingi3194Zinc 3PROSITE-ProRule annotation1
Sitei3195Involved in mRNA transcription processBy similarity1
Metal bindingi3197Zinc 3PROSITE-ProRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri8 – 28C4-type; atypicalAdd BLAST21
Nucleotide bindingi3298 – 3305ATPBy 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 16244B) (PRRSV)
Taxonomic identifieri300561 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA positive-strand viruses, no DNA stageNidoviralesArteriviridaeArterivirus
Virus hostiSus scrofa (Pig) [TaxID: 9823]

Subcellular locationi

Nsp1 :

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 membrane, Host nucleus, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000366571 – 3961Replicase polyprotein 1abAdd BLAST3961
ChainiPRO_00004108261 – 382Nsp1By similarityAdd BLAST382
ChainiPRO_00000366591 – 180Nsp1-alpha papain-like cysteine proteinaseBy similarityAdd BLAST180
ChainiPRO_0000036660181 – 383Nsp1-beta papain-like cysteine proteinaseBy similarityAdd BLAST203
ChainiPRO_0000036661384 – 1579Nsp2 cysteine proteinaseSequence analysisAdd BLAST1196
ChainiPRO_00000366621580 – 1809Non-structural protein 3By similarityAdd BLAST230
ChainiPRO_00000366631810 – 20133C-like serine proteinaseBy similarityAdd BLAST204
ChainiPRO_00000366642014 – 2458Non-structural protein 5-6-7By similarityAdd BLAST445
ChainiPRO_00004231182014 – 2183Non-structural protein 5By similarityAdd BLAST170
ChainiPRO_00004231192184 – 2199Non-structural protein 6By similarityAdd BLAST16
ChainiPRO_00004231202200 – 2348Non-structural protein 7-alphaBy similarityAdd BLAST149
ChainiPRO_00004231212349 – 2458Non-structural protein 7-betaBy similarityAdd BLAST110
ChainiPRO_00000366652459 – 3144RNA-directed RNA polymeraseBy similarityAdd BLAST686
ChainiPRO_00000366662459 – 2503Non-structural protein 8By similarityAdd BLAST45
ChainiPRO_00000366673145 – 3585HelicaseBy similarityAdd BLAST441
ChainiPRO_00000366683586 – 3808Non-structural protein 11By similarityAdd BLAST223
ChainiPRO_00000366693809 – 3961Non-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 autolysisBy similarity2
Sitei383 – 384Cleavage; by autolysisBy similarity2
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
Sitei3144 – 3145Cleavage; by 3CLSPBy similarity2
Sitei3585 – 3586Cleavage; by 3CLSPBy similarity2
Sitei3808 – 3809Cleavage; by 3CLSPBy similarity2

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5EYIX-ray2.16A/B3586-3808[»]
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
Domaini2890 – 3024RdRp catalyticPROSITE-ProRule annotationAdd BLAST135
Domaini3145 – 3208AV ZBDPROSITE-ProRule annotationAdd BLAST64
Domaini3265 – 3417(+)RNA virus helicase ATP-bindingAdd BLAST153
Domaini3418 – 3546(+)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: Q9YN02-1) [UniParc]FASTAAdd to basket
Also known as: pp1ab

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MSGILDRCTC TPNARVFVAE GQVYCTRCLS ARSLLPLNLQ VSELGVLGLF
60 70 80 90 100
YRPEEPLRWT LPRAFPTVEC SPAGACWLSA IFPIARMTSG NLNFQQRMVR
110 120 130 140 150
VAAEIYRAGQ LTPAVLKALQ VYERGCRWYP IVGPVPGVAV FANSLHVSDK
160 170 180 190 200
PFPGATHVLT NLPLPQRPKP EDFCPFECAM ATVYDIGHDA VMYVAEGKIS
210 220 230 240 250
WAPRGGDEVK FEAVPGELKL IANRLRTSFP PHHAVDMSKF AFTAPGCGVS
260 270 280 290 300
MRVERQHGCL PADTVPEGNC WWSLFDLLPL EVQDKEIRHA NQFGYQTKHG
310 320 330 340 350
VSGKYLQRRL QVNGLRAVTD SNGPIVVQYF SVKESWIRHL KLAGEPSYSG
360 370 380 390 400
FEDLLRIRVE PNTSPLANTE GKIFRFGSHK WYGAGKRARK ARSCATATVA
410 420 430 440 450
GRALSVRETR QAKEHEVAGA DKAEHLKHYS PPAEGNCGWH CISAIANRMV
460 470 480 490 500
NSIFETTLPE RVRPPDDWAT DDDLANAIQI LRLPAALDRN GACTSAKYVL
510 520 530 540 550
KLEGEHWTVT VTPGMSPSLL PLECVQGCCE HKGGLGSPDA IEVSGFDPAC
560 570 580 590 600
LDWLAEVMHL PSSAIPAALA EMSGDSDRSA SPVTTVWTVS QFFARHSGGN
610 620 630 640 650
HPDQVRLGKI ISLCQVIEDC CCSQNKTNRV TPEEVAAKID LYLRGATNLE
660 670 680 690 700
ECLARLEKAR PPRVIDTSFD WDVVLPGVEA ATQTNKLPQV NQCRALVPVV
710 720 730 740 750
TQKSLDNNSV PLTAFSLANY YYRAQGDEVR HRERLTAVLS KLEEVVREEY
760 770 780 790 800
GLMPTEPGPR PTLPRGLDEL KDQMEEDLLR LANAQATSDM MAWAVEQVDL
810 820 830 840 850
KTWVKNYPRW TPPPPPPKVQ PRKTKPVKSL PERKPVPAPR RKVGPDCGSP
860 870 880 890 900
VSLGGDVPNS WEDLAVSSPL DLPTPPEPAT LSSELVIVSS PQCIFRPATP
910 920 930 940 950
LSEPAPIPAP RGTVSRPVTP LSEPIPVPAP RRKFQQVKRL SSAAAVPLHQ
960 970 980 990 1000
NEPLDLSASS QTEYEASPSA PPQSGGVLGV EGHEAEETLS EISDMSGNIK
1010 1020 1030 1040 1050
PASVSSSSSL SSVEITRPKY SAQAIIDSGG PCSGHLQGVK ETCLSVMREA
1060 1070 1080 1090 1100
CDATKLDDPA TQEWLSRMWD RVDMLTWRNT SVCQAIRTLD GRLKFLPKMI
1110 1120 1130 1140 1150
LETPPPYPCE FVMMPHTPAP SVGAESDLTI GSVATEDVPR ILEKIENVGE
1160 1170 1180 1190 1200
MANQEPSAFS EDKPVDDQLV NDPRISSRRP DESTAAPSAG TGGAGSFTDL
1210 1220 1230 1240 1250
PSSDGADADG GGPFRTAKRK AERLFDQLSR QVFDLVSHLP VFFSRLFHPG
1260 1270 1280 1290 1300
GGYSTGDWGF AAFTLLCLFL CYSYPAFGIA PLLGVFSGTS RRVRMGVFGC
1310 1320 1330 1340 1350
WLAFAVGLFK PVSDPVGAAC EFDSPECRNI LLSFELLKPW 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 KCLRVLQAGG
1510 1520 1530 1540 1550
AMVAEAVPKV VKVSAVPFRA PFFPTGVKVD PDCRVVVDPD TFTAALRSGY
1560 1570 1580 1590 1600
STTNLVLGVG DFAQLNGLKI RQISKPSGGG PHLMAALHVA CSMALHMLTG
1610 1620 1630 1640 1650
IYVTAVGSCG TGTNDPWCAN PFAVPGYGPG SLCTSRLCIS QHGLTLPLTA
1660 1670 1680 1690 1700
LVAGFGIQEI ALVVLIFVSI GGMAHRLSCK ADMLCILLAI 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 NWQGAAPKAQ FCADGWTGRA
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 TPWSAQILMI RLLTAALNRN RWSLAFFSLG
2110 2120 2130 2140 2150
AVTGFVADLA ATQGHPLQAV MNLSTYAFLP RMMVVTSPVP VITCGVVHLL
2160 2170 2180 2190 2200
AIILYLFKYR GLHQILVGDG VFSAAFFLRY FAEGKLREGV SQSCGMNHES
2210 2220 2230 2240 2250
LTGALAMRLN DEDLDFLMKW TDFKCFVSAS NMRNAAGQFI EAAYAKALRV
2260 2270 2280 2290 2300
ELAQLVQVDK VRGVLAKLEA 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 KAYHVYISPS GKKFLVPVNP
2460 2470 2480 2490 2500
ENGRVQWEAA KLSMEQALGM MNVDGELTAK ELEKLKRIID KLQGLTKEQC
2510 2520 2530 2540 2550
LNCLLAASGL TRCGRGGLVV TETAVKIVKF HNRTFTLGPV NLKVASEVEL
2560 2570 2580 2590 2600
KDAVEHNQHP VARPIDGGVV LLRSAVPSLI DVLISGADAS PKLLAHHGPG
2610 2620 2630 2640 2650
NTGIDGTLWD FESEATKEEV ALSAQIIQAC DIRRGDAPKI GLPYKLYPVR
2660 2670 2680 2690 2700
GNPERVKGVL QNTRFGDIPY KTPSDTGSPV HAAACLTPNA TPVTDGRSVL
2710 2720 2730 2740 2750
ATTMPPGFEL YVPTIPASVL DYLDSRPDCP KQLTEHGCED AALKDLSKYD
2760 2770 2780 2790 2800
LSTQGFVLPG VLRLVRKYLF AHVGKCPPVH RPSTYPAKNS MAGINGNRFP
2810 2820 2830 2840 2850
TKDIQSVPEI DVLCAQAVRE NWQTVTPCTL KKQYCGKKKT RTILGTNNFI
2860 2870 2880 2890 2900
ALAHRAALSG VTQGFMKKAF NSPIALGKNK FKELQTSVLG RCLEADLASC
2910 2920 2930 2940 2950
DRSTPAIVRW FAANLLYELA CAEEHLPSYV LNCCHDLLVT QSGAVTKRGG
2960 2970 2980 2990 3000
LSSGDPITSV SNTIYSLVIY AQHMVLSYFK SGHPHGLLFL QDQLKFEDML
3010 3020 3030 3040 3050
KVQPLIVYSD DLVLYAESPT MPNYHWWVEH LNLMLGFQTD PKKTAITDSP
3060 3070 3080 3090 3100
SFLGCRIING RQLVPNRDRI LAALAYHMKA SNVSEYYASA AAILMDSCAC
3110 3120 3130 3140 3150
LEYDPEWFEE LVVGIAQCAR KDGYSFPGTP FFMSMWEKLR SNYEGKKSRV
3160 3170 3180 3190 3200
CGYCGAPAPY ATACGLDVCI YHTHFHQHCP VTIWCGHPAG SGSCSECKSP
3210 3220 3230 3240 3250
VGKGTSPLDE VLEQVPYKPP RTVIMHVEQG LTPLDPGRYQ TRRGLVSVRR
3260 3270 3280 3290 3300
GIRGNEVELP DGDYASTALL PTCKEINMVA VASNVLRSRF IIGPPGAGKT
3310 3320 3330 3340 3350
YWLLQQVQDG DVIYTPTHQT MLDMIRALGT CRFNVPAGTT LQFPVPSRTG
3360 3370 3380 3390 3400
PWVRILAGGW CPGKNSFLDE AAYCNHLDVL RLLSKTTLTC LGDFKQLHPV
3410 3420 3430 3440 3450
GFDSHCYVFD IMPQTQLKTI WRFGQNICDA IQPDYRDKLM SMVNTTRVTY
3460 3470 3480 3490 3500
VEKPVRYGQV LTPYHRDRED DAITIDSSQG ATFDVVTLHL PTKDSLNRQR
3510 3520 3530 3540 3550
ALVAITRARH AIFVYDPHRQ LQGLFDLPAK GTPVNLAVHR DGQLIVLDRN
3560 3570 3580 3590 3600
NKECTVAQAL GNGDKFRATD KRVVDSLRAI CADLEGSSSP LPKVAHNLGF
3610 3620 3630 3640 3650
YFSPDLTQFA KLPVELAPHW PVVTTQNNEK WPDRLVASLR PIHKYSRACI
3660 3670 3680 3690 3700
GAGYMVGPSV FLGTPGVVSY YLTKFVKGEA QLLPETVFST GRIEVDCREY
3710 3720 3730 3740 3750
LDDREREVAA SLPHAFIGDV KGTTVGGCHH VTSRYLPRVL PKESVAVVGV
3760 3770 3780 3790 3800
SSPGKAAKAL CTLTDVYLPD LEAYLHPETQ SKCWKMMLDF KEVRLMVWRD
3810 3820 3830 3840 3850
KTAYFQLEGR YFTWYQLASY ASYIRVPVNS TVYLDPCMGP ALCNRRVVGS
3860 3870 3880 3890 3900
THWGADLAVT PYDYGAKIIL SSAYHGEMPP GYKILACAEF SLDDPVRYKH
3910 3920 3930 3940 3950
TWGFESDTAY LYEFTGNGED WEDYNDAFRA RQEGKIYKAT ATSLKFHFPP
3960
GPVIEPTLGL N
Note: Produced by -1 ribosomal frameshifting at the 1a-1b genes boundary.
Length:3,961
Mass (Da):432,802
Last modified:August 10, 2010 - v3
Checksum:i111B73F5926C9DB0
GO
Isoform Replicase polyprotein 1a (identifier: Q9YN02-2) [UniParc]FASTAAdd to basket
Also known as: pp1a, ORF1a polyprotein

The sequence of this isoform differs from the canonical sequence as follows:
     2504-3961: Missing.

Note: Produced by conventional translation.
Show »
Length:2,503
Mass (Da):271,602
Checksum:i91175307A4EAB65C
GO

Sequence cautioni

The sequence AAC64692 differs from that shown. Reason: Erroneous initiation.Curated

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0328902504 – 3961Missing in isoform Replicase polyprotein 1a. CuratedAdd BLAST1458

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF046869 Genomic RNA. Translation: AAC64691.1.
AF046869 Genomic RNA. Translation: AAC64692.1. Different initiation.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF046869 Genomic RNA. Translation: AAC64691.1.
AF046869 Genomic RNA. Translation: AAC64692.1. Different initiation.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5EYIX-ray2.16A/B3586-3808[»]
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_PRRS1
AccessioniPrimary (citable) accession number: Q9YN02
Secondary accession number(s): Q9YN01
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 12, 2005
Last sequence update: August 10, 2010
Last modified: November 30, 2016
This is version 108 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

3D-structure, Multifunctional enzyme

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. Peptidase families
    Classification of peptidase families and list of entries
  3. 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.