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Q9YN02

- RPOA_PRRS1

UniProt

Q9YN02 - RPOA_PRRS1

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Protein
Replicase polyprotein 1ab
Gene
rep, 1a-1b
Organism
Porcine reproductive and respiratory syndrome virus (strain 16244B) (PRRSV)
Status
Reviewed - Annotation score: 5 out of 5 - Protein inferred from homologyi

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.
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 activityi

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).

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei76 – 761For Nsp1-alpha papain-like cysteine proteinase activity By similarity
Active sitei146 – 1461For Nsp1-alpha papain-like cysteine proteinase activity By similarity
Sitei180 – 1812Cleavage; by autolysis By similarity
Active sitei270 – 2701For Nsp1-beta papain-like cysteine proteinase activity By similarity
Active sitei339 – 3391For Nsp1-beta papain-like cysteine proteinase activity By similarity
Sitei383 – 3842Cleavage; by autolysis By similarity
Active sitei437 – 4371For Nsp2 cysteine proteinase activity By similarity
Active sitei506 – 5061For Nsp2 cysteine proteinase activity By similarity
Sitei1579 – 15802Cleavage; by CP2 Reviewed prediction
Sitei1809 – 18102Cleavage; by 3CLSP By similarity
Active sitei1848 – 18481Charge relay system; for 3C-like serine proteinase activity By similarity
Active sitei1873 – 18731Charge relay system; for 3C-like serine proteinase activity By similarity
Active sitei1927 – 19271Charge relay system; for 3C-like serine proteinase activity By similarity
Sitei2013 – 20142Cleavage; by 3CLSP By similarity
Sitei2183 – 21842Cleavage; by 3CLSP By similarity
Sitei2199 – 22002Cleavage; by 3CLSP By similarity
Sitei2348 – 23492Cleavage; by 3CLSP By similarity
Sitei2458 – 24592Cleavage; by 3CLSP By similarity
Sitei3144 – 31452Cleavage; by 3CLSP By similarity
Sitei3195 – 31951Involved in mRNA transcription process By similarity
Sitei3585 – 35862Cleavage; by 3CLSP By similarity
Sitei3808 – 38092Cleavage; by 3CLSP By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri8 – 2821C4-type; atypical
Add
BLAST
Nucleotide bindingi3298 – 33058ATP By similarity

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. RNA binding Source: InterPro
  3. RNA-directed RNA polymerase activity Source: UniProtKB-KW
  4. cysteine-type endopeptidase activity Source: InterPro
  5. helicase activity Source: UniProtKB-KW
  6. metal ion binding Source: UniProtKB-KW
  7. serine-type endopeptidase activity Source: InterPro
Complete GO annotation...

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 RNA genome replication Source: InterPro
  8. viral protein processing 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

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 positive-strand viruses, no DNA stageNidoviralesArteriviridaeArterivirus
Virus hostiSus scrofa (Pig) [TaxID: 9823]

Subcellular locationi

Chain Nsp1 : Host nucleus By similarity. Host cytoplasm By similarity

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei1266 – 128621Helical; Reviewed prediction
Add
BLAST
Transmembranei1296 – 131621Helical; Reviewed prediction
Add
BLAST
Transmembranei1345 – 136521Helical; Reviewed prediction
Add
BLAST
Transmembranei1368 – 138821Helical; Reviewed prediction
Add
BLAST
Transmembranei1583 – 160321Helical; Reviewed prediction
Add
BLAST
Transmembranei1650 – 167021Helical; Reviewed prediction
Add
BLAST
Transmembranei1685 – 170521Helical; Reviewed prediction
Add
BLAST
Transmembranei1719 – 173921Helical; Reviewed prediction
Add
BLAST
Transmembranei2012 – 203221Helical; Reviewed prediction
Add
BLAST
Transmembranei2060 – 208021Helical; Reviewed prediction
Add
BLAST
Transmembranei2092 – 211221Helical; Reviewed prediction
Add
BLAST
Transmembranei2137 – 215721Helical; Reviewed prediction
Add
BLAST
Transmembranei2164 – 218421Helical; Reviewed prediction
Add
BLAST

GO - Cellular componenti

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

Keywords - Cellular componenti

Host cytoplasm, Host membrane, Host nucleus, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 39613961Replicase polyprotein 1ab
PRO_0000036657Add
BLAST
Chaini1 – 382382Nsp1 By similarity
PRO_0000410826Add
BLAST
Chaini1 – 180180Nsp1-alpha papain-like cysteine proteinase By similarity
PRO_0000036659Add
BLAST
Chaini181 – 383203Nsp1-beta papain-like cysteine proteinase By similarity
PRO_0000036660Add
BLAST
Chaini384 – 15791196Nsp2 cysteine proteinase Reviewed prediction
PRO_0000036661Add
BLAST
Chaini1580 – 1809230Non-structural protein 3 By similarity
PRO_0000036662Add
BLAST
Chaini1810 – 20132043C-like serine proteinase By similarity
PRO_0000036663Add
BLAST
Chaini2014 – 2458445Non-structural protein 5-6-7 By similarity
PRO_0000036664Add
BLAST
Chaini2014 – 2183170Non-structural protein 5 By similarity
PRO_0000423118Add
BLAST
Chaini2184 – 219916Non-structural protein 6 By similarity
PRO_0000423119Add
BLAST
Chaini2200 – 2348149Non-structural protein 7-alpha By similarity
PRO_0000423120Add
BLAST
Chaini2349 – 2458110Non-structural protein 7-beta By similarity
PRO_0000423121Add
BLAST
Chaini2459 – 3144686RNA-directed RNA polymerase By similarity
PRO_0000036665Add
BLAST
Chaini2459 – 250345Non-structural protein 8 By similarity
PRO_0000036666Add
BLAST
Chaini3145 – 3585441Helicase By similarity
PRO_0000036667Add
BLAST
Chaini3586 – 3808223Non-structural protein 11 By similarity
PRO_0000036668Add
BLAST
Chaini3809 – 3961153Non-structural protein 12 By similarity
PRO_0000036669Add
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.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini69 – 180112Peptidase C31
Add
BLAST
Domaini263 – 383121Peptidase C32
Add
BLAST
Domaini428 – 535108Peptidase C33
Add
BLAST
Domaini1810 – 2013204Peptidase S32
Add
BLAST
Domaini2890 – 3024135RdRp catalytic
Add
BLAST
Domaini3145 – 320864AV MBD
Add
BLAST
Domaini3265 – 3417153(+)RNA virus helicase ATP-binding
Add
BLAST
Domaini3418 – 3546129(+)RNA virus helicase C-terminal
Add
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni69 – 182114PCP1-alpha
Add
BLAST
Regioni263 – 382120PCP1-beta
Add
BLAST
Regioni426 – 51388OTU-like
Add
BLAST
Regioni1266 – 1388123HD1
Add
BLAST
Regioni1583 – 1745163HD2
Add
BLAST
Regioni2036 – 2157122HD3
Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi808 – 930123Pro-rich
Add
BLAST
Compositional biasi2329 – 234416Pro-rich
Add
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

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. 2 hits.
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: 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

MSGILDRCTC TPNARVFVAE GQVYCTRCLS ARSLLPLNLQ VSELGVLGLF     50
YRPEEPLRWT LPRAFPTVEC SPAGACWLSA IFPIARMTSG NLNFQQRMVR 100
VAAEIYRAGQ LTPAVLKALQ VYERGCRWYP IVGPVPGVAV FANSLHVSDK 150
PFPGATHVLT NLPLPQRPKP EDFCPFECAM ATVYDIGHDA VMYVAEGKIS 200
WAPRGGDEVK FEAVPGELKL IANRLRTSFP PHHAVDMSKF AFTAPGCGVS 250
MRVERQHGCL PADTVPEGNC WWSLFDLLPL EVQDKEIRHA NQFGYQTKHG 300
VSGKYLQRRL QVNGLRAVTD SNGPIVVQYF SVKESWIRHL KLAGEPSYSG 350
FEDLLRIRVE PNTSPLANTE GKIFRFGSHK WYGAGKRARK ARSCATATVA 400
GRALSVRETR QAKEHEVAGA DKAEHLKHYS PPAEGNCGWH CISAIANRMV 450
NSIFETTLPE RVRPPDDWAT DDDLANAIQI LRLPAALDRN GACTSAKYVL 500
KLEGEHWTVT VTPGMSPSLL PLECVQGCCE HKGGLGSPDA IEVSGFDPAC 550
LDWLAEVMHL PSSAIPAALA EMSGDSDRSA SPVTTVWTVS QFFARHSGGN 600
HPDQVRLGKI ISLCQVIEDC CCSQNKTNRV TPEEVAAKID LYLRGATNLE 650
ECLARLEKAR PPRVIDTSFD WDVVLPGVEA ATQTNKLPQV NQCRALVPVV 700
TQKSLDNNSV PLTAFSLANY YYRAQGDEVR HRERLTAVLS KLEEVVREEY 750
GLMPTEPGPR PTLPRGLDEL KDQMEEDLLR LANAQATSDM MAWAVEQVDL 800
KTWVKNYPRW TPPPPPPKVQ PRKTKPVKSL PERKPVPAPR RKVGPDCGSP 850
VSLGGDVPNS WEDLAVSSPL DLPTPPEPAT LSSELVIVSS PQCIFRPATP 900
LSEPAPIPAP RGTVSRPVTP LSEPIPVPAP RRKFQQVKRL SSAAAVPLHQ 950
NEPLDLSASS QTEYEASPSA PPQSGGVLGV EGHEAEETLS EISDMSGNIK 1000
PASVSSSSSL SSVEITRPKY SAQAIIDSGG PCSGHLQGVK ETCLSVMREA 1050
CDATKLDDPA TQEWLSRMWD RVDMLTWRNT SVCQAIRTLD GRLKFLPKMI 1100
LETPPPYPCE FVMMPHTPAP SVGAESDLTI GSVATEDVPR ILEKIENVGE 1150
MANQEPSAFS EDKPVDDQLV NDPRISSRRP DESTAAPSAG TGGAGSFTDL 1200
PSSDGADADG GGPFRTAKRK AERLFDQLSR QVFDLVSHLP VFFSRLFHPG 1250
GGYSTGDWGF AAFTLLCLFL CYSYPAFGIA PLLGVFSGTS RRVRMGVFGC 1300
WLAFAVGLFK PVSDPVGAAC EFDSPECRNI LLSFELLKPW DPVRSLVVGP 1350
VGLGLAILGR LLGGARCIWH FLLRLGIVAD CILAGAYVLS QGRCKKCWGS 1400
CIRTAPNEVA FNVFPFTRAT RSSLIDLCDR FCAPKGMDPI FLATGWRGCW 1450
AGRSPIEQPS EKPIAFAQLD EKKITARTVV AQPYDPNQAV KCLRVLQAGG 1500
AMVAEAVPKV VKVSAVPFRA PFFPTGVKVD PDCRVVVDPD TFTAALRSGY 1550
STTNLVLGVG DFAQLNGLKI RQISKPSGGG PHLMAALHVA CSMALHMLTG 1600
IYVTAVGSCG TGTNDPWCAN PFAVPGYGPG SLCTSRLCIS QHGLTLPLTA 1650
LVAGFGIQEI ALVVLIFVSI GGMAHRLSCK ADMLCILLAI ASYVWVPLTW 1700
LLCVFPCWLR CFSLHPLTIL WLVFFLISVN MPSGILAMVL LVSLWLLGRY 1750
TNVAGLVTPY DIHHYTSGPR GVAALATAPD GTYLAAVRRA ALTGRTMLFT 1800
PSQLGSLLEG AFRTRKPSLN TVNVIGSSMG SGGVFTIDGK VKCVTAAHVL 1850
TGNSARVSGV GFNQMLDFDV KGDFAIADCP NWQGAAPKAQ FCADGWTGRA 1900
YWLTSSGVEP GVIGKGFAFC FTACGDSGSP VITEAGELVG VHTGSNKQGG 1950
GIVTRPSGQF CNVAPIKLSE LSEFFAGPKV PLGDVKVGSH IIKDISEVPS 2000
DLCALLAAKP ELEGGLSTVQ LLCVFFLLWR MMGHAWTPLV AVSFFILNEV 2050
LPAVLVRSVF SFGMFVLSWL TPWSAQILMI RLLTAALNRN RWSLAFFSLG 2100
AVTGFVADLA ATQGHPLQAV MNLSTYAFLP RMMVVTSPVP VITCGVVHLL 2150
AIILYLFKYR GLHQILVGDG VFSAAFFLRY FAEGKLREGV SQSCGMNHES 2200
LTGALAMRLN DEDLDFLMKW TDFKCFVSAS NMRNAAGQFI EAAYAKALRV 2250
ELAQLVQVDK VRGVLAKLEA FADTVAPQLS PGDIVVALGH TPVGSIFDLK 2300
VGSTKHTLQA IETRVLAGSK MTVARVVDPT PTPPPAPVPI PLPPKVLENG 2350
PNAWGDEDRL NKKKRRRMEA LGIYVMGGKK YQKFWDKNSG DVFYEEVHNN 2400
TDEWECLRVG DPADFDPEKG TLCGHVTIEN KAYHVYISPS GKKFLVPVNP 2450
ENGRVQWEAA KLSMEQALGM MNVDGELTAK ELEKLKRIID KLQGLTKEQC 2500
LNCLLAASGL TRCGRGGLVV TETAVKIVKF HNRTFTLGPV NLKVASEVEL 2550
KDAVEHNQHP VARPIDGGVV LLRSAVPSLI DVLISGADAS PKLLAHHGPG 2600
NTGIDGTLWD FESEATKEEV ALSAQIIQAC DIRRGDAPKI GLPYKLYPVR 2650
GNPERVKGVL QNTRFGDIPY KTPSDTGSPV HAAACLTPNA TPVTDGRSVL 2700
ATTMPPGFEL YVPTIPASVL DYLDSRPDCP KQLTEHGCED AALKDLSKYD 2750
LSTQGFVLPG VLRLVRKYLF AHVGKCPPVH RPSTYPAKNS MAGINGNRFP 2800
TKDIQSVPEI DVLCAQAVRE NWQTVTPCTL KKQYCGKKKT RTILGTNNFI 2850
ALAHRAALSG VTQGFMKKAF NSPIALGKNK FKELQTSVLG RCLEADLASC 2900
DRSTPAIVRW FAANLLYELA CAEEHLPSYV LNCCHDLLVT QSGAVTKRGG 2950
LSSGDPITSV SNTIYSLVIY AQHMVLSYFK SGHPHGLLFL QDQLKFEDML 3000
KVQPLIVYSD DLVLYAESPT MPNYHWWVEH LNLMLGFQTD PKKTAITDSP 3050
SFLGCRIING RQLVPNRDRI LAALAYHMKA SNVSEYYASA AAILMDSCAC 3100
LEYDPEWFEE LVVGIAQCAR KDGYSFPGTP FFMSMWEKLR SNYEGKKSRV 3150
CGYCGAPAPY ATACGLDVCI YHTHFHQHCP VTIWCGHPAG SGSCSECKSP 3200
VGKGTSPLDE VLEQVPYKPP RTVIMHVEQG LTPLDPGRYQ TRRGLVSVRR 3250
GIRGNEVELP DGDYASTALL PTCKEINMVA VASNVLRSRF IIGPPGAGKT 3300
YWLLQQVQDG DVIYTPTHQT MLDMIRALGT CRFNVPAGTT LQFPVPSRTG 3350
PWVRILAGGW CPGKNSFLDE AAYCNHLDVL RLLSKTTLTC LGDFKQLHPV 3400
GFDSHCYVFD IMPQTQLKTI WRFGQNICDA IQPDYRDKLM SMVNTTRVTY 3450
VEKPVRYGQV LTPYHRDRED DAITIDSSQG ATFDVVTLHL PTKDSLNRQR 3500
ALVAITRARH AIFVYDPHRQ LQGLFDLPAK GTPVNLAVHR DGQLIVLDRN 3550
NKECTVAQAL GNGDKFRATD KRVVDSLRAI CADLEGSSSP LPKVAHNLGF 3600
YFSPDLTQFA KLPVELAPHW PVVTTQNNEK WPDRLVASLR PIHKYSRACI 3650
GAGYMVGPSV FLGTPGVVSY YLTKFVKGEA QLLPETVFST GRIEVDCREY 3700
LDDREREVAA SLPHAFIGDV KGTTVGGCHH VTSRYLPRVL PKESVAVVGV 3750
SSPGKAAKAL CTLTDVYLPD LEAYLHPETQ SKCWKMMLDF KEVRLMVWRD 3800
KTAYFQLEGR YFTWYQLASY ASYIRVPVNS TVYLDPCMGP ALCNRRVVGS 3850
THWGADLAVT PYDYGAKIIL SSAYHGEMPP GYKILACAEF SLDDPVRYKH 3900
TWGFESDTAY LYEFTGNGED WEDYNDAFRA RQEGKIYKAT ATSLKFHFPP 3950
GPVIEPTLGL N 3961

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 AAC64692.1 differs from that shown. Reason: Erroneous initiation.

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei2504 – 39611458Missing in isoform Replicase polyprotein 1a.
VSP_032890Add
BLAST

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
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:
EMBL
GenBank
DDBJ
Links Updated
AF046869 Genomic RNA. Translation: AAC64691.1 .
AF046869 Genomic RNA. Translation: AAC64692.1 . Different initiation.

3D structure databases

ModBasei Search...

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. 2 hits.
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. "North American and European porcine reproductive and respiratory syndrome viruses differ in non-structural protein coding regions."
    Allende R., Lewis T.L., Lu Z., Rock D.L., Kutish G.F., Ali A., Doster A.R., Osorio F.A.
    J. Gen. Virol. 80:307-315(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

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: May 14, 2014
This is version 97 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

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

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