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Q04561

- RPOA_PRRSL

UniProt

Q04561 - RPOA_PRRSL

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Protein
Replicase polyprotein 1ab
Gene
rep, 1a-1b
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.
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 activity1 Publication
Active sitei146 – 1461For Nsp1-alpha papain-like cysteine proteinase activity1 Publication
Sitei180 – 1812Cleavage; by autolysis Reviewed prediction
Active sitei276 – 2761For Nsp1-beta papain-like cysteine proteinase activity1 Publication
Active sitei345 – 3451For Nsp1-beta papain-like cysteine proteinase activity1 Publication
Sitei385 – 3862Cleavage; by autolysis By similarity
Active sitei429 – 4291For Nsp2 cysteine proteinase activity By similarity
Active sitei498 – 4981For Nsp2 cysteine proteinase activity By similarity
Sitei1463 – 14642Cleavage; by CP2 Reviewed prediction
Sitei1693 – 16942Cleavage; by 3CLSP By similarity
Active sitei1732 – 17321Charge relay system; for 3C-like serine proteinase activity By similarity
Active sitei1757 – 17571Charge relay system; for 3C-like serine proteinase activity By similarity
Active sitei1810 – 18101Charge relay system; for 3C-like serine proteinase activity By similarity
Sitei1896 – 18972Cleavage; by 3CLSP By similarity
Sitei2066 – 20672Cleavage; by 3CLSP By similarity
Sitei2082 – 20832Cleavage; by 3CLSP By similarity
Sitei2231 – 22322Cleavage; by 3CLSP By similarity
Sitei2351 – 23522Cleavage; by 3CLSP By similarity
Sitei3037 – 30382Cleavage; by 3CLSP By similarity
Sitei3088 – 30881Involved in mRNA transcription process By similarity
Sitei3479 – 34802Cleavage; by 3CLSP By similarity
Sitei3703 – 37042Cleavage; by 3CLSP By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri8 – 2821C4-type; atypical
Add
BLAST
Nucleotide bindingi3186 – 31938ATP 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

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

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei1134 – 115421Helical; Reviewed prediction
Add
BLAST
Transmembranei1179 – 119921Helical; Reviewed prediction
Add
BLAST
Transmembranei1252 – 127221Helical; Reviewed prediction
Add
BLAST
Transmembranei1468 – 148821Helical; Reviewed prediction
Add
BLAST
Transmembranei1521 – 154121Helical; Reviewed prediction
Add
BLAST
Transmembranei1543 – 156321Helical; Reviewed prediction
Add
BLAST
Transmembranei1573 – 159321Helical; Reviewed prediction
Add
BLAST
Transmembranei1609 – 162921Helical; Reviewed prediction
Add
BLAST
Transmembranei1919 – 193921Helical; Reviewed prediction
Add
BLAST
Transmembranei1943 – 196321Helical; Reviewed prediction
Add
BLAST
Transmembranei1977 – 199721Helical; Reviewed prediction
Add
BLAST
Transmembranei2020 – 204021Helical; 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

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 1ab
PRO_0000036683Add
BLAST
Chaini1 – 384384Nsp1 By similarity
PRO_0000410828Add
BLAST
Chaini1 – 180180Nsp1-alpha papain-like cysteine proteinase Reviewed prediction
PRO_0000036685Add
BLAST
Chaini181 – 385205Nsp1-beta papain-like cysteine proteinase Reviewed prediction
PRO_0000036686Add
BLAST
Chaini386 – 14631078Nsp2 cysteine proteinase Reviewed prediction
PRO_0000036687Add
BLAST
Chaini1464 – 1693230Non-structural protein 3 By similarity
PRO_0000036688Add
BLAST
Chaini1694 – 18962033C-like serine proteinase By similarity
PRO_0000036689Add
BLAST
Chaini1897 – 2351455Non-structural protein 5-6-7 By similarity
PRO_0000036690Add
BLAST
Chaini1897 – 2066170Non-structural protein 5 By similarity
PRO_0000423126Add
BLAST
Chaini2067 – 208216Non-structural protein 6 By similarity
PRO_0000423127Add
BLAST
Chaini2083 – 2231149Non-structural protein 7-alpha By similarity
PRO_0000423128Add
BLAST
Chaini2232 – 2351120Non-structural protein 7-beta By similarity
PRO_0000423129Add
BLAST
Chaini2352 – 3037686RNA-directed RNA polymerase By similarity
PRO_0000036691Add
BLAST
Chaini2352 – 239645Non-structural protein 8 By similarity
PRO_0000036692Add
BLAST
Chaini3038 – 3479442Helicase By similarity
PRO_0000036693Add
BLAST
Chaini3480 – 3703224Non-structural protein 11 By similarity
PRO_0000036694Add
BLAST
Chaini3704 – 3855152Non-structural protein 12 By similarity
PRO_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.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini69 – 180112Peptidase C31
Add
BLAST
Domaini269 – 385117Peptidase C32
Add
BLAST
Domaini420 – 527108Peptidase C33
Add
BLAST
Domaini1694 – 1896203Peptidase S32
Add
BLAST
Domaini2783 – 2917135RdRp catalytic
Add
BLAST
Domaini3038 – 310164AV MBD
Add
BLAST
Domaini3151 – 3310160(+)RNA virus helicase ATP-binding
Add
BLAST
Domaini3311 – 3440130(+)RNA virus helicase C-terminal
Add
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni69 – 182114PCP1-alpha
Add
BLAST
Regioni269 – 384116PCP1-beta
Add
BLAST
Regioni418 – 50588OTU-like
Add
BLAST
Regioni1149 – 1272124HD1
Add
BLAST
Regioni1327 – 135125WCCH
Add
BLAST
Regioni1468 – 1629162HD2
Add
BLAST
Regioni1919 – 2040122HD3
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. 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.

« Hide

MSGTFSRCMC TPAARVFWNA GQVFCTRCLS ARSLLSPELQ DTDLGAVGLF     50
YKPRDKLHWK VPIGIPQVEC TPSGCCWLSA VFPLARMTSG NHNFLQRLVK 100
VADVLYRDGC LAPRHLRELQ VYERGCNWYP ITGPVPGMGL FANSMHVSDQ 150
PFPGATHVLT NSPLPQQACR QPFCPFEEAH SSVYRWKKFV VFTDSSLNGR 200
SRMMWTPESD DSAALEVLPP ELERQVEILI RSFPAHHPVD LADWELTESP 250
ENGFSFNTSH SCGHLVQNPD VFDGKCWLSC FLGQSVEVRC HEEHLADAFG 300
YQTKWGVHGK YLQRRLQVRG IRAVVDPDGP IHVEALSCPQ SWIRHLTLDD 350
DVTPGFVRLT SLRIVPNTEP TTSRIFRFGA HKWYGAAGKR ARAKRAAKSE 400
KDSAPTPKVA LPVPTCGITT YSPPTDGSCG WHVLAAIMNR MINGDFTSPL 450
TQYNRPEDDW ASDYDLVQAI QCLRLPATVV RNRACPNAKY LIKLNGVHWE 500
VEVRSGMAPR SLSRECVVGV CSEGCVAPPY PADGLPKRAL EALASAYRLP 550
SDCVSSGIAD FLANPPPQEF WTLDKMLTSP SPERSGFSSL YKLLLEVVPQ 600
KCGATEGAFI YAVERMLKDC PSSKQAMALL AKIKVPSSKA PSVSLDECFP 650
TDVLADFEPA SQERPQSSGA AVVLCSPDAK EFEEAAPEEV QESGHKAVHS 700
ALLAEGPNNE QVQVVAGEQL KLGGCGLAVG NAHEGALVSA GLINLVGGNL 750
SPSDPMKENM LNSREDEPLD LSQPAPASTT TLVREQTPDN PGSDAGALPV 800
TVREFVPTGP ILCHVEHCGT ESGDSSSPLD LSDAQTLDQP LNLSLAAWPV 850
RATASDPGWV HGRREPVFVK PRNAFSDGDS ALQFGELSES SSVIEFDRTK 900
DAPVVDAPVD LTTSNEALSV VDPFEFAELK RPRFSAQALI DRGGPLADVH 950
AKIKNRVYEQ CLQACEPGSR ATPATREWLD KMWDRVDMKT WRCTSQFQAG 1000
RILASLKFLP DMIQDTPPPV PRKNRASDNA GLKQLVAQWD RKLSVTPPPK 1050
PVGPVLDQIV PPPTDIQQED VTPSDGPPHA PDFPSRVSTG GSWKGLMLSG 1100
TRLAGSISQR LMTWVFEVFS HLPAFMLTLF SPRGSMAPGD WLFAGVVLLA 1150
LLLCRSYPIL GCLPLLGVFS GSLRRVRLGV FGSWMAFAVF LFSTPSNPVG 1200
SSCDHDSPEC HAELLALEQR QLWEPVRGLV VGPSGLLCVI LGKLLGGSRY 1250
LWHVLLRLCM LADLALSLVY VVSQGRCHKC WGKCIRTAPA EVALNVFPFS 1300
RATRVSLVSL CDRFQTPKGV DPVHLATGWR GCWRGESPIH QPHQKPIAYA 1350
NLDEKKMSAQ TVVAVPYDPS QAIKCLKVLQ AGGAIVDQPT PEVVRVSEIP 1400
FSAPFFPKVP VNPDCRVVVD SDTFVAAVRC GYSTAQLVLG RGNFAKLNQT 1450
PPRNSISTKT TGGASYTLAV AQVSAWTLVH FILGLWFTSP QVCGRGTADP 1500
WCSNPFSYPT YGPGVVCSSR LCVSADGVTL PLFSAVAQLS GREVGIFILV 1550
LVSLTALAHR MALKADMLVV FSAFCAYAWP MSSWLICFFP ILLKWVTLHP 1600
LTMLWVHSFL VFCLPAAGIL SLGITGLLWA IGRFTQVAGI ITPYDIHQYT 1650
SGPRGAAAVA TAPEGTYMAA VRRAALTGRT LIFTPSAVGS LLEGAFRTHK 1700
PCLNTVNVVG SSLGSGGVFT IDGRRTVVTA AHVLNGDTAR VTGDSYNRMH 1750
TFKTNGDYAW SHADDWQGVA PVVKVAKGYR GRAYWQTSTG VEPGIIGEGF 1800
AFCFTNCGDS GSPVISESGD LIGIHTGSNK LGSGLVTTPE GETCTIKETK 1850
LSDLSRHFAG PSVPLGDIKL SPAIIPDVTS IPSDLASLLA SVPVVEGGLS 1900
TVQLLCVFFL LWRMMGHAWT PIVAVGFFLL NEILPAVLVR AVFSFALFVL 1950
AWATPWSAQV LMIRLLTASL NRNKLSLAFY ALGGVVGLAA EIGTFAGRLS 2000
ELSQALSTYC FLPRVLAMTS CVPTIIIGGL HTLGVILWLF KYRCLHNMLV 2050
GDGSFSSAFF LRYFAEGNLR KGVSQSCGMN NESLTAALAC KLSQADLDFL 2100
SSLTNFKCFV SASNMKNAAG QYIEAAYAKA LRQELASLVQ IDKMKGVLSK 2150
LEAFAETATP SLDIGDVIVL LGQHPHGSIL DINVGTERKT VSVQETRSLG 2200
GSKFSVCTVV SNTPVDALTG IPLQTPTPLF ENGPRHRSEE DDLKVERMKK 2250
HCVSLGFHNI NGKVYCKIWD KSTGDTFYTD DSRYTQDHAF QDRSADYRDR 2300
DYEGVQTTPQ QGFDPKSETP VGTVVIGGIT YNRYLIKGKE VLVPKPDNCL 2350
EAAKLSLEQA LAGMGQTCDL TAAEVEKLKR IISQLQGLTT EQALNCLLAA 2400
SGLTRCGRGG LVVTETAVKI IKYHSRTFTL GPLDLKVTSE VEVKKSTEQG 2450
HAVVANLCSG VILMRPHPPS LVDVLLKPGL DTIPGIQPGH GAGNMGVDGS 2500
IWDFETAPTK AELELSKQII QACEVRRGDA PNLQLPYKLY PVRGDPERHK 2550
GRLINTRFGD LPYKTPQDTK SAIHAACCLH PNGAPVSDGK STLGTTLQHG 2600
FELYVPTVPY SVMEYLDSRP DTPFMCTKHG TSKAAAEDLQ KYDLSTQGFV 2650
LPGVLRLVRR FIFGHIGKAP PLFLPSTYPA KNSMAGINGQ RFPTKDVQSI 2700
PEIDEMCARA VKENWQTVTP CTLKKQYCSK PKTRTILGTN NFIALAHRSA 2750
LSGVTQAFMK KAWKSPIALG KNKFKELHCT VAGRCLEADL ASCDRSTPAI 2800
VRWFVANLLY ELAGCEEYLP SYVLNCCHDL VATQDGAFTK RGGLSSGDPV 2850
TSVSNTVYSL VIYAQHMVLS ALKMGHEIGL KFLEEQLKFE DLLEIQPMLV 2900
YSDDLVLYAE RPTFPNYHWW VEHLDLMLGF RTDPKKTVIT DKPSFLGCRI 2950
EAGRQLVPNR DRILAALAYH MKAQNASEYY ASAAAILMDS CACIDHDPEW 3000
YEDLICGIAR CARQDGYSFP GPAFFMSMWE KLRSHNEGKK FRHCGICDAK 3050
ADYASACGLD LCLFHSHFHQ HCPVTLSCGH HAGSKECSQC QSPVGAGRSP 3100
LDAVLKQIPY KPPRTVIMKV GNKTTALDPG RYQSRRGLVA VKRGIAGNEV 3150
DLSDGDYQVV PLLPTCKDIN MVKVACNVLL SKFIVGPPGS GKTTWLLSQV 3200
QDDDVIYTPT HQTMFDIVSA LKVCRYSIPG ASGLPFPPPA RSGPWVRLIA 3250
SGHVPGRVSY LDEAGYCNHL DILRLLSKTP LVCLGDLQQL HPVGFDSYCY 3300
VFDQMPQKQL TTIYRFGPNI CAAIQPCYRE KLESKARNTR VVFTTRPVAF 3350
GQVLTPYHKD RIGSAITIDS SQGATFDIVT LHLPSPKSLN KSRALVAITR 3400
ARHGLFIYDP HNQLQEFFNL TPERTDCNLV FSRGDELVVL NADNAVTTVA 3450
KALETGPSRF RVSDPRCKSL LAACSASLEG SCMPLPQVAH NLGFYFSPDS 3500
PTFAPLPKEL APHWPVVTHQ NNRAWPDRLV ASMRPIDARY SKPMVGAGYV 3550
VGPSTFLGTP GVVSYYLTLY IRGEPQALPE TLVSTGRIAT DCREYLDAAE 3600
EEAAKELPHA FIGDVKGTTV GGCHHITSKY LPRSLPKDSV AVVGVSSPGR 3650
AAKAVCTLTD VYLPELRPYL QPETASKCWK LKLDFRDVRL MVWKGATAYF 3700
QLEGLTWSAL PDYARFIQLP KDAVVYIDPC IGPATANRKV VRTTDWRADL 3750
AVTPYDYGAQ NILTTAWFED LGPQWKILGL QPFRRAFGFE NTEDWAILAR 3800
RMNDGKDYTD YNWNCVRERP HAIYGRARDH TYHFAPGTEL QVELGKPRLP 3850
PGQVP 3855

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.

Show »
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.

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei2397 – 38551459Missing in isoform Replicase polyprotein 1a.
VSP_032892Add
BLAST

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti3502 – 35021T → V in AAA47101. 1 Publication
Sequence conflicti3740 – 37401V → I in AAA47101. 1 Publication

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...

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 ]
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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: May 14, 2014
This is version 112 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

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