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P0C6X8 (R1AB_CVM2) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 52. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Replicase polyprotein 1ab

Short name=pp1ab
Alternative name(s):
ORF1ab polyprotein

Cleaved into the following 15 chains:

  1. Non-structural protein 1
    Short name=nsp1
    Alternative name(s):
    p28
  2. Non-structural protein 2
    Short name=nsp2
    Alternative name(s):
    p65
  3. Non-structural protein 3
    Short name=nsp3
    EC=3.4.19.12
    EC=3.4.22.69
    Alternative name(s):
    PL1-PRO/PL2-PRO
    PL1/PL2
    Papain-like proteinases 1/2
    p210
  4. Non-structural protein 4
    Short name=nsp4
    Alternative name(s):
    Peptide HD2
    p44
  5. 3C-like proteinase
    Short name=3CL-PRO
    Short name=3CLp
    EC=3.4.22.-
    Alternative name(s):
    M-PRO
    nsp5
    p27
  6. Non-structural protein 6
    Short name=nsp6
  7. Non-structural protein 7
    Short name=nsp7
    Alternative name(s):
    p10
  8. Non-structural protein 8
    Short name=nsp8
    Alternative name(s):
    p22
  9. Non-structural protein 9
    Short name=nsp9
    Alternative name(s):
    p12
  10. Non-structural protein 10
    Short name=nsp10
    Alternative name(s):
    Growth factor-like peptide
    Short name=GFL
    p15
  11. RNA-directed RNA polymerase
    Short name=Pol
    Short name=RdRp
    EC=2.7.7.48
    Alternative name(s):
    nsp12
    p100
  12. Helicase
    Short name=Hel
    EC=3.6.4.12
    EC=3.6.4.13
    Alternative name(s):
    nsp13
    p67
  13. Exoribonuclease
    Short name=ExoN
    EC=3.1.13.-
    Alternative name(s):
    nsp14
  14. Uridylate-specific endoribonuclease
    EC=3.1.-.-
    Alternative name(s):
    NendoU
    nsp15
    p35
  15. Putative 2'-O-methyl transferase
    EC=2.1.1.-
    Alternative name(s):
    nsp16
Gene names
Name:rep
ORF Names:1a-1b
OrganismMurine coronavirus (strain 2) (MHV-2) (Murine hepatitis virus)
Taxonomic identifier76344 [NCBI]
Taxonomic lineageVirusesssRNA positive-strand viruses, no DNA stageNidoviralesCoronaviridaeCoronavirinaeBetacoronavirus
Virus hostMus musculus (Mouse) [TaxID: 10090]

Protein attributes

Sequence length7124 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceInferred from homology

General annotation (Comments)

Function

The replicase polyprotein of coronaviruses 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.

The papain-like proteinase 1 (PL1-PRO) and papain-like proteinase 2 (PL2-PRO) are responsible for the cleavages located at the N-terminus of the replicase polyprotein. In addition, PLP2 possesses a deubiquitinating/deISGylating activity and processes both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains from cellular substrates. Antagonizes innate immune induction of type I interferon by blocking the phosphorylation, dimerization and subsequent nuclear translocation of host IRF-3 By similarity.

The main proteinase 3CL-PRO is responsible for the majority of cleavages as it cleaves the C-terminus of replicase polyprotein at 11 sites. Recognizes substrates containing the core sequence [ILMVF]-Q-|-[SGACN]. Inhibited by the substrate-analog Cbz-Val-Asn-Ser-Thr-Leu-Gln-CMK. Also contains an ADP-ribose-1''-phosphate (ADRP)-binding function By similarity.

The helicase which contains a zinc finger structure displays RNA and DNA duplex-unwinding activities with 5' to 3' polarity. ATPase activity is strongly stimulated by poly(U), poly(dT), poly(C), poly(dA), but not by poly(G) By similarity.

The exoribonuclease acts on both ssRNA and dsRNA in a 3' to 5' direction By similarity.

Nsp7-nsp8 hexadecamer may possibly confer processivity to the polymerase, maybe by binding to dsRNA or by producing primers utilized by the latter By similarity.

Nsp9 is a ssRNA-binding protein By similarity.

NendoU is a Mn2+-dependent, uridylate-specific enzyme, which leaves 2'-3'-cyclic phosphates 5' to the cleaved bond By similarity.

Non-structural protein 1: binds to the 40S ribosomal subunit and inhibits host translation. The nsp1-40S ribosome complex further induces an endonucleolytic cleavage near the 5'UTR of host mRNAs, targeting them for degradation. By suppressing host gene expression, nsp1 facilitates efficient viral gene expression in infected cells and evasion from host immune response By similarity.

Catalytic activity

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).

ATP + H2O = ADP + phosphate.

TSAVLQ-|-SGFRK-NH2 and SGVTFQ-|-GKFKK the two peptides corresponding to the two self-cleavage sites of the SARS 3C-like proteinase are the two most reactive peptide substrates. The enzyme exhibits a strong preference for substrates containing Gln at P1 position and Leu at P2 position.

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).

Subunit structure

3CL-PRO exists as monomer and homodimer. Eight copies of nsp7 and eight copies of nsp8 assemble to form a heterohexadecamer. Nsp9 is a dimer. Nsp10 forms a dodecamer By similarity.

Subcellular location

Non-structural protein 3: Host membrane; Multi-pass membrane protein Potential.

Non-structural protein 4: Host membrane; Multi-pass membrane protein Potential.

Non-structural protein 6: Host membrane; Multi-pass membrane protein Potential.

Non-structural protein 7: Host cytoplasmhost perinuclear region By similarity. Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes By similarity.

Non-structural protein 8: Host cytoplasmhost perinuclear region By similarity. Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes By similarity.

Non-structural protein 9: Host cytoplasmhost perinuclear region By similarity. Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes By similarity.

Non-structural protein 10: Host cytoplasmhost perinuclear region By similarity. Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes By similarity.

Helicase: Host endoplasmic reticulum-Golgi intermediate compartment Potential. Note: The helicase interacts with the N protein in membranous complexes and colocalizes with sites of synthesis of new viral RNA By similarity.

Uridylate-specific endoribonuclease: Host cytoplasmhost perinuclear region By similarity.

Domain

The hydrophobic domains (HD) could mediate the membrane association of the replication complex and thereby alter the architecture of the host cell membrane.

Post-translational modification

Specific enzymatic cleavages in vivo by its own proteases yield mature proteins. 3CL-PRO and PL-PRO proteinases are autocatalytically processed By similarity.

Sequence similarities

Belongs to the coronaviruses polyprotein 1ab family.

Contains 1 (+)RNA virus helicase ATP-binding domain.

Contains 1 (+)RNA virus helicase C-terminal domain.

Contains 1 CV MBD (coronavirus metal-binding) domain.

Contains 1 Macro domain.

Contains 2 peptidase C16 domains.

Contains 1 peptidase C30 domain.

Contains 1 RdRp catalytic domain.

Sequence caution

The sequence AAF19383.1 differs from that shown. Reason: Erroneous gene model prediction.

The sequence AAF19384.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
   Biological processActivation of host autophagy by virus
Decay of host mRNAs by virus
Eukaryotic host gene expression shutoff by virus
Eukaryotic host translation shutoff by virus
Host gene expression shutoff by virus
Host mRNA suppression by virus
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
Modulation of host ubiquitin pathway by viral deubiquitinase
Modulation of host ubiquitin pathway by virus
Ubl conjugation pathway
Viral immunoevasion
Viral RNA replication
   Cellular componentHost cytoplasm
Host membrane
Membrane
   Coding sequence diversityRibosomal frameshifting
   DomainRepeat
Transmembrane
Transmembrane helix
Zinc-finger
   LigandATP-binding
Metal-binding
Nucleotide-binding
RNA-binding
Zinc
   Molecular functionEndonuclease
Exonuclease
Helicase
Hydrolase
Nuclease
Nucleotidyltransferase
Protease
RNA-directed RNA polymerase
Thiol protease
Transferase
Gene Ontology (GO)
   Biological_processinduction by virus of catabolism of host mRNA

Inferred from electronic annotation. Source: UniProtKB-KW

induction by virus of host autophagy

Inferred from electronic annotation. Source: UniProtKB-KW

modulation by virus of host protein ubiquitination

Inferred from electronic annotation. Source: UniProtKB-KW

suppression by virus of host ISG15 activity

Inferred from electronic annotation. Source: UniProtKB-KW

suppression by virus of host translation

Inferred from electronic annotation. Source: UniProtKB-KW

suppression by virus of host type I interferon-mediated signaling pathway

Inferred from electronic annotation. Source: UniProtKB-KW

transcription, DNA-templated

Inferred from electronic annotation. Source: InterPro

viral RNA genome replication

Inferred from electronic annotation. Source: InterPro

viral protein processing

Inferred from electronic annotation. Source: InterPro

   Cellular_componenthost cell endoplasmic reticulum-Golgi intermediate compartment

Inferred from electronic annotation. Source: UniProtKB-SubCell

host cell membrane

Inferred from electronic annotation. Source: UniProtKB-SubCell

host cell perinuclear region of cytoplasm

Inferred from electronic annotation. Source: UniProtKB-SubCell

integral component of membrane

Inferred from electronic annotation. Source: UniProtKB-KW

   Molecular_functionATP binding

Inferred from electronic annotation. Source: UniProtKB-KW

RNA binding

Inferred from electronic annotation. Source: UniProtKB-KW

RNA-directed RNA polymerase activity

Inferred from electronic annotation. Source: UniProtKB-KW

cysteine-type endopeptidase activity

Inferred from electronic annotation. Source: InterPro

endonuclease activity

Inferred from electronic annotation. Source: UniProtKB-KW

exoribonuclease activity, producing 5'-phosphomonoesters

Inferred from electronic annotation. Source: InterPro

helicase activity

Inferred from electronic annotation. Source: UniProtKB-KW

methyltransferase activity

Inferred from electronic annotation. Source: InterPro

omega peptidase activity

Inferred from electronic annotation. Source: InterPro

zinc ion binding

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by ribosomal frameshifting. [Align] [Select]
Isoform Replicase polyprotein 1ab (identifier: P0C6X8-1)

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.
Note: Produced by -1 ribosomal frameshifting at the 1a-1b genes boundary.
Isoform Replicase polyprotein 1a (identifier: P0C6U9-1)

Also known as: pp1a; ORF1a polyprotein;

The sequence of this isoform can be found in the external entry P0C6U9.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Note: Produced by conventional translation.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 247247Non-structural protein 1 By similarity
PRO_0000037323
Chain248 – 832585Non-structural protein 2 By similarity
PRO_0000037324
Chain833 – 27831951Non-structural protein 3 By similarity
PRO_0000037325
Chain2784 – 3279496Non-structural protein 4 By similarity
PRO_0000037326
Chain3280 – 35823033C-like proteinase By similarity
PRO_0000037327
Chain3583 – 3869287Non-structural protein 6 By similarity
PRO_0000037328
Chain3870 – 396192Non-structural protein 7 By similarity
PRO_0000037329
Chain3962 – 4155194Non-structural protein 8 By similarity
PRO_0000037330
Chain4156 – 4265110Non-structural protein 9 By similarity
PRO_0000037331
Chain4266 – 4402137Non-structural protein 10 By similarity
PRO_0000037332
Chain4403 – 5330928RNA-directed RNA polymerase By similarity
PRO_0000037333
Chain5331 – 5930600Helicase By similarity
PRO_0000037334
Chain5931 – 6451521Exoribonuclease By similarity
PRO_0000037335
Chain6452 – 6825374Uridylate-specific endoribonuclease By similarity
PRO_0000037336
Chain6826 – 7124299Putative 2'-O-methyl transferase By similarity
PRO_0000037337

Regions

Transmembrane2232 – 225221Helical; Potential
Transmembrane2260 – 228021Helical; Potential
Transmembrane2346 – 236621Helical; Potential
Transmembrane2388 – 240821Helical; Potential
Transmembrane2789 – 280921Helical; Potential
Transmembrane2869 – 288921Helical; Potential
Transmembrane3042 – 306221Helical; Potential
Transmembrane3064 – 308421Helical; Potential
Transmembrane3096 – 311621Helical; Potential
Transmembrane3123 – 314321Helical; Potential
Transmembrane3148 – 316821Helical; Potential
Transmembrane3591 – 361121Helical; Potential
Transmembrane3621 – 364121Helical; Potential
Transmembrane3647 – 366721Helical; Potential
Transmembrane3690 – 371021Helical; Potential
Transmembrane3717 – 373721Helical; Potential
Transmembrane3744 – 376421Helical; Potential
Transmembrane3788 – 380821Helical; Potential
Domain1031 – 1268238Peptidase C16 1
Domain1269 – 1429161Macro
Domain1625 – 1884260Peptidase C16 2
Domain3280 – 3582303Peptidase C30
Domain5010 – 5172163RdRp catalytic
Domain5331 – 541484CV MBD
Domain5586 – 5767182(+)RNA virus helicase ATP-binding
Domain5768 – 5937170(+)RNA virus helicase C-terminal
Zinc finger1145 – 117329C4-type 1
Zinc finger1741 – 177737C4-type 2
Zinc finger4339 – 435517 By similarity
Zinc finger4381 – 439414 By similarity
Nucleotide binding5611 – 56188ATP By similarity
Region2232 – 2408177HD1
Region2789 – 3168380HD2
Region3525 – 3808284HD3

Sites

Active site10681For PL1-PRO activity By similarity
Active site12191For PL1-PRO activity By similarity
Active site16631For PL2-PRO activity By similarity
Active site18201For PL2-PRO activity By similarity
Active site33201For 3CL-PRO activity By similarity
Active site34241For 3CL-PRO activity By similarity
Site247 – 2482Cleavage; by PL1-PRO By similarity
Site832 – 8332Cleavage; by PL1-PRO By similarity
Site2783 – 27842Cleavage; by PL2-PRO By similarity
Site3279 – 32802Cleavage; by 3CL-PRO By similarity
Site3582 – 35832Cleavage; by 3CL-PRO By similarity
Site3869 – 38702Cleavage; by 3CL-PRO By similarity
Site3961 – 39622Cleavage; by 3CL-PRO By similarity
Site4155 – 41562Cleavage; by 3CL-PRO By similarity
Site4265 – 42662Cleavage; by 3CL-PRO By similarity
Site4402 – 44032Cleavage; by 3CL-PRO By similarity
Site5330 – 53312Cleavage; by 3CL-PRO By similarity
Site5930 – 59312Cleavage; by 3CL-PRO By similarity
Site6451 – 64522Cleavage; by 3CL-PRO By similarity
Site6825 – 68262Cleavage; by 3CL-PRO By similarity

Sequences

Sequence LengthMass (Da)Tools
Isoform Replicase polyprotein 1ab (pp1ab) [UniParc].

Last modified June 10, 2008. Version 1.
Checksum: C120EF6972F622AF

FASTA7,124797,625
        10         20         30         40         50         60 
MAKMGKYGLG FKWAPEFPWM LPNASEKLGS PERSEEDGFC PSAAQEPKTK GKTLINHVRV 

        70         80         90        100        110        120 
DCSRLPALEC CVQSAIIRDI FVDEDPLNVE ASTMMALQFG SAVLVKPSKR LSIQAWAKLG 

       130        140        150        160        170        180 
VLPKTPAMGL FKRFCLCNTR ECVCDAHVAF QLFTVQPDGV CLGNGRFIGW FVPVTAIPAY 

       190        200        210        220        230        240 
AKQWLQPWSI LLRKGGNKGS VTSGHFRRAV TMPVYDFNVE DACEEVHLNP KGKYSRKAYA 

       250        260        270        280        290        300 
LLKGYRGVKS ILFLDQYGCD YTGRLAKGLE DYGDCTLEEM KELFPVWCDS LDNEVVVAWH 

       310        320        330        340        350        360 
VDRDPRAVMR LQTLATIRSI GYVGQPTEDL VDGDVVVREP AHLLAANAIV KRLPRLVETM 

       370        380        390        400        410        420 
LYTDSSVTEF CYKTKLCDCG FITQFGYVDC CGDACDFRGW VPGNMMDGFL CPGCSKSYMP 

       430        440        450        460        470        480 
WELEAQSSGV IPKGGVLFTQ STDTVNRESF KLYGHAVVPF GSAVYWSPYP GMWLPVIWSS 

       490        500        510        520        530        540 
VKSYADLTYT GVVGCKAIVQ ETDAICRSLY MDYVQHKCGN LEQRAILGLD DVYHRQLLVN 

       550        560        570        580        590        600 
RGDYSLLLEN VDLFVKRRAE FACKFATCGD GLVPLLLDGL VPRSYYLIKS GQAFTSMMVN 

       610        620        630        640        650        660 
FSHEVTDMCM DMALLFMHDV KVATKYVKKV TGKLAVRFKA LGVAVVRKIT EWFDLAVDTA 

       670        680        690        700        710        720 
ASAAGWLCYQ LVNGLFAVAN GGITFLSDVP ELVKNFVDKF KVFFKVLIDS MSVSVLSGLT 

       730        740        750        760        770        780 
VVKTASNRVC LAGCKVYEVV QKRLSAYVMP VGCNEATCLV GEIEPAVVED DVVDVVKAPL 

       790        800        810        820        830        840 
TYQGCCKPPT SFEKICVVDK LYMAKCGDQF YPVVVDNDTI GVLDQCWRFP CAGKKVEFND 

       850        860        870        880        890        900 
KPKVKEIPST RKIKINFALD ATFDSVLSKA CSEFEVDKDV TLDELLDVVL DAVESTLSPC 

       910        920        930        940        950        960 
KEHDVIGTKV CALLNRLAED YVYLFDEGGE EVIAPKMYCS FSAPDDEDCV AADVVDADEN 

       970        980        990       1000       1010       1020 
QGDDADDSAA LVTDTQEEDG VAKGQVGVAE SDARLDQVEA FDIEKVEDPI LNELSAELNA 

      1030       1040       1050       1060       1070       1080 
PADKTYEDVL AFDAIYSEAL SAFYAVPGDE THFKVCGFYS PAIERTNCWL RSTLIVMQSL 

      1090       1100       1110       1120       1130       1140 
PLEFKDLEMQ KLWLSYKSSY NKEFVDKLVK SVPKSIILPQ GGYVADFAYF FLSQCSFKAY 

      1150       1160       1170       1180       1190       1200 
ANWRCLKCDM DLKLQGLDAM FFYGDVVSHV CKCGTGMTLL SADIPYTLHF GLRDDKFCAF 

      1210       1220       1230       1240       1250       1260 
YTPRKVFRAA CVVDVNDCHS MAVVDGKQID GKVVTKFNGD KYDFMVGHGM AFSMSAFEIA 

      1270       1280       1290       1300       1310       1320 
QLYGSCITPN VCFVKGDVIK VLRRVGAEVI VNPANGRMAH GAGVAGAIAK AAGKSFIKET 

      1330       1340       1350       1360       1370       1380 
ADMVKNQGVC QVGECYESTG GNLCKTVLNI VGPDARGHGK QCYSFLERAY QHINKCDDVV 

      1390       1400       1410       1420       1430       1440 
TTLISAGIFS VPTDVSLTYL IGVVTKNVIL VSNNKDDFDV IEKCQVTSIA GTKALSLQLA 

      1450       1460       1470       1480       1490       1500 
KNLCRDVKFE TNACDSLFSD SCFVSSYDVL QEVELLRHDI QLDDDARVFV QAHMDNLPAD 

      1510       1520       1530       1540       1550       1560 
WRLVNKFDSV DGVRTVKYFE CPGEIFVSSQ GKKFGYVQNG SFKVASVSQI RALLANKVDV 

      1570       1580       1590       1600       1610       1620 
LCTVDGVNFR SCCVAEGEVF GKTLGSVFCD GINVTKVRCS AIHKGKVFFQ YSGLSAADLV 

      1630       1640       1650       1660       1670       1680 
AVTDAFGFDE PQLLKYYNML GMCKWPVVVC GNYFAFKQSN NNCYINVACL MLQHLSLKFH 

      1690       1700       1710       1720       1730       1740 
KWQWQEAWNE FRSGKPLRFV SLVLAKGSFK FNEPSDSTDF MRVVLREADL SGATCDFEFV 

      1750       1760       1770       1780       1790       1800 
CKCGVKQEQR KGVDAVMHFG TLDKGDLAKG YTIACTCGNK LVHCTQLNVP FLICSNKPEG 

      1810       1820       1830       1840       1850       1860 
KKLPDDVVAA NIFTGGSLGH YTHVKCKPKY QLYDACNVSK VSEAKGNFTD CLYLKNLKQT 

      1870       1880       1890       1900       1910       1920 
FSSKLTTFYL DDVKCVEYNP DLSQYYCESG KYYTKPIIKA QFRTFEKVEG VYTNFKLVGH 

      1930       1940       1950       1960       1970       1980 
SIAEKFNAKL GFDCNSPFTE YKITEWPTAT GDVVLASDDL YVSRYSGGCV TFGKPVIWLG 

      1990       2000       2010       2020       2030       2040 
HEEASLKSLT YFNRPSVVCE NKFNVLPVDV SEPTDKGPVP AAVLVTGALS GAATAPGTAK 

      2050       2060       2070       2080       2090       2100 
EQKVCASDSV VDQVVSGFLS DLSGATVDVK EVKLNGVKKP IKVEDSVVVN DPTSETKVVK 

      2110       2120       2130       2140       2150       2160 
SLSIVDVYDM FLTGCRYVVW MANELSRLVN SPTVREYVKW GMTKIVIPAK LVLLRDEKQE 

      2170       2180       2190       2200       2210       2220 
FVAPKVVKAK VIACYSAVKW FFLYCFSWIK FNTDNKVIYT TEVASKLTFN LCCLAFKNAL 

      2230       2240       2250       2260       2270       2280 
QTFNWNVVSR GFFLVATVFL LWFNFLYANV ILSDFYLPNI GFFPTFVGQI VAWVKTTFGI 

      2290       2300       2310       2320       2330       2340 
FTLCDLYQVS DVGYRSSFCN GSMVCELCFS GFDMLDNYDA INVVQHVVDR RVSFDYISLF 

      2350       2360       2370       2380       2390       2400 
KLVVELVIGY SLYTVCFYPL FGLIGMQLLT TWLPEFFMLE TMHWSARFFV FVANMLPAFT 

      2410       2420       2430       2440       2450       2460 
LLRFYIVVTA MYKIFCLCRH VMYGCSRPGC LFCYKRNRSV RVKCSTVVGG TLRYYDVMAN 

      2470       2480       2490       2500       2510       2520 
GGTGFCAKHQ WNCLNCSAFG PGNTFITHEA AADLSKELKR PVNPTDSAYY LVTEVKQVGC 

      2530       2540       2550       2560       2570       2580 
SMRLFYERDG QRVYDDVSAS LFVDMNGLLH SKVKGVPETH VVVVENEADK AGFLNAAVFY 

      2590       2600       2610       2620       2630       2640 
AQSLYRPMLL VEKKLITTAN TGLSVSQTMF DLYVDSLLGV LDVDRKSLTS FVNAAHNSLK 

      2650       2660       2670       2680       2690       2700 
EGVQLEQVMD TFIGCARRKC AIDSDVETKS ITKSIMSAVN AGVDFTDESC NNLVPTYVKS 

      2710       2720       2730       2740       2750       2760 
DTIVAADLGV LIQNNAKHVQ ANVAKAANVA CIWSVDAFNQ LSADLQHRLR KACSKTGLKI 

      2770       2780       2790       2800       2810       2820 
KLTYNKQEAN VPILTTPFSL KGGAVFSKVL QWLFVVNLIC FIVLWALMPT YAVHKSDMQL 

      2830       2840       2850       2860       2870       2880 
PLYASFKVID NGVLRDVTVT DACFANKFIQ FDQWYESTFG LVYYRNSRAC PVVVAVIDQD 

      2890       2900       2910       2920       2930       2940 
IGYTLFNVPT KVLRYGFHVL HFITHAFATD SVQCYTPHMQ IPYDNFYASG CVLSSLCTML 

      2950       2960       2970       2980       2990       3000 
AHADGTPHPY CYTEGIMHNA SLYDSLAPHV RYNLANSNGY IRFPEVVSEG IVRIVRTRSM 

      3010       3020       3030       3040       3050       3060 
TYCRVGLCED AEEGVCFNFN SSWVLNNPYY RAMPGTFCGR NAFDLIHQVL GGLVRPIDFF 

      3070       3080       3090       3100       3110       3120 
ALTASSVAGA ILAIIVVLAF YYLIKLKRAF GDYTSVVVIN VIVWCINFLM LFVFQVYPTL 

      3130       3140       3150       3160       3170       3180 
SCLYACFYFY TTLYFPSEIS VVMHLQWLVM YGAIMPLWFC IIYVAVVVSN HALWLFSYCR 

      3190       3200       3210       3220       3230       3240 
KLGTEVRSDG TFEEMSLTTF MITKESYCKL KNSVSDVAFN RYLSLYNKYR YFSGKMDTAA 

      3250       3260       3270       3280       3290       3300 
YREAACSQLA KAMETFNHNN GNDVLYQPPT ASVTTSFLQS GIVKMVFPTS KVEPCVVSVT 

      3310       3320       3330       3340       3350       3360 
YGNMTLNGLW LDDKVYCPRH VICSSADMTD PDYSNLLCRV ISSDFCVMSG RMSLTVMSYQ 

      3370       3380       3390       3400       3410       3420 
MQGSLLVLTV TLQNPNTPKY SFGVVKPGET FTVLAAYNGK SQGAFHVTMR SSYTIKGSFL 

      3430       3440       3450       3460       3470       3480 
CGSCGSVGYV LTGDSVRFVY MHQLELSTGC HTGTDFSGNF YGPYRDAQVV QLPVQDYTQT 

      3490       3500       3510       3520       3530       3540 
VNVVAWLYAA ILNRCNWFVQ SDSCSLEEFN VWAMTNGFSS IKADLVLDAL ASMTGVTVEQ 

      3550       3560       3570       3580       3590       3600 
ILAAIKRLYS GFQGKQILGS CVLEDELTPS DVYQQLAGVK LQSKRTRVVK GTCCWILAST 

      3610       3620       3630       3640       3650       3660 
LLFCSIISAF VKWTMFMYVT THMLGVTLCA LCFVSFAMLL VKHKHLYLTM FIMPVLCTLF 

      3670       3680       3690       3700       3710       3720 
YTNYLVVYKQ SFRGLAYAWL SHFVPAVDYT YMDEVLYGVV LLVAMVFVTM RSINHDVFSV 

      3730       3740       3750       3760       3770       3780 
MFLVGRLVSL VSMWYFGANL EEEVLLFLTS LFGTYTWTTM LSLATAKVIA KWLAVNVLYF 

      3790       3800       3810       3820       3830       3840 
TDVPQVKLVL LSYLCIGYVC CCYWGVLSLL NSIFRMPLGV YNYKISVQEL RYMNANGLRP 

      3850       3860       3870       3880       3890       3900 
PRNSFEALVL NFKLLGIGGV PVIEVSQIQS RLTDVKCVNV VLLNCLQHLH IASSSKLWQY 

      3910       3920       3930       3940       3950       3960 
CSTLHNEILA TSDLSVAFDK LAQLLVVLFA NPAAVDSKCL ASIEEVSDDY VRDSTVLQAL 

      3970       3980       3990       4000       4010       4020 
QSEFVNMASF VEYELAKKNL DEAKASGSAN QQQIKQLEKA CNIAKSAYER DRAVARKLER 

      4030       4040       4050       4060       4070       4080 
MADLALTNMY KEARINDKKS KVVSALQTML FSMIRKLDNQ ALNSILDNAV KGCVPLNAIP 

      4090       4100       4110       4120       4130       4140 
SLTSNTLTII VPDKQVFDQV VDNVYVTYAG NVWHIQSIQD ADGAVKQLNE IDVNITWPLV 

      4150       4160       4170       4180       4190       4200 
IAANRHNEVS SVVLQNNELM PQKLRTQVVN SGSDMNCNTP TQCYYNTTGM GKIVYAILSD 

      4210       4220       4230       4240       4250       4260 
CDGLKYTKIV KEDGNCVVLE LDPPCKFSVQ DVKGLKIKYL YFVKGCNTLA RGWVVGTLSS 

      4270       4280       4290       4300       4310       4320 
TVRLQAGTAT EYASNSAIRS LCAFSVDPKK TYLDYIQQGG APVTNCVKML CDHAGTGMAI 

      4330       4340       4350       4360       4370       4380 
TIKPEATTNQ DSYGGASVCI YCRSRVEHPD VDGLCKLRGK FVQVPLGIKD PVSYVLTHDV 

      4390       4400       4410       4420       4430       4440 
CQVCGFWRDG SCSCVGTGSQ FQSKDTNFLN RVRGTSVNAR LVPCASGLDT DVQLRAFDIC 

      4450       4460       4470       4480       4490       4500 
NANRAGIGLY YKVNCCRFQR ADEDGNTLDK FFVIKRTNLE VYNKEKECYE LTKECGVVAE 

      4510       4520       4530       4540       4550       4560 
HEFFTFDVEG SRVPHIVRKD LSKYTMLDLC YALRHFDRND CSTLKEILLT YAECDESYFQ 

      4570       4580       4590       4600       4610       4620 
KKDWYDFVEN SDIINVYKKL GPIFNRALLN TAKFADTLVE AGLVGVLTLD NQDLYGQWYD 

      4630       4640       4650       4660       4670       4680 
FGDFVKTVPG CGVAVADSYY SYMMPMLTMC HALDSELFIN GTYREFDLVQ YDFTDFKLEL 

      4690       4700       4710       4720       4730       4740 
FNKYFKYWSM TYHPNTCECE DDRCIIHCAN FNILFSMVLP KTCFGPLVRQ IFVDGVPFVV 

      4750       4760       4770       4780       4790       4800 
SIGYHYKELG VVMNMDVDTH RYRLSLKDLL LYAADPALHV ASASALLDLR TCCFSVAAIT 

      4810       4820       4830       4840       4850       4860 
SGVKFQTVKP GNFNQDFYEF ILSKGLLKEG SSVDLKHFFF TQDGNAAITD YNYYKYNLPT 

      4870       4880       4890       4900       4910       4920 
MVDIKQLLFV LEVVNKYFEI YDGGCIPATQ VIVNNYDKSA GYPFNKFGKA RLYYEALSFE 

      4930       4940       4950       4960       4970       4980 
EQDEVYAYTK RNVLPTLTQM NLKYAISAKN RARTVAGVSI LSTMTGRMFH QKCLKSIAAT 

      4990       5000       5010       5020       5030       5040 
RGVPVVIGTT KFYGGWDDML RRLIKDVDSP VLMGWDYPKC DRAMPNILRI ISSLVLARKH 

      5050       5060       5070       5080       5090       5100 
DSCCSHTDRF YRLANECAQV LSEIVMCGGC YYVKPGGTSS GDATTAFANS VFNICQAVSA 

      5110       5120       5130       5140       5150       5160 
NVCSLMACNG HKIEDLSIRE LQKRLYSNVY RADHVDPAFV NEYYEFLNKH FSMMILSDDG 

      5170       5180       5190       5200       5210       5220 
VVCYNSEFAS KGYIANISAF QQVLYYQNNV FMSEAKCWVE TDIEKGPHEF CSQHTMLVKM 

      5230       5240       5250       5260       5270       5280 
DGDEVYLPYP DPSRILGAGC FVDDLLKTDS VLLIERFVSL AIDAYPLVYH ENPEYQNVFR 

      5290       5300       5310       5320       5330       5340 
VYLEYIKKLY NDLGNQILDS YSVILSTCDG QKFTDETFYK NMYLRSAVMQ SVGACVVCSS 

      5350       5360       5370       5380       5390       5400 
QTSLRCGSCI RKPLLCCKCA YDHVMSTDHK YVLSVSPYVC NSPGCDVNDV TKLYLGGMSY 

      5410       5420       5430       5440       5450       5460 
YCEDHKPQYS FKLVMNGMVF GLYKQSCTGS PYIEDFNKIA SCKWTEVDDY VLANECTERL 

      5470       5480       5490       5500       5510       5520 
KLFAAETQKA TEESFKQCYA SATIREIVSD RELILSWEIG KVRPPLNKNY VFTGYHFTSN 

      5530       5540       5550       5560       5570       5580 
GKTVLGEYVF DKSELTNGVY YRATTTYKLS VGDVFILTSH AVSSLSAPTL VPQENYTSIR 

      5590       5600       5610       5620       5630       5640 
FASVYSVPET FQNNVPNYQH IGMKRYCTVQ GPPGTGKSHL AIGLAVYYCT ARVVYTAASH 

      5650       5660       5670       5680       5690       5700 
AAVDALCEKA YKFLNINDCT RIVPAKVRVD CYDKFKVNDT TRKYVFTTIN ALPELVTDII 

      5710       5720       5730       5740       5750       5760 
VVDEVSMLTN YELSVINSRV RAKHYVYIGD PAQLPAPRVL LNKGTLEPRY FNSVTKLMCC 

      5770       5780       5790       5800       5810       5820 
LGPDIFLGTC YRCPKEIVDT VSALVYHNKL KAKNDNSSMC FKVYYKGQTT HESSSAVNMQ 

      5830       5840       5850       5860       5870       5880 
QIYLISKFLK ANPSWSNAVF ISPYNSQNYV AKRVLGLQTQ TVDSAQGSEY DFVIYSQTAE 

      5890       5900       5910       5920       5930       5940 
TAHSVNVNRF NVAITRAKKG ILCVMSSMQL FESLNFSTLT LDKINNPRLQ CTTNLFKDCS 

      5950       5960       5970       5980       5990       6000 
RSYAGYHPAH APSFLAVDDK YKVGGDLAVC LNVADSAVTY SRLISLMGFK LDLTLDGYCK 

      6010       6020       6030       6040       6050       6060 
LFITRDEAIR RVRAWVGFDA EGAHATRDSI GTNFPLQLGF STGIDFVVEA TGMFAERDGY 

      6070       6080       6090       6100       6110       6120 
VFKKAVARAP PGEQFKHLVP LMSRGQKWDV VRIRIVQMLS DHLVDLADSV VLVTWAASFE 

      6130       6140       6150       6160       6170       6180 
LTCLRYFAKV GKEVVCSVCN KRATCFNSRT GYYGCWRHSY SCDYLYNPLI VDIQQWGYTG 

      6190       6200       6210       6220       6230       6240 
SLTSNHDLIC SVHKGAHVAS SDAIMTRCLA VHDCFCKSVN WSLEYPIISN EVSVNTSCRL 

      6250       6260       6270       6280       6290       6300 
LQRVMFRAAM LCNRYDVCYD IGNPKGLACV KGYDFKFYDA SPVVKSVKQF VYKYEAHKDQ 

      6310       6320       6330       6340       6350       6360 
FLDGLCMFWN CNVDKYPANA VVCRFDTRVL NKLNLPGCNG GSLYVNKHAF HTSPFTRAAF 

      6370       6380       6390       6400       6410       6420 
ENLKPMPFFY YSDTPCVYME GMESKQVDYV PLRSATCITR CNLGGAVCLK HAEDYREYLE 

      6430       6440       6450       6460       6470       6480 
SYNTATTAGF TFWVYKTFDF YNLWNTFTRL QSLENVVYNL VNAGHFDGRA GELPCAVIGE 

      6490       6500       6510       6520       6530       6540 
KVIAKIQNED VVVFKNNTPF PTNVAVELFA KRSIRPHPEL KLFRNLNIDV CWSHVLWDYA 

      6550       6560       6570       6580       6590       6600 
KDSVFCSSTY KVCKYTDLQC IESLNVLFDG RDNGALEAFK KCRDGVYINT TKIKSLSMIK 

      6610       6620       6630       6640       6650       6660 
GPQRADLNGV VVEKVGDSDV EFWFAMRRDG DDVIFSRTGS LEPSHYRSPQ GNPGGNRVGD 

      6670       6680       6690       6700       6710       6720 
LSGNEALARG TIFTQSRFLS SFAPRSEMEK DFMDLDEDVF IAKYSLQDYA FEHVVYGSFN 

      6730       6740       6750       6760       6770       6780 
QKIIGGLHLL IGLARRQQKS NLVIQEFVPY DSSIHSYFIT DENSGSSKSV CTVIDLLLDD 

      6790       6800       6810       6820       6830       6840 
FVDIVKSLNL NCVSKVVNVN VDFKDFQFML WCNEEKVMTF YPRLQAAADW KPGYVMPVLY 

      6850       6860       6870       6880       6890       6900 
KYLESPLERV NLWNYGKPIT LPTGCLMNVA KYTQLCQYLN TTTLAVPANM RVLHLGAGSD 

      6910       6920       6930       6940       6950       6960 
KDVAPGSAVL RQWLPAGSIL VDNDINPFVS DSVASYYGNC ITLPIACQWD LIISDMYDPL 

      6970       6980       6990       7000       7010       7020 
TKNIGEYNVS KDGFFTYLCH LIRDKLALGG SVAIKITEFS WNAELYSLMG KFAFWTIFCT 

      7030       7040       7050       7060       7070       7080 
NVNASSSEGF LIGINWLNRT RTEIDGKTMH ANYLFWRNST MWNGGAYSLF DMSKFPLKVA 

      7090       7100       7110       7120 
GTAVVSLKPD QINDLVLSLI EKGKLLVRDT RKEVFVGDSL VNVK 

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Isoform Replicase polyprotein 1a (pp1a) (ORF1a polyprotein) [UniParc].

See P0C6U9.

References

[1]"Pathogenesis and sequence analysis of mouse hepatitis virus type 2: an experimental model system of acute meningitis and hepatitis in mice."
Das Sarma J., Hingley S.T., Lai M.M.C., Weiss S.R., Lavi E.
Submitted (NOV-1999) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
[2]"Mouse hepatitis virus strain A59 RNA polymerase gene ORF 1a: heterogeneity among MHV strains."
Bonilla P.J., Gorbalenya A.E., Weiss S.R.
Virology 198:736-740(1994) [PubMed] [Europe PMC] [Abstract]
Cited for: PARTIAL NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF201929 Genomic RNA. Translation: AAF19383.1. Sequence problems.
AF201929 Genomic RNA. Translation: AAF19384.1. Sequence problems.

3D structure databases

ProteinModelPortalP0C6X8.
SMRP0C6X8. Positions 3997-4147, 4271-4395, 6452-6820.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Family and domain databases

Gene3D3.40.50.300. 2 hits.
InterProIPR027351. (+)RNA_virus_helicase_core_dom.
IPR022570. Coronavirus_NSP1.
IPR009461. Coronavirus_NSP16.
IPR027352. CV_MBD_dom.
IPR002589. Macro_dom.
IPR009466. NSP11.
IPR014828. NSP7.
IPR014829. NSP8.
IPR014822. NSP9.
IPR027417. P-loop_NTPase.
IPR002705. Pept_C30/C16_sub.
IPR008740. Peptidase_C30.
IPR013016. Peptidase_C30/C16.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
IPR009469. RNA_pol_N_coronovir.
IPR018995. RNA_synth_NSP10_coronavirus.
IPR029063. SAM-dependent_MTases-like.
IPR009003. Trypsin-like_Pept_dom.
IPR014827. Viral_protease.
[Graphical view]
PfamPF06478. Corona_RPol_N. 1 hit.
PF11963. DUF3477. 1 hit.
PF01661. Macro. 1 hit.
PF09401. NSP10. 1 hit.
PF06471. NSP11. 1 hit.
PF06460. NSP13. 1 hit.
PF08716. nsp7. 1 hit.
PF08717. nsp8. 1 hit.
PF08710. nsp9. 1 hit.
PF01831. Peptidase_C16. 1 hit.
PF05409. Peptidase_C30. 1 hit.
PF00680. RdRP_1. 1 hit.
PF08715. Viral_protease. 1 hit.
[Graphical view]
SMARTSM00506. A1pp. 1 hit.
[Graphical view]
SUPFAMSSF101816. SSF101816. 1 hit.
SSF144246. SSF144246. 1 hit.
SSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
SSF53335. SSF53335. 2 hits.
PROSITEPS51653. CV_MBD. 1 hit.
PS51442. M_PRO. 1 hit.
PS51154. MACRO. 1 hit.
PS51124. PEPTIDASE_C16. 2 hits.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameR1AB_CVM2
AccessionPrimary (citable) accession number: P0C6X8
Secondary accession number(s): Q9PYA2, Q9PYA3
Entry history
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: June 10, 2008
Last modified: July 9, 2014
This is version 52 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Peptidase families

Classification of peptidase families and list of entries