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P0C6X8

- R1AB_CVM2

UniProt

P0C6X8 - R1AB_CVM2

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Protein

Replicase polyprotein 1ab

Gene
rep, 1a-1b
Organism
Murine coronavirus (strain 2) (MHV-2) (Murine hepatitis virus)
Status
Reviewed - Annotation score: 5 out of 5 - Protein inferred from homologyi

Functioni

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 activityi

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).

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei247 – 2482Cleavage; by PL1-PRO By similarity
Sitei832 – 8332Cleavage; by PL1-PRO By similarity
Active sitei1068 – 10681For PL1-PRO activity By similarity
Active sitei1219 – 12191For PL1-PRO activity By similarity
Active sitei1663 – 16631For PL2-PRO activity By similarity
Active sitei1820 – 18201For PL2-PRO activity By similarity
Sitei2783 – 27842Cleavage; by PL2-PRO By similarity
Sitei3279 – 32802Cleavage; by 3CL-PRO By similarity
Active sitei3320 – 33201For 3CL-PRO activity By similarity
Active sitei3424 – 34241For 3CL-PRO activity By similarity
Sitei3582 – 35832Cleavage; by 3CL-PRO By similarity
Sitei3869 – 38702Cleavage; by 3CL-PRO By similarity
Sitei3961 – 39622Cleavage; by 3CL-PRO By similarity
Sitei4155 – 41562Cleavage; by 3CL-PRO By similarity
Sitei4265 – 42662Cleavage; by 3CL-PRO By similarity
Sitei4402 – 44032Cleavage; by 3CL-PRO By similarity
Sitei5330 – 53312Cleavage; by 3CL-PRO By similarity
Sitei5930 – 59312Cleavage; by 3CL-PRO By similarity
Sitei6451 – 64522Cleavage; by 3CL-PRO By similarity
Sitei6825 – 68262Cleavage; by 3CL-PRO By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1145 – 117329C4-type 1Add
BLAST
Zinc fingeri1741 – 177737C4-type 2Add
BLAST
Zinc fingeri4339 – 435517 By similarityAdd
BLAST
Zinc fingeri4381 – 439414 By similarityAdd
BLAST
Nucleotide bindingi5611 – 56188ATP By similarity

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. cysteine-type endopeptidase activity Source: InterPro
  3. endonuclease activity Source: UniProtKB-KW
  4. exoribonuclease activity, producing 5'-phosphomonoesters Source: InterPro
  5. helicase activity Source: UniProtKB-KW
  6. methyltransferase activity Source: InterPro
  7. omega peptidase activity Source: InterPro
  8. RNA binding Source: UniProtKB-KW
  9. RNA-directed RNA polymerase activity Source: UniProtKB-KW
  10. zinc ion binding Source: InterPro

GO - Biological processi

  1. induction by virus of catabolism of host mRNA Source: UniProtKB-KW
  2. induction by virus of host autophagy Source: UniProtKB-KW
  3. modulation by virus of host protein ubiquitination Source: UniProtKB-KW
  4. suppression by virus of host ISG15 activity Source: UniProtKB-KW
  5. suppression by virus of host translation Source: UniProtKB-KW
  6. suppression by virus of host type I interferon-mediated signaling pathway Source: UniProtKB-KW
  7. transcription, DNA-templated Source: InterPro
  8. viral protein processing Source: InterPro
  9. viral RNA genome replication Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Exonuclease, Helicase, Hydrolase, Nuclease, Nucleotidyltransferase, Protease, RNA-directed RNA polymerase, Thiol protease, Transferase

Keywords - Biological processi

Activation 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

Keywords - Ligandi

ATP-binding, Metal-binding, Nucleotide-binding, RNA-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Replicase polyprotein 1ab
Short name:
pp1ab
Alternative name(s):
ORF1ab polyprotein
Cleaved into the following 15 chains:
Non-structural protein 1
Short name:
nsp1
Alternative name(s):
p28
Non-structural protein 2
Short name:
nsp2
Alternative name(s):
p65
Alternative name(s):
PL1-PRO/PL2-PRO
PL1/PL2
Papain-like proteinases 1/2
p210
Non-structural protein 4
Short name:
nsp4
Alternative name(s):
Peptide HD2
p44
3C-like proteinase (EC:3.4.22.-)
Short name:
3CL-PRO
Short name:
3CLp
Alternative name(s):
M-PRO
nsp5
p27
Non-structural protein 6
Short name:
nsp6
Non-structural protein 7
Short name:
nsp7
Alternative name(s):
p10
Non-structural protein 8
Short name:
nsp8
Alternative name(s):
p22
Non-structural protein 9
Short name:
nsp9
Alternative name(s):
p12
Non-structural protein 10
Short name:
nsp10
Alternative name(s):
Growth factor-like peptide
Short name:
GFL
p15
RNA-directed RNA polymerase (EC:2.7.7.48)
Short name:
Pol
Short name:
RdRp
Alternative name(s):
nsp12
p100
Helicase (EC:3.6.4.12, EC:3.6.4.13)
Short name:
Hel
Alternative name(s):
nsp13
p67
Exoribonuclease (EC:3.1.13.-)
Short name:
ExoN
Alternative name(s):
nsp14
Alternative name(s):
NendoU
nsp15
p35
Alternative name(s):
nsp16
Gene namesi
Name:rep
ORF Names:1a-1b
OrganismiMurine coronavirus (strain 2) (MHV-2) (Murine hepatitis virus)
Taxonomic identifieri76344 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageNidoviralesCoronaviridaeCoronavirinaeBetacoronavirus
Virus hostiMus musculus (Mouse) [TaxID: 10090]

Subcellular locationi

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

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei2232 – 225221Helical; Reviewed predictionAdd
BLAST
Transmembranei2260 – 228021Helical; Reviewed predictionAdd
BLAST
Transmembranei2346 – 236621Helical; Reviewed predictionAdd
BLAST
Transmembranei2388 – 240821Helical; Reviewed predictionAdd
BLAST
Transmembranei2789 – 280921Helical; Reviewed predictionAdd
BLAST
Transmembranei2869 – 288921Helical; Reviewed predictionAdd
BLAST
Transmembranei3042 – 306221Helical; Reviewed predictionAdd
BLAST
Transmembranei3064 – 308421Helical; Reviewed predictionAdd
BLAST
Transmembranei3096 – 311621Helical; Reviewed predictionAdd
BLAST
Transmembranei3123 – 314321Helical; Reviewed predictionAdd
BLAST
Transmembranei3148 – 316821Helical; Reviewed predictionAdd
BLAST
Transmembranei3591 – 361121Helical; Reviewed predictionAdd
BLAST
Transmembranei3621 – 364121Helical; Reviewed predictionAdd
BLAST
Transmembranei3647 – 366721Helical; Reviewed predictionAdd
BLAST
Transmembranei3690 – 371021Helical; Reviewed predictionAdd
BLAST
Transmembranei3717 – 373721Helical; Reviewed predictionAdd
BLAST
Transmembranei3744 – 376421Helical; Reviewed predictionAdd
BLAST
Transmembranei3788 – 380821Helical; Reviewed predictionAdd
BLAST

GO - Cellular componenti

  1. host cell endoplasmic reticulum-Golgi intermediate compartment Source: UniProtKB-SubCell
  2. host cell membrane 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, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 247247Non-structural protein 1 By similarityPRO_0000037323Add
BLAST
Chaini248 – 832585Non-structural protein 2 By similarityPRO_0000037324Add
BLAST
Chaini833 – 27831951Non-structural protein 3 By similarityPRO_0000037325Add
BLAST
Chaini2784 – 3279496Non-structural protein 4 By similarityPRO_0000037326Add
BLAST
Chaini3280 – 35823033C-like proteinase By similarityPRO_0000037327Add
BLAST
Chaini3583 – 3869287Non-structural protein 6 By similarityPRO_0000037328Add
BLAST
Chaini3870 – 396192Non-structural protein 7 By similarityPRO_0000037329Add
BLAST
Chaini3962 – 4155194Non-structural protein 8 By similarityPRO_0000037330Add
BLAST
Chaini4156 – 4265110Non-structural protein 9 By similarityPRO_0000037331Add
BLAST
Chaini4266 – 4402137Non-structural protein 10 By similarityPRO_0000037332Add
BLAST
Chaini4403 – 5330928RNA-directed RNA polymerase By similarityPRO_0000037333Add
BLAST
Chaini5331 – 5930600Helicase By similarityPRO_0000037334Add
BLAST
Chaini5931 – 6451521Exoribonuclease By similarityPRO_0000037335Add
BLAST
Chaini6452 – 6825374Uridylate-specific endoribonuclease By similarityPRO_0000037336Add
BLAST
Chaini6826 – 7124299Putative 2'-O-methyl transferase By similarityPRO_0000037337Add
BLAST

Post-translational modificationi

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

Interactioni

Subunit structurei

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.

Structurei

3D structure databases

ProteinModelPortaliP0C6X8.
SMRiP0C6X8. Positions 3997-4147, 4271-4395, 6452-6820.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1031 – 1268238Peptidase C16 1Add
BLAST
Domaini1269 – 1429161MacroAdd
BLAST
Domaini1625 – 1884260Peptidase C16 2Add
BLAST
Domaini3280 – 3582303Peptidase C30Add
BLAST
Domaini5010 – 5172163RdRp catalyticAdd
BLAST
Domaini5331 – 541484CV MBDAdd
BLAST
Domaini5586 – 5767182(+)RNA virus helicase ATP-bindingAdd
BLAST
Domaini5768 – 5937170(+)RNA virus helicase C-terminalAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni2232 – 2408177HD1Add
BLAST
Regioni2789 – 3168380HD2Add
BLAST
Regioni3525 – 3808284HD3Add
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.

Sequence similaritiesi

Contains 1 Macro domain.

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1145 – 117329C4-type 1Add
BLAST
Zinc fingeri1741 – 177737C4-type 2Add
BLAST
Zinc fingeri4339 – 435517 By similarityAdd
BLAST
Zinc fingeri4381 – 439414 By similarityAdd
BLAST

Keywords - Domaini

Repeat, Transmembrane, Transmembrane helix, Zinc-finger

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR027351. (+)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_B_coronavir.
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]
PfamiPF06478. 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]
SMARTiSM00506. A1pp. 1 hit.
[Graphical view]
SUPFAMiSSF101816. SSF101816. 1 hit.
SSF144246. SSF144246. 1 hit.
SSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
SSF53335. SSF53335. 2 hits.
PROSITEiPS51653. 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]

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: P0C6X8-1) [UniParc]FASTAAdd to Basket

Also known as: pp1ab

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

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MAKMGKYGLG FKWAPEFPWM LPNASEKLGS PERSEEDGFC PSAAQEPKTK     50
GKTLINHVRV DCSRLPALEC CVQSAIIRDI FVDEDPLNVE ASTMMALQFG 100
SAVLVKPSKR LSIQAWAKLG VLPKTPAMGL FKRFCLCNTR ECVCDAHVAF 150
QLFTVQPDGV CLGNGRFIGW FVPVTAIPAY AKQWLQPWSI LLRKGGNKGS 200
VTSGHFRRAV TMPVYDFNVE DACEEVHLNP KGKYSRKAYA LLKGYRGVKS 250
ILFLDQYGCD YTGRLAKGLE DYGDCTLEEM KELFPVWCDS LDNEVVVAWH 300
VDRDPRAVMR LQTLATIRSI GYVGQPTEDL VDGDVVVREP AHLLAANAIV 350
KRLPRLVETM LYTDSSVTEF CYKTKLCDCG FITQFGYVDC CGDACDFRGW 400
VPGNMMDGFL CPGCSKSYMP WELEAQSSGV IPKGGVLFTQ STDTVNRESF 450
KLYGHAVVPF GSAVYWSPYP GMWLPVIWSS VKSYADLTYT GVVGCKAIVQ 500
ETDAICRSLY MDYVQHKCGN LEQRAILGLD DVYHRQLLVN RGDYSLLLEN 550
VDLFVKRRAE FACKFATCGD GLVPLLLDGL VPRSYYLIKS GQAFTSMMVN 600
FSHEVTDMCM DMALLFMHDV KVATKYVKKV TGKLAVRFKA LGVAVVRKIT 650
EWFDLAVDTA ASAAGWLCYQ LVNGLFAVAN GGITFLSDVP ELVKNFVDKF 700
KVFFKVLIDS MSVSVLSGLT VVKTASNRVC LAGCKVYEVV QKRLSAYVMP 750
VGCNEATCLV GEIEPAVVED DVVDVVKAPL TYQGCCKPPT SFEKICVVDK 800
LYMAKCGDQF YPVVVDNDTI GVLDQCWRFP CAGKKVEFND KPKVKEIPST 850
RKIKINFALD ATFDSVLSKA CSEFEVDKDV TLDELLDVVL DAVESTLSPC 900
KEHDVIGTKV CALLNRLAED YVYLFDEGGE EVIAPKMYCS FSAPDDEDCV 950
AADVVDADEN QGDDADDSAA LVTDTQEEDG VAKGQVGVAE SDARLDQVEA 1000
FDIEKVEDPI LNELSAELNA PADKTYEDVL AFDAIYSEAL SAFYAVPGDE 1050
THFKVCGFYS PAIERTNCWL RSTLIVMQSL PLEFKDLEMQ KLWLSYKSSY 1100
NKEFVDKLVK SVPKSIILPQ GGYVADFAYF FLSQCSFKAY ANWRCLKCDM 1150
DLKLQGLDAM FFYGDVVSHV CKCGTGMTLL SADIPYTLHF GLRDDKFCAF 1200
YTPRKVFRAA CVVDVNDCHS MAVVDGKQID GKVVTKFNGD KYDFMVGHGM 1250
AFSMSAFEIA QLYGSCITPN VCFVKGDVIK VLRRVGAEVI VNPANGRMAH 1300
GAGVAGAIAK AAGKSFIKET ADMVKNQGVC QVGECYESTG GNLCKTVLNI 1350
VGPDARGHGK QCYSFLERAY QHINKCDDVV TTLISAGIFS VPTDVSLTYL 1400
IGVVTKNVIL VSNNKDDFDV IEKCQVTSIA GTKALSLQLA KNLCRDVKFE 1450
TNACDSLFSD SCFVSSYDVL QEVELLRHDI QLDDDARVFV QAHMDNLPAD 1500
WRLVNKFDSV DGVRTVKYFE CPGEIFVSSQ GKKFGYVQNG SFKVASVSQI 1550
RALLANKVDV LCTVDGVNFR SCCVAEGEVF GKTLGSVFCD GINVTKVRCS 1600
AIHKGKVFFQ YSGLSAADLV AVTDAFGFDE PQLLKYYNML GMCKWPVVVC 1650
GNYFAFKQSN NNCYINVACL MLQHLSLKFH KWQWQEAWNE FRSGKPLRFV 1700
SLVLAKGSFK FNEPSDSTDF MRVVLREADL SGATCDFEFV CKCGVKQEQR 1750
KGVDAVMHFG TLDKGDLAKG YTIACTCGNK LVHCTQLNVP FLICSNKPEG 1800
KKLPDDVVAA NIFTGGSLGH YTHVKCKPKY QLYDACNVSK VSEAKGNFTD 1850
CLYLKNLKQT FSSKLTTFYL DDVKCVEYNP DLSQYYCESG KYYTKPIIKA 1900
QFRTFEKVEG VYTNFKLVGH SIAEKFNAKL GFDCNSPFTE YKITEWPTAT 1950
GDVVLASDDL YVSRYSGGCV TFGKPVIWLG HEEASLKSLT YFNRPSVVCE 2000
NKFNVLPVDV SEPTDKGPVP AAVLVTGALS GAATAPGTAK EQKVCASDSV 2050
VDQVVSGFLS DLSGATVDVK EVKLNGVKKP IKVEDSVVVN DPTSETKVVK 2100
SLSIVDVYDM FLTGCRYVVW MANELSRLVN SPTVREYVKW GMTKIVIPAK 2150
LVLLRDEKQE FVAPKVVKAK VIACYSAVKW FFLYCFSWIK FNTDNKVIYT 2200
TEVASKLTFN LCCLAFKNAL QTFNWNVVSR GFFLVATVFL LWFNFLYANV 2250
ILSDFYLPNI GFFPTFVGQI VAWVKTTFGI FTLCDLYQVS DVGYRSSFCN 2300
GSMVCELCFS GFDMLDNYDA INVVQHVVDR RVSFDYISLF KLVVELVIGY 2350
SLYTVCFYPL FGLIGMQLLT TWLPEFFMLE TMHWSARFFV FVANMLPAFT 2400
LLRFYIVVTA MYKIFCLCRH VMYGCSRPGC LFCYKRNRSV RVKCSTVVGG 2450
TLRYYDVMAN GGTGFCAKHQ WNCLNCSAFG PGNTFITHEA AADLSKELKR 2500
PVNPTDSAYY LVTEVKQVGC SMRLFYERDG QRVYDDVSAS LFVDMNGLLH 2550
SKVKGVPETH VVVVENEADK AGFLNAAVFY AQSLYRPMLL VEKKLITTAN 2600
TGLSVSQTMF DLYVDSLLGV LDVDRKSLTS FVNAAHNSLK EGVQLEQVMD 2650
TFIGCARRKC AIDSDVETKS ITKSIMSAVN AGVDFTDESC NNLVPTYVKS 2700
DTIVAADLGV LIQNNAKHVQ ANVAKAANVA CIWSVDAFNQ LSADLQHRLR 2750
KACSKTGLKI KLTYNKQEAN VPILTTPFSL KGGAVFSKVL QWLFVVNLIC 2800
FIVLWALMPT YAVHKSDMQL PLYASFKVID NGVLRDVTVT DACFANKFIQ 2850
FDQWYESTFG LVYYRNSRAC PVVVAVIDQD IGYTLFNVPT KVLRYGFHVL 2900
HFITHAFATD SVQCYTPHMQ IPYDNFYASG CVLSSLCTML AHADGTPHPY 2950
CYTEGIMHNA SLYDSLAPHV RYNLANSNGY IRFPEVVSEG IVRIVRTRSM 3000
TYCRVGLCED AEEGVCFNFN SSWVLNNPYY RAMPGTFCGR NAFDLIHQVL 3050
GGLVRPIDFF ALTASSVAGA ILAIIVVLAF YYLIKLKRAF GDYTSVVVIN 3100
VIVWCINFLM LFVFQVYPTL SCLYACFYFY TTLYFPSEIS VVMHLQWLVM 3150
YGAIMPLWFC IIYVAVVVSN HALWLFSYCR KLGTEVRSDG TFEEMSLTTF 3200
MITKESYCKL KNSVSDVAFN RYLSLYNKYR YFSGKMDTAA YREAACSQLA 3250
KAMETFNHNN GNDVLYQPPT ASVTTSFLQS GIVKMVFPTS KVEPCVVSVT 3300
YGNMTLNGLW LDDKVYCPRH VICSSADMTD PDYSNLLCRV ISSDFCVMSG 3350
RMSLTVMSYQ MQGSLLVLTV TLQNPNTPKY SFGVVKPGET FTVLAAYNGK 3400
SQGAFHVTMR SSYTIKGSFL CGSCGSVGYV LTGDSVRFVY MHQLELSTGC 3450
HTGTDFSGNF YGPYRDAQVV QLPVQDYTQT VNVVAWLYAA ILNRCNWFVQ 3500
SDSCSLEEFN VWAMTNGFSS IKADLVLDAL ASMTGVTVEQ ILAAIKRLYS 3550
GFQGKQILGS CVLEDELTPS DVYQQLAGVK LQSKRTRVVK GTCCWILAST 3600
LLFCSIISAF VKWTMFMYVT THMLGVTLCA LCFVSFAMLL VKHKHLYLTM 3650
FIMPVLCTLF YTNYLVVYKQ SFRGLAYAWL SHFVPAVDYT YMDEVLYGVV 3700
LLVAMVFVTM RSINHDVFSV MFLVGRLVSL VSMWYFGANL EEEVLLFLTS 3750
LFGTYTWTTM LSLATAKVIA KWLAVNVLYF TDVPQVKLVL LSYLCIGYVC 3800
CCYWGVLSLL NSIFRMPLGV YNYKISVQEL RYMNANGLRP PRNSFEALVL 3850
NFKLLGIGGV PVIEVSQIQS RLTDVKCVNV VLLNCLQHLH IASSSKLWQY 3900
CSTLHNEILA TSDLSVAFDK LAQLLVVLFA NPAAVDSKCL ASIEEVSDDY 3950
VRDSTVLQAL QSEFVNMASF VEYELAKKNL DEAKASGSAN QQQIKQLEKA 4000
CNIAKSAYER DRAVARKLER MADLALTNMY KEARINDKKS KVVSALQTML 4050
FSMIRKLDNQ ALNSILDNAV KGCVPLNAIP SLTSNTLTII VPDKQVFDQV 4100
VDNVYVTYAG NVWHIQSIQD ADGAVKQLNE IDVNITWPLV IAANRHNEVS 4150
SVVLQNNELM PQKLRTQVVN SGSDMNCNTP TQCYYNTTGM GKIVYAILSD 4200
CDGLKYTKIV KEDGNCVVLE LDPPCKFSVQ DVKGLKIKYL YFVKGCNTLA 4250
RGWVVGTLSS TVRLQAGTAT EYASNSAIRS LCAFSVDPKK TYLDYIQQGG 4300
APVTNCVKML CDHAGTGMAI TIKPEATTNQ DSYGGASVCI YCRSRVEHPD 4350
VDGLCKLRGK FVQVPLGIKD PVSYVLTHDV CQVCGFWRDG SCSCVGTGSQ 4400
FQSKDTNFLN RVRGTSVNAR LVPCASGLDT DVQLRAFDIC NANRAGIGLY 4450
YKVNCCRFQR ADEDGNTLDK FFVIKRTNLE VYNKEKECYE LTKECGVVAE 4500
HEFFTFDVEG SRVPHIVRKD LSKYTMLDLC YALRHFDRND CSTLKEILLT 4550
YAECDESYFQ KKDWYDFVEN SDIINVYKKL GPIFNRALLN TAKFADTLVE 4600
AGLVGVLTLD NQDLYGQWYD FGDFVKTVPG CGVAVADSYY SYMMPMLTMC 4650
HALDSELFIN GTYREFDLVQ YDFTDFKLEL FNKYFKYWSM TYHPNTCECE 4700
DDRCIIHCAN FNILFSMVLP KTCFGPLVRQ IFVDGVPFVV SIGYHYKELG 4750
VVMNMDVDTH RYRLSLKDLL LYAADPALHV ASASALLDLR TCCFSVAAIT 4800
SGVKFQTVKP GNFNQDFYEF ILSKGLLKEG SSVDLKHFFF TQDGNAAITD 4850
YNYYKYNLPT MVDIKQLLFV LEVVNKYFEI YDGGCIPATQ VIVNNYDKSA 4900
GYPFNKFGKA RLYYEALSFE EQDEVYAYTK RNVLPTLTQM NLKYAISAKN 4950
RARTVAGVSI LSTMTGRMFH QKCLKSIAAT RGVPVVIGTT KFYGGWDDML 5000
RRLIKDVDSP VLMGWDYPKC DRAMPNILRI ISSLVLARKH DSCCSHTDRF 5050
YRLANECAQV LSEIVMCGGC YYVKPGGTSS GDATTAFANS VFNICQAVSA 5100
NVCSLMACNG HKIEDLSIRE LQKRLYSNVY RADHVDPAFV NEYYEFLNKH 5150
FSMMILSDDG VVCYNSEFAS KGYIANISAF QQVLYYQNNV FMSEAKCWVE 5200
TDIEKGPHEF CSQHTMLVKM DGDEVYLPYP DPSRILGAGC FVDDLLKTDS 5250
VLLIERFVSL AIDAYPLVYH ENPEYQNVFR VYLEYIKKLY NDLGNQILDS 5300
YSVILSTCDG QKFTDETFYK NMYLRSAVMQ SVGACVVCSS QTSLRCGSCI 5350
RKPLLCCKCA YDHVMSTDHK YVLSVSPYVC NSPGCDVNDV TKLYLGGMSY 5400
YCEDHKPQYS FKLVMNGMVF GLYKQSCTGS PYIEDFNKIA SCKWTEVDDY 5450
VLANECTERL KLFAAETQKA TEESFKQCYA SATIREIVSD RELILSWEIG 5500
KVRPPLNKNY VFTGYHFTSN GKTVLGEYVF DKSELTNGVY YRATTTYKLS 5550
VGDVFILTSH AVSSLSAPTL VPQENYTSIR FASVYSVPET FQNNVPNYQH 5600
IGMKRYCTVQ GPPGTGKSHL AIGLAVYYCT ARVVYTAASH AAVDALCEKA 5650
YKFLNINDCT RIVPAKVRVD CYDKFKVNDT TRKYVFTTIN ALPELVTDII 5700
VVDEVSMLTN YELSVINSRV RAKHYVYIGD PAQLPAPRVL LNKGTLEPRY 5750
FNSVTKLMCC LGPDIFLGTC YRCPKEIVDT VSALVYHNKL KAKNDNSSMC 5800
FKVYYKGQTT HESSSAVNMQ QIYLISKFLK ANPSWSNAVF ISPYNSQNYV 5850
AKRVLGLQTQ TVDSAQGSEY DFVIYSQTAE TAHSVNVNRF NVAITRAKKG 5900
ILCVMSSMQL FESLNFSTLT LDKINNPRLQ CTTNLFKDCS RSYAGYHPAH 5950
APSFLAVDDK YKVGGDLAVC LNVADSAVTY SRLISLMGFK LDLTLDGYCK 6000
LFITRDEAIR RVRAWVGFDA EGAHATRDSI GTNFPLQLGF STGIDFVVEA 6050
TGMFAERDGY VFKKAVARAP PGEQFKHLVP LMSRGQKWDV VRIRIVQMLS 6100
DHLVDLADSV VLVTWAASFE LTCLRYFAKV GKEVVCSVCN KRATCFNSRT 6150
GYYGCWRHSY SCDYLYNPLI VDIQQWGYTG SLTSNHDLIC SVHKGAHVAS 6200
SDAIMTRCLA VHDCFCKSVN WSLEYPIISN EVSVNTSCRL LQRVMFRAAM 6250
LCNRYDVCYD IGNPKGLACV KGYDFKFYDA SPVVKSVKQF VYKYEAHKDQ 6300
FLDGLCMFWN CNVDKYPANA VVCRFDTRVL NKLNLPGCNG GSLYVNKHAF 6350
HTSPFTRAAF ENLKPMPFFY YSDTPCVYME GMESKQVDYV PLRSATCITR 6400
CNLGGAVCLK HAEDYREYLE SYNTATTAGF TFWVYKTFDF YNLWNTFTRL 6450
QSLENVVYNL VNAGHFDGRA GELPCAVIGE KVIAKIQNED VVVFKNNTPF 6500
PTNVAVELFA KRSIRPHPEL KLFRNLNIDV CWSHVLWDYA KDSVFCSSTY 6550
KVCKYTDLQC IESLNVLFDG RDNGALEAFK KCRDGVYINT TKIKSLSMIK 6600
GPQRADLNGV VVEKVGDSDV EFWFAMRRDG DDVIFSRTGS LEPSHYRSPQ 6650
GNPGGNRVGD LSGNEALARG TIFTQSRFLS SFAPRSEMEK DFMDLDEDVF 6700
IAKYSLQDYA FEHVVYGSFN QKIIGGLHLL IGLARRQQKS NLVIQEFVPY 6750
DSSIHSYFIT DENSGSSKSV CTVIDLLLDD FVDIVKSLNL NCVSKVVNVN 6800
VDFKDFQFML WCNEEKVMTF YPRLQAAADW KPGYVMPVLY KYLESPLERV 6850
NLWNYGKPIT LPTGCLMNVA KYTQLCQYLN TTTLAVPANM RVLHLGAGSD 6900
KDVAPGSAVL RQWLPAGSIL VDNDINPFVS DSVASYYGNC ITLPIACQWD 6950
LIISDMYDPL TKNIGEYNVS KDGFFTYLCH LIRDKLALGG SVAIKITEFS 7000
WNAELYSLMG KFAFWTIFCT NVNASSSEGF LIGINWLNRT RTEIDGKTMH 7050
ANYLFWRNST MWNGGAYSLF DMSKFPLKVA GTAVVSLKPD QINDLVLSLI 7100
EKGKLLVRDT RKEVFVGDSL VNVK 7124

Note: Produced by -1 ribosomal frameshifting at the 1a-1b genes boundary.

Length:7,124
Mass (Da):797,625
Last modified:June 10, 2008 - v1
Checksum:iC120EF6972F622AF
GO
Isoform Replicase polyprotein 1a (identifier: P0C6U9-1) [UniParc]FASTAAdd to Basket

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.

Length:4,416
Mass (Da):491,187
GO

Sequence cautioni

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.

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF201929 Genomic RNA. Translation: AAF19383.1. Sequence problems.
AF201929 Genomic RNA. Translation: AAF19384.1. Sequence problems.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF201929 Genomic RNA. Translation: AAF19383.1 . Sequence problems.
AF201929 Genomic RNA. Translation: AAF19384.1 . Sequence problems.

3D structure databases

ProteinModelPortali P0C6X8.
SMRi P0C6X8. Positions 3997-4147, 4271-4395, 6452-6820.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Family and domain databases

Gene3Di 3.40.50.300. 2 hits.
InterProi IPR027351. (+)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_B_coronavir.
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 ]
Pfami PF06478. 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 ]
SMARTi SM00506. A1pp. 1 hit.
[Graphical view ]
SUPFAMi SSF101816. SSF101816. 1 hit.
SSF144246. SSF144246. 1 hit.
SSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
SSF53335. SSF53335. 2 hits.
PROSITEi PS51653. 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 ]
ProtoNeti Search...

Publicationsi

  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].

Entry informationi

Entry nameiR1AB_CVM2
AccessioniPrimary (citable) accession number: P0C6X8
Secondary accession number(s): Q9PYA2, Q9PYA3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: June 10, 2008
Last modified: September 3, 2014
This is version 53 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

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

Similar proteinsi