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P0C6W9

- R1AB_CVBM

UniProt

P0C6W9 - R1AB_CVBM

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Protein

Replicase polyprotein 1ab

Gene
rep, 1a-1b
Organism
Bovine coronavirus (strain Mebus) (BCoV) (BCV)
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
Sitei246 – 2472Cleavage; by PL1-PRO By similarity
Sitei851 – 8522Cleavage; by PL1-PRO By similarity
Active sitei1074 – 10741For PL1-PRO activity By similarity
Active sitei1225 – 12251For PL1-PRO activity By similarity
Active sitei1671 – 16711For PL2-PRO activity By similarity
Active sitei1828 – 18281For PL2-PRO activity By similarity
Sitei2750 – 27512Cleavage; by PL2-PRO By similarity
Sitei3246 – 32472Cleavage; by 3CL-PRO By similarity
Active sitei3287 – 32871For 3CL-PRO activity By similarity
Active sitei3391 – 33911For 3CL-PRO activity By similarity
Sitei3549 – 35502Cleavage; by 3CL-PRO By similarity
Sitei3836 – 38372Cleavage; by 3CL-PRO By similarity
Sitei3925 – 39262Cleavage; by 3CL-PRO By similarity
Sitei4122 – 41232Cleavage; by 3CL-PRO By similarity
Sitei4232 – 42332Cleavage; by 3CL-PRO By similarity
Sitei4369 – 43702Cleavage; by 3CL-PRO By similarity
Sitei5297 – 52982Cleavage; by 3CL-PRO By similarity
Sitei5900 – 59012Cleavage; by 3CL-PRO By similarity
Sitei6421 – 64222Cleavage; by 3CL-PRO By similarity
Sitei6795 – 67962Cleavage; by 3CL-PRO By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1151 – 117929C4-type 1Add
BLAST
Zinc fingeri1749 – 178537C4-type 2Add
BLAST
Zinc fingeri4306 – 432217 By similarityAdd
BLAST
Zinc fingeri4348 – 436114 By similarityAdd
BLAST
Nucleotide bindingi5578 – 55858ATP 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
OrganismiBovine coronavirus (strain Mebus) (BCoV) (BCV)
Taxonomic identifieri11132 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageNidoviralesCoronaviridaeCoronavirinaeBetacoronavirus
Virus hostiBos taurus (Bovine) [TaxID: 9913]
ProteomesiUP000007554: Genome

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
Transmembranei2138 – 215821Helical; Reviewed predictionAdd
BLAST
Transmembranei2199 – 221921Helical; Reviewed predictionAdd
BLAST
Transmembranei2221 – 224121Helical; Reviewed predictionAdd
BLAST
Transmembranei2313 – 233321Helical; Reviewed predictionAdd
BLAST
Transmembranei2343 – 236321Helical; Reviewed predictionAdd
BLAST
Transmembranei2365 – 238521Helical; Reviewed predictionAdd
BLAST
Transmembranei2752 – 277221Helical; Reviewed predictionAdd
BLAST
Transmembranei3031 – 305121Helical; Reviewed predictionAdd
BLAST
Transmembranei3063 – 308321Helical; Reviewed predictionAdd
BLAST
Transmembranei3090 – 311021Helical; Reviewed predictionAdd
BLAST
Transmembranei3115 – 313521Helical; Reviewed predictionAdd
BLAST
Transmembranei3558 – 357821Helical; Reviewed predictionAdd
BLAST
Transmembranei3588 – 360821Helical; Reviewed predictionAdd
BLAST
Transmembranei3615 – 363521Helical; Reviewed predictionAdd
BLAST
Transmembranei3657 – 367721Helical; Reviewed predictionAdd
BLAST
Transmembranei3684 – 370421Helical; Reviewed predictionAdd
BLAST
Transmembranei3711 – 373121Helical; Reviewed predictionAdd
BLAST
Transmembranei3755 – 377521Helical; 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 – 246246Non-structural protein 1 By similarityPRO_0000037259Add
BLAST
Chaini247 – 851605Non-structural protein 2 By similarityPRO_0000037260Add
BLAST
Chaini852 – 27501899Non-structural protein 3 By similarityPRO_0000037261Add
BLAST
Chaini2751 – 3246496Non-structural protein 4 By similarityPRO_0000037262Add
BLAST
Chaini3247 – 35493033C-like proteinase By similarityPRO_0000037263Add
BLAST
Chaini3550 – 3836287Non-structural protein 6 By similarityPRO_0000037264Add
BLAST
Chaini3837 – 392589Non-structural protein 7 By similarityPRO_0000037265Add
BLAST
Chaini3926 – 4122197Non-structural protein 8 By similarityPRO_0000037266Add
BLAST
Chaini4123 – 4232110Non-structural protein 9 By similarityPRO_0000037267Add
BLAST
Chaini4233 – 4369137Non-structural protein 10 By similarityPRO_0000037268Add
BLAST
Chaini4370 – 5297928RNA-directed RNA polymerase By similarityPRO_0000037269Add
BLAST
Chaini5298 – 5900603Helicase By similarityPRO_0000037270Add
BLAST
Chaini5901 – 6421521Exoribonuclease By similarityPRO_0000037271Add
BLAST
Chaini6422 – 6795374Uridylate-specific endoribonuclease By similarityPRO_0000037272Add
BLAST
Chaini6796 – 7094299Putative 2'-O-methyl transferase By similarityPRO_0000037273Add
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

ProteinModelPortaliP0C6W9.
SMRiP0C6W9. Positions 3964-4114, 4238-4362, 6422-6790.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1036 – 1274239Peptidase C16 1Add
BLAST
Domaini1275 – 1435161MacroAdd
BLAST
Domaini1631 – 1892262Peptidase C16 2Add
BLAST
Domaini3247 – 3549303Peptidase C30Add
BLAST
Domaini4977 – 5139163RdRp catalyticAdd
BLAST
Domaini5298 – 538184CV MBDAdd
BLAST
Domaini5553 – 5734182(+)RNA virus helicase ATP-bindingAdd
BLAST
Domaini5735 – 5904170(+)RNA virus helicase C-terminalAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni2138 – 2385248HD1Add
BLAST
Regioni2752 – 3135384HD2Add
BLAST
Regioni3558 – 3775218HD3Add
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.

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. 1 hit.
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: P0C6W9-1) [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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MSKINKYGLE LHWAPEFPWM FEDAEEKLDN PSSSEVDIVC STTAQKLETG     50
GICPENHVMV DCRRLLKQEC CVQSSLIREI VMNTRPYDLE VLLQDALQSR 100
EAVLVTPPLG MSLEACYVRG CNPNGWTMGL FRRRSVCNTG RCAVNKHVAY 150
QLYMIDPAGV CFGAGQFVGW VIPLAFMPVQ SRKFIVPWVM YLRKCGEKGA 200
YNKDHKRGGF EHVYNFKVED AYDLVHDEPK GKFSKKAYAL IRGYRGVKPL 250
LYVDQYGCDY TGGLADGLEA YADKTLQEMK ALFPIWSQEL PFDVTVAWHV 300
VRDPRYVMRL QSASTIRSVA YVANPTEDLC DGSVVIKEPV HVYADDSIIL 350
RQHNLVDIMS CFYMEADAVV NAFYGVDLKD CGFVMQFGYI DCEQDLCDFK 400
GWVPGNMIDG FACTTCGHVY ETGDLLAQSS GVLPVNPVLH TKSAAGYGGF 450
GCKDSFTLYG QTVVYFGGCV YWSPARNIWI PILKSSVKSY DGLVYTGVVG 500
CKAIVKETNL ICKALYLDYV QHKCGNLHQR ELLGVSDVWH KQLLLNRGVY 550
KPLLENIDYF NMRRAKFSLE TFTVCADGFM PFLLDDLVPR AYYLAVSGQA 600
FCDYAGKICH AVVSKSKELL DVSLDSLGAA IHYLNSKIVD LAQHFSDFGT 650
SFVSKIVHFF KTFTTSTALA FAWVLFHVLH GAYIVVESDI YFVKNIPRYA 700
SAVAQAFRSV AKVVLDSLRV TFIDGLSCFK IGRRRICLSG SKIYEVERGL 750
LHSSQLPLDV YDLTMPSQVQ KTKQKPIYLK GSGSDFSLAD SVVEVVTTSL 800
TPCGYSEPPK VADKICIVDN VYMAKAGDKY YPVVVDGHVG LLDQAWRVPC 850
AGRCVTFKEQ PTVNEIASTP KTIKVFYELD KDFNTILNTA CGVFEVDDTV 900
DMEEFYAVVI DAIEEKLSPC KELEGVGAKV SAFLQKLEDN SLFLFDEAGE 950
EVLAPKLYCA FTAPEDDDFL EESGVEEDDV EGEETDLTVT SAGEPCVASE 1000
QEESSEILED TLDDGPCVET SDSQVEEDVQ MSDFVDLESV IQDYENVCFE 1050
FYTTEPEFVK VLDLYVPKAT RNNCWLRSVL AVMQKLPCQF KDKNLQDLWV 1100
LYKQQYSQLF VDTLVNKIPA NIVVPQGGYV ADFAYWFLTL CDWQCVAYWK 1150
CIKCDLALKL KGLDAMFFYG DVVSHVCKCG ESMVLIDVDV PFTAHFALKD 1200
KLFCAFITKR SVYKAACVVD VNDSHSMAVV DGKQIDDHRI TSITSDKFDF 1250
IIGHGMSFSM TTFEIAQLYG SCITPNVCFV KGDIIKVSKR VKAEVVVNPA 1300
NGHMAHGGGV AKAIAVAAGQ QFVKETTDMV KSKGVCATGD CYVSTGGKLC 1350
KTVLNVVGPD ARTQGKQSYA LLERVYKHLN KYDCVVTTLI SAGIFSVPSD 1400
VSLTYLLGTA KKQVVLVSNN QEDFDLISKC QITAVEGTKK LAERLSFNVG 1450
RSIVYETDAN KLILSNDVAF VSTFNVLQDV LSLRHDIALD DDARTFVQSN 1500
VDVVPEGWRV VNKFYQINGV RTVKYFECPG GIDICSQDKV FGYVQQGSFN 1550
KATVAQIKAL FLDKVDILLT VDGVNFTNRF VPVGESFGKS LGNVFCDGVN 1600
VTKHKCDINY KGKVFFQFDN LSSEDLKAVR SSFNFDQKEL LAYYNMLVNC 1650
SKWQVVFNGK YFTFKQANNN CFVNVSCLML QSLNLKFKIV QWQEAWLEFR 1700
SGRPARFVSL VLAKGGFKFG DPADSRDFLR VVFSQVDLTG AICDFEIACK 1750
CGVKQEQRTG VDAVMHFGTL SREDLEIGYT VDCSCGKKLI HCVRFDVPFL 1800
ICSNTPASVK LPKGVGSANI FKGDKVGHYV HVKCEQSYQL YDASNVKKVT 1850
DVTGNLSDCL YLKNLKQTFK SVLTTYYLDD VKKIEYKPDL SQYYCDGGKY 1900
YTQRIIKAQF KTFEKVDGVY TNFKLIGHTV CDILNAKLGF DSSKEFVEYK 1950
VTEWPTATGD VVLATDDLYV KRYERGCITF GKPVIWLSHE QASLNSLTYF 2000
NRPLLVDENK FDVLKVDDVD DGGDISESDA KEPKEINIIK LSGVKKPFKV 2050
EDSVIVNDDT SEIKYVKSLS IVDVYDMWLT GCRCVVRTAN ALSRAVNVPT 2100
IRKFIKFGMT LVSIPIDLLN LREIKPVFNV VKAVRNKISA CFNFIKWLFV 2150
LLFGWIKISA DNKVIYTTEV ASKLTCKLVA LAFKNAFLTF KWSVVARGAC 2200
IIATIFLLWF NFIYANVIFS DFYLPKIGFL PTFVGKIAQW IKNTFSLVTI 2250
CDLYSIQDVG FKNQYCNGSI ACQFCLAGFD MLDNYKAIDV VQYEADRRAF 2300
VDYTGVLKIV IELIVSYALY TAWFYPLFAL ISIQILTTWL PELFMLSTLH 2350
WSVRLLVSLA NMLPAHVFMR FYIIIASFIK LFSLFRHVAY GCSKSGCLFC 2400
YKRNRSLRVK CSTIVGGMIR YYDAMANGGT GFCSKHQWNC IDCDSYKPGN 2450
TFITVEAALD LSKELKRPIQ PTDVAYHTVT DVKQVGCYMR LFYDRDGQRT 2500
YDDVNASLFV DYSNLLHSKV KSVPNMHVVV VENDADKANF LNAAVFYAQS 2550
LFRPILMVDK NLITTANTGT SVTETMFDVY VDTFLSMFDV DKKSLNALIA 2600
TAHSSIKQGT QICKVLDTFL SCARKSCSID SDVDTKCLAD SVMSAVSAGL 2650
ELTDESCNNL VPTYLKGDNI VAADLGVLIQ NSAKHVQGNV AKIAGVSCIW 2700
SVDAFNQLSS DFQHKLKKAC CKTGLKLKLT YNKQMANVSV LTTPFSLKGG 2750
AVFSYFVYVC FVLSLVCFIG LWCLMPTYTV HKSDFQLPVY ASYKVLDNGV 2800
IRDVSVEDVC FANKFEQFDQ WYESTFGLSY YSNSMACPIV VAVVDQDFGS 2850
TVFNVPTKVL RYGYHVLHFI THALSADGVQ CYTPHSQISY SNFYASGCVL 2900
SSACTMFAMA DGSPQPYCYT DGLMQNASLY SSLVPHVRYN LANAKGFIRF 2950
PEVLREGLVR IVRTRSMPYC RVGLCEEADE GICFNFNGSW VLNNDYYRSL 3000
PGTFCGRDVF DLIYQLFKGL AQPVDFLALT ASSIAGAILA VIVVLVFYYL 3050
IKLKRAFGDY TSIVFVNVIV WCVNFMMLFV FQVYPTLSCV YAICYFYATL 3100
YFPSEISVIM HLQWLVMYGT IMPLWFCLLY ISVVVSNHAF WVFSYCRQLG 3150
TSVRSDGTFE EMALTTFMIT KDSYCKLKNS LSDVAFNRYL SLYNKYRYYS 3200
GKMDTAAYRE AACSQLAKAM DTFTNNNGSD VLYQPPTASV STSFLQSGIV 3250
KMVNPTSKVE PCIVSVTYGN MTLNGLWLGD KVYCPRHVIC SASDMTNPDY 3300
TNLLCRVTSS DFTVLFDRLS LTVMSYQMQG CMLVLTVTLQ NSRTPKYTFG 3350
VVKPGETFTV LAAYNGKPQG AFHVTMRSSY TIKGSFLCGS CGSVVYVIMG 3400
DCVKFVYMHQ LELSTGCHTG TDFNGDFYGP YKDAQVVQLP VQDYIQSVNF 3450
VAWLYAAILN NCNWFVQSDK CSVEDFNVWA LSNGFSQVKS DLVIDALASM 3500
TGVSLETLLA AIKHLKNGFQ GRQIMGSCSF EDELTPSDVY QQLAGIKLQS 3550
KRTRLVKGIV CWIMASTFLF SCIITAFVKW TMFMYVTTNM LSITFCALCV 3600
ISLTMLLVKH KHLYLTMYII PVLFTLLYNN YLVVYKQTFR GYVYAWLSYY 3650
VPSVEYTYTD EVIYGMLLLI GMVFVTLRSI NQYLFSFIMF VGRVISVVSL 3700
WYMGSNLEEE ILLMLASLFG TYTWTTALSM AAAKVIAKWV AVNVLYFTDI 3750
PQIKIVLVCY LFIGYIISCY WGLFSLMNSL FRMPLGVYNY KISVQELRYM 3800
NANGLRPPKN SFEALMLNFK LLGIGGVPII EVSQFQSKLT DVKCANVVLL 3850
NCLQHLHVAS NSKLWQYCST LHNEILATSD LGVAFEKLAQ LLIVLFANPA 3900
AVDSKCLTSI EEVCDDYAKD NTVLQALQSE FVNMASFVEY EVAKKNLDEA 3950
CSSGSANQQQ LKQLEKACNI AKSAYERDRA VARKLERMAD LALTNMYKEA 4000
RINDKKSKVV SALQTMLFSM VRKLDNQALN SILDNAVKGC VPLNAIPSLA 4050
ANTLTIIVPD KSVYDQVVDN VYVTYAGNVW QIQTIQDSDG TNKQLHEISD 4100
DCNWPLVIIA NRHNEVSATA LQNNELMPAK LKTQVVNSGP DQTCNTPTQC 4150
YYNNSYNGKI VYAILSDVDG LKYTKILKDD GNFVVLELDP PCKFTVQDVK 4200
GLKIKYLYFV KGCNTLARGW VVGTISSTVR LQAGTATEYA SNSSILSLCA 4250
FSVDPKKTYL DFIQQGGTPI ANCVKMLCDH AGTGMAITVK PDATTSQDSY 4300
GGASVCIYCR ARVEHPDVDG LCKLRGKFVQ VPVGIKDPVS YVLTHDVCQV 4350
CGFWRDGSCS CVSTDTTVQS KDTNFLNRVR GTSVDARLVP CASGLSTDVQ 4400
LRAFDICNAS VAGIGLHLKV NCCRFQRVDE NGDKLDQFFV VKRTDLTIYN 4450
REMECYERVK DCKFVAEHDF FTFDVEGSRV PHIVRKDLTK YTMLDLCYAL 4500
RHFDRNDCML LCDILSIYAG CEQSYFTKKD WYDFVENPDI INVYKKLGPI 4550
FNRALVSATE FADKLVEVGL VGILTLDNQD LNGKWYDFGD YVIAAPGCGV 4600
AIADSYYSYM MPMLTMCHAL DCELYVNNAY RLFDLVQYDF TDYKLELFNK 4650
YFKHWSMPYH PNTVDCQDDR CIIRCANFNI LFSMVLPNTC FGPLVRQIFV 4700
DGVPFVVSIG YHYKELGIVM NMDVDTHRYR LSLKDLLLYA ADPALHVASA 4750
SALYDLRTCC FSVAAITSGV KFQTVKPGNF NQDFYDFILS KGLLKEGSSV 4800
DLKHFFFTQD GNAAITDYNY YKYNLPTMVD IKQLLFVLEV VYKYFEIYDG 4850
GCIPASQVIV NNYDKSAGYP FNKFGKARLY YEALSFEEQD EIYAYTKRNV 4900
LPTLTQMNLK YAISAKNRAR TVAGVSILST MTGRMFHQKC LKSIAATRGV 4950
PVVIGTTKFY GGWDDMLRRL IKDVDNPVLM GWDYPKCDRA MPNILRIVSS 5000
LVLARKHEAC CSQSDRFYRL ANEYAQVLSE IVMCGGCYYV KPGGTSSGDA 5050
TTAFANSVFN ICQAVSANVC ALMSCNGNKI EDLSIRALQK RLYSHVYRSD 5100
MVDSTFVTEY YEFLNKHFSM MILSDDGVVC YNSDYASKGY IANISAFQQV 5150
LYYQNNVFMS ESKCWVENDI NNGPHEFCSQ HTMLVKMDGD DVYLPYPDPS 5200
RILGAGCFVD DLLKTDSVLL IERFVSLAID AYPLVYHENE EYQKVFRVYL 5250
EYIKKLYNEL GNQILDSYSV ILSTCDGQKF TDESFYKNMY LRSAVMQSVG 5300
ACVVCSSQTS LRCGSCIRKP LLCCKCCYDH VMATDHKYVL SVSPYVCNAP 5350
GCDVNDVTKL YLGGMSYYCE DHKPQYSFKL VMNGMVFGLY KQSCTGSPYI 5400
DDFNRIASCK WTDVDDYILA NECTERLKLF AAETQKATEE AFKQSYASAT 5450
IQEIVSEREL ILSWEIGKVK PPLNKNYVFT GYHFTKNGKT VLGEYVFDKS 5500
ELTNGVYYRA TTTYKLSVGD VFVLTSHSVA NLSAPTLVPQ ENYSSIRFAS 5550
VYSVLETFQN NVVNYQHIGM KRYCTVQGPP GTGKSHLAIG LAVYYCTARV 5600
VYTAASHAAV DALCEKAYKF LNINDCTRIV PAKVRVECYD KFKINDTTRK 5650
YVFTTINALP EMVTDIVVVD EVSMLTNYEL SVINARIRAK HYVYIGDPAQ 5700
LPAPRVLLSK GTLEPKYFNT VTKLMCCLGP DIFLGTCYRC PKEIVDTVSA 5750
LVYENKLKAK NESSSLCFKV YYKGVTTHES SSAVNMQQIY LINKFLKANP 5800
LWHKAVFISP YNSQNFAARR VLGLQTQTVD SAQGSEYDYV IYSQTAETAH 5850
SVNVNRFNVA ITRAKKGILC VMSNMQLFEA LQFTTLTVDK VPQAVETRVQ 5900
CSTNLFKDCS KSYSGYHPAH APSFLAVDDK YKATGDLAVC LGIGDSAVTY 5950
SRLTSLMGFK LDVTLDGYCK LFITKEEAVK RVRAWVGFDA EGAHATRDSI 6000
GTNFPLQLGF STGIDFVVEA TGLFADRDGY SFKKAVAKAP PGEQFKHLIP 6050
LMTRGQRWDV VRPRIVQMFA DHLIDLSDCV VLVTWAANFE LTCLRYFAKV 6100
GREISCNVCT KRATAYNSRT GYYGCWRHSV TCDYLYNPLI VDIQQWGYIG 6150
SLSSNHDLYC SVHKGAHVAS SDAIMTRCLA VYDCFCNNIN WNVEYPIISN 6200
ELSINTSCRV LQRVMLKAAM LCNRYTLCYD IGNPKAIACV KDFDFKFYDA 6250
QPIVKSVKTL LYFFEAHKDS FKDGLCMFWN CNVDKYPPNA VVCRFDTRVL 6300
NNLNLPGCNG GSLYVNKHAF HTKPFSRAAF EHLKPMPFFY YSDTPCVYMD 6350
GMDAKQVDYV PLKSATCITR CNLVGAVCLK HAEEYREYLN SYNTATTAGF 6400
TFWVYKTFDF YNLWNTFTKL QSLENVVYNL VKTGHYTGQA GEMPCAIIND 6450
KVVAKIDKED VVIFINNTTY PTNVAVELFA KRSIRHHPEL KLFRNLNIDV 6500
CWKHVIWDYA RESIFCSNTY GVCMYTDLKF IDKLNVLFDG RDNGALEAFK 6550
RSNNGVYIST TKVKSLSMIR GPPRAELNGV VVDKVGDTDC VFYFAVRKEG 6600
QDVIFSQFDS LRVSSNQSPQ GNLGSNEPGN VGGNDALATS TIFTQSRVIS 6650
SFTCRTDMEK DFIALDQDVF IQKYGLEDYA FEHIVYGNFN QKIIGGLHLL 6700
IGLYRRQQTS NLVIQEFVSY DSSIHSYFIT DEKSGGSKSV CTVIDILLDD 6750
FVALVKSLNL NCVSKVVNVN VDFKDFQFML WCNDEKVMTF YLRLQAASDW 6800
KPGYSMPVLY KYLNSPMERV SLWNYGKPVT LPTGCMMNVA KYTQLCQYLN 6850
TTTLAVPVNM RVLHLGAGSE KGVAPGSAVL RQWLPAGTIL VDNDLYPFVS 6900
DSVATYFGDC ITLPFDCQWD LIISDMYDPI TKNIGEYNVS KDGFFTYICH 6950
MIRDKLALGG SVAIKITEFS WNAELYKLMG YFAFWTVFCT NANASSSEGF 7000
LIGINYLGKP KVEIDGNVMH ANYLFWRNST VWNGGAYSLF DMAKFPLKLA 7050
GTAVINLRAD QINDMVYSLL EKGKLLVRDT NKEVFVGDSM VNVI 7094

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

Length:7,094
Mass (Da):797,392
Last modified:June 10, 2008 - v1
Checksum:i5C09617A9DA972E5
GO
Isoform Replicase polyprotein 1a (identifier: P0C6U0-1) [UniParc]FASTAAdd to Basket

Also known as: pp1a, ORF1a polyprotein

The sequence of this isoform can be found in the external entry P0C6U0.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Note: Produced by conventional translation.

Length:4,383
Mass (Da):490,562
GO

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti5024 – 50241Y → C in AAD32989. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
U00735 Genomic RNA. Translation: AAA64744.2.
AF124985 Genomic RNA. Translation: AAD32989.1.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
U00735 Genomic RNA. Translation: AAA64744.2 .
AF124985 Genomic RNA. Translation: AAD32989.1 .

3D structure databases

ProteinModelPortali P0C6W9.
SMRi P0C6W9. Positions 3964-4114, 4238-4362, 6422-6790.
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. 1 hit.
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. Brian D.A.
    Submitted (AUG-1993) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  2. Brian D.A.
    Submitted (APR-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: SEQUENCE REVISION.
  3. "Phylogenetic analysis of a highly conserved region of the polymerase gene from 11 coronaviruses and development of a consensus polymerase chain reaction assay."
    Stephensen C.B., Casebolt D.B., Gangopadhyay N.N.
    Virus Res. 60:181-189(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA] OF 4871-5177.

Entry informationi

Entry nameiR1AB_CVBM
AccessioniPrimary (citable) accession number: P0C6W9
Secondary accession number(s): Q66198, Q9WQ81
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

Keywords - Technical termi

Complete proteome

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