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P0C6W3

- R1AB_BCHK4

UniProt

P0C6W3 - R1AB_BCHK4

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Protein

Replicase polyprotein 1ab

Gene
rep, 1a-1b
Organism
Bat coronavirus HKU4 (BtCoV) (BtCoV/HKU4/2004)
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 By similarity.
The papain-like proteinase (PL-PRO) is responsible for the cleavages located at the N-terminus of replicase polyprotein. In addition, PL-PRO 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. Its ATPase activity is strongly stimulated by poly(U), poly(dT), poly(C), poly(dA), but not by poly(G). Activity of helicase is dependent on magnesium 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
Sitei195 – 1962Cleavage Reviewed prediction
Sitei847 – 8482Cleavage; by PL-PRO Reviewed prediction
Active sitei1634 – 16341For PL-PRO activity By similarity
Active sitei1800 – 18001For PL-PRO activity By similarity
Sitei2784 – 27852Cleavage; by PL-PRO Reviewed prediction
Sitei3291 – 32922Cleavage; by 3CL-PRO Reviewed prediction
Active sitei3332 – 33321For 3CL-PRO activity By similarity
Active sitei3439 – 34391For 3CL-PRO activity By similarity
Sitei3597 – 35982Cleavage; by 3CL-PRO Reviewed prediction
Sitei3889 – 38902Cleavage; by 3CL-PRO Reviewed prediction
Sitei3972 – 39732Cleavage; by 3CL-PRO Reviewed prediction
Sitei4171 – 41722Cleavage; by 3CL-PRO Reviewed prediction
Sitei4281 – 42822Cleavage; by 3CL-PRO Reviewed prediction
Sitei4420 – 44212Cleavage; by 3CL-PRO Reviewed prediction
Sitei5354 – 53552Cleavage; by 3CL-PRO Reviewed prediction
Sitei5952 – 59532Cleavage; by 3CL-PRO Reviewed prediction
Sitei6475 – 64762Cleavage; by 3CL-PRO Reviewed prediction
Sitei6817 – 68182Cleavage; by 3CL-PRO Reviewed prediction

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1714 – 175138C4-type By similarityAdd
BLAST
Zinc fingeri4355 – 437117 By similarityAdd
BLAST
Zinc fingeri4397 – 441014 By similarityAdd
BLAST
Nucleotide bindingi5636 – 56438ATP 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):
Leader protein
Non-structural protein 2
Short name:
nsp2
Alternative name(s):
p65 homolog
Alternative name(s):
PL2-PRO
Papain-like proteinase
Short name:
PL-PRO
Non-structural protein 4
Short name:
nsp4
3C-like proteinase (EC:3.4.22.-)
Short name:
3CL-PRO
Short name:
3CLp
Alternative name(s):
nsp5
Non-structural protein 6
Short name:
nsp6
Non-structural protein 7
Short name:
nsp7
Non-structural protein 8
Short name:
nsp8
Non-structural protein 9
Short name:
nsp9
Non-structural protein 10
Short name:
nsp10
Alternative name(s):
Growth factor-like peptide
Short name:
GFL
RNA-directed RNA polymerase (EC:2.7.7.48)
Short name:
Pol
Short name:
RdRp
Alternative name(s):
nsp12
Helicase (EC:3.6.4.12, EC:3.6.4.13)
Short name:
Hel
Alternative name(s):
nsp13
Exoribonuclease (EC:3.1.13.-)
Short name:
ExoN
Alternative name(s):
nsp14
Alternative name(s):
NendoU
nsp15
Alternative name(s):
nsp16
Gene namesi
Name:rep
ORF Names:1a-1b
OrganismiBat coronavirus HKU4 (BtCoV) (BtCoV/HKU4/2004)
Taxonomic identifieri694007 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageNidoviralesCoronaviridaeCoronavirinaeBetacoronavirus
Virus hostiTylonycteris pachypus (Lesser bamboo bat) [TaxID: 258959]
ProteomesiUP000006574: 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
Transmembranei2112 – 213221Helical; Reviewed predictionAdd
BLAST
Transmembranei2145 – 216521Helical; Reviewed predictionAdd
BLAST
Transmembranei2222 – 224221Helical; Reviewed predictionAdd
BLAST
Transmembranei2326 – 234621Helical; Reviewed predictionAdd
BLAST
Transmembranei2350 – 237021Helical; Reviewed predictionAdd
BLAST
Transmembranei2375 – 239521Helical; Reviewed predictionAdd
BLAST
Transmembranei2800 – 282021Helical; Reviewed predictionAdd
BLAST
Transmembranei3072 – 309221Helical; Reviewed predictionAdd
BLAST
Transmembranei3105 – 312521Helical; Reviewed predictionAdd
BLAST
Transmembranei3149 – 316921Helical; Reviewed predictionAdd
BLAST
Transmembranei3603 – 362321Helical; Reviewed predictionAdd
BLAST
Transmembranei3637 – 365721Helical; Reviewed predictionAdd
BLAST
Transmembranei3662 – 368221Helical; Reviewed predictionAdd
BLAST
Transmembranei3707 – 372721Helical; Reviewed predictionAdd
BLAST
Transmembranei3735 – 375521Helical; Reviewed predictionAdd
BLAST
Transmembranei3784 – 380421Helical; Reviewed predictionAdd
BLAST
Transmembranei3808 – 382821Helical; 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 – 195195Non-structural protein 1 Reviewed predictionPRO_0000290288Add
BLAST
Chaini196 – 847652Non-structural protein 2 Reviewed predictionPRO_0000290289Add
BLAST
Chaini848 – 27841937Non-structural protein 3 Reviewed predictionPRO_0000290290Add
BLAST
Chaini2785 – 3291507Non-structural protein 4 Reviewed predictionPRO_0000290291Add
BLAST
Chaini3292 – 35973063C-like proteinase Reviewed predictionPRO_0000290292Add
BLAST
Chaini3598 – 3889292Non-structural protein 6 Reviewed predictionPRO_0000290293Add
BLAST
Chaini3890 – 397283Non-structural protein 7 Reviewed predictionPRO_0000290294Add
BLAST
Chaini3973 – 4171199Non-structural protein 8 Reviewed predictionPRO_0000290295Add
BLAST
Chaini4172 – 4281110Non-structural protein 9 Reviewed predictionPRO_0000290296Add
BLAST
Chaini4282 – 4420139Non-structural protein 10 Reviewed predictionPRO_0000290297Add
BLAST
Chaini4421 – 5354934RNA-directed RNA polymerase Reviewed predictionPRO_0000290298Add
BLAST
Chaini5355 – 5952598Helicase Reviewed predictionPRO_0000290299Add
BLAST
Chaini5953 – 6475523Exoribonuclease Reviewed predictionPRO_0000290300Add
BLAST
Chaini6476 – 6817342Uridylate-specific endoribonuclease Reviewed predictionPRO_0000290301Add
BLAST
Chaini6818 – 7119302Putative 2'-O-methyl transferase Reviewed predictionPRO_0000290302Add
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.

Proteomic databases

PRIDEiP0C6W3.

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

ProteinModelPortaliP0C6W3.
SMRiP0C6W3. Positions 3889-3972, 4221-4281, 4291-4411.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1152 – 1321170MacroAdd
BLAST
Domaini1593 – 1864272Peptidase C16Add
BLAST
Domaini3292 – 3597306Peptidase C30Add
BLAST
Domaini5034 – 5196163RdRp catalyticAdd
BLAST
Domaini5355 – 543884CV MBDAdd
BLAST
Domaini5611 – 5792182(+)RNA virus helicase ATP-bindingAdd
BLAST
Domaini5793 – 5967175(+)RNA virus helicase C-terminalAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni2112 – 2395284HD1 By similarityAdd
BLAST
Regioni2800 – 3169370HD2 By similarityAdd
BLAST
Regioni3603 – 3828226HD3 By similarityAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi960 – 104990Glu-richAdd
BLAST
Compositional biasi4161 – 41666Poly-Ser
Compositional biasi5359 – 538426Cys-richAdd
BLAST

Domaini

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

Sequence similaritiesi

Contains 1 Macro domain.

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1714 – 175138C4-type By similarityAdd
BLAST
Zinc fingeri4355 – 437117 By similarityAdd
BLAST
Zinc fingeri4397 – 441014 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.
IPR009461. Coronavirus_NSP16.
IPR027352. CV_MBD_dom.
IPR002589. Macro_dom.
IPR009466. NSP11.
IPR024375. Nsp3_coronavir.
IPR014828. NSP7.
IPR014829. NSP8.
IPR014822. NSP9.
IPR027417. P-loop_NTPase.
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.
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.
PF05409. Peptidase_C30. 1 hit.
PF00680. RdRP_1. 1 hit.
PF11633. SUD-M. 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. 1 hit.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by ribosomal frameshifting. Align

Isoform Replicase polyprotein 1ab (identifier: P0C6W3-1) [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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MLSKASVTTQ GARGKYRAEL YNEKRSDHVA CTVPLCDTDD MACKLTPWFE     50
DGETAFNQVS SILKEKGKIL FVPMHMQRAM KFLPGPRVYL VERLTGGMLS 100
KHFLVNQLAY KDQVGAAMMR TTLNAKPLGM FFPYDSSLET GEYTFLLRKN 150
GLGGQLFRER PWDRKETPYV EILDDLEADP TGKYSQNLLK KLIGGDCIPI 200
DQYMCGKNGK PIADYAKIVA KEGLTTLADI EVDVKSRMDS DRFIVLNKKL 250
YRVVWNVTRR NVPYPKQTAF TIVSVVQCDD KDSVPEHTFT IGSQILMVSP 300
LKATNNKNFN LKQRLLYTFY GKDAVQQPGY IYHSAYVDCN ACGRGTWCTG 350
NAIQGFACDC GANYSANDVD LQSSGLVPRN ALFLANCPCA NNGACSHSAA 400
QVYNILDGKA CVEVGGKSFT LTFGGVVYAY MGCCDGTMYF VPRAKSCVSR 450
IGDAIFTGCT GTWDKVVETA NLFLEKAQRS LNFCQQFALT EVVLAILSGT 500
TSTFEELRDL CHNASYEKVR DHLVNHGFVV TIGDYIRDAI NIGANGVCNA 550
TINAPFIAFT GLGESFKKVS AIPWKICSNL KSALDYYSSN IMFRVFPYDI 600
PCDVSNFVEL LLDCGKLTVA TSYFVLRYLD EKFDTVLGTV SSACQTALSS 650
FLNACVAASR ATAGFINDMF KLFKVLMHKL YVYTSCGYVA VAEHSSKIVQ 700
QVLDIMSKAM KLLHTNVSWA GTKLSAIIYE GREALLFNSG TYFCLSTKAK 750
TLQGQMNLVL PGDYNKKTLG ILDPVPNADT IDVNANSTVV DVVHGQLEPT 800
NEHGPSMIVG NYVLVSDKLF VRTEDEEFYP LCTNGKVVST LFRLKGGMPS 850
KKVTFGDVNT VEVTAYRSVS ITYDIHPVLD ALLSSSKLAT FTVEKDLLVE 900
DFVDVIKDEV LTLLTPLLRG YDIDGFDVED FIDVPCYVYN QDGDCAWSSN 950
MTFSINPVED VEEVEEFIED DYLSDELPIA DDEEAWARAV EEVMPLDDIL 1000
VAEIELEEDP PLETALESVE AEVVETAEAQ EPSVESIDST PSTSTVVGEN 1050
DLSVKPMSRV AETDDVLELE TAVVGGPVSD VTAIVTNDIV SVEQAQQCGV 1100
SSLPIQDEAS ENQVHQVSDL QGNELLCSET KVEIVQPRQD LKPRRSRKSK 1150
VDLSKYKHTV INNSVTLVLG DAIQIASLLP KCILVNAANR HLKHGGGIAG 1200
VINKASGGDV QEESDEYISN NGPLHVGDSV LLKGHGLADA ILHVVGPDAR 1250
NNEDAALLKR CYKAFNKHTI VVTPLISAGI FSVDPKVSFE YLLANVTTTT 1300
YVVVNNEDIY NTLATPSKPD GLVYSFEGWR GTVRTAKNYG FTCFICTEYS 1350
ANVKFLRTKG VDTTKKIQTV DGVSYYLYSA RDALTDVIAA ANGCSGICAM 1400
PFGYVTHGLD LAQSGNYVRQ VKVPYVCLLA SKEQIPIMNS DVAIQTPETA 1450
FINNVTSNGG YHSWHLVSGD LIVKDVCYKK LLHWSGQTIC YADNKFYVVK 1500
NDVALPFSDL EACRAYLTSR AAQQVNIEVL VTIDGVNFRT VILNDTTTFR 1550
KQLGATFYKG VDISDAFPTV KMGGESLFVA DNLSESEKVV LKEYYGTSDV 1600
TFLQRYYSLQ PLVQQWKFVV HDGVKSLKLS NYNCYINATI MMIDMLHDIK 1650
FVVPALQNAY LRYKGGDPYD FLALIMAYGD CTFDNPDDEA KLLHTLLAKA 1700
ELTVSAKMVW REWCTVCGIR DIEYTGMRAC VYAGVNSMEE LQSVFNETCV 1750
CGSVKHRQLV EHSAPWLLVS GLNEVKVSTS TDPIYRAFNV FQGVETSVGH 1800
YVHIRVKDGL FYKYDSGSLT KTSDMKCKMT SVWYPTVRYT ADCNVVVYDL 1850
DGVTKVEVNP DLSNYYMKDG KYYTSKPTIK YSPATILPGS VYSNSCLVGV 1900
DGTPGSDTIS KFFNDLLGFD ETKPISKKLT YSLLPNEDGD VLLSEFSNYN 1950
PVYKKGVMLK GKPILWVNNG VCDSALNKPN RASLRQLYDV APIVLDNKYT 2000
VLQDNTSQLV EHNVPVVDDV PITTRKLIEV KCKGLNKPFV KGNFSFVNDP 2050
NGVTVVDTLG LTELRALYVD INTRYIVLRD NNWSSLFKLH TVESGDLQIV 2100
AAGGSVTRRA RVLLGASSLF ASFAKITVTA TTAACKTAGR GFCKFVVNYG 2150
VLQNMFVFLK MLFFLPFNYL WPKKQPTVDI GVSGLRTAGI VTTNIVKQCG 2200
TAAYYMLLGK FKRVDWKATL RLFLLLCTTI LLLSSIYHLV LFNQVLSSDV 2250
MLEDATGILA IYKEVRSYLG IRTLCDGLVV EYRNTSFDVM EFCSNRSVLC 2300
QWCLIGQDSL TRYSALQMLQ THITSYVLNI DWIWFALEFF LAYVLYTSSF 2350
NVLLLVVTAQ YFFAYTSAFV NWRAYNYIVS GLFFLVTHIP LHGLVRVYNF 2400
LACLWFLRKF YSHVINGCKD TACLLCYKRN RLTRVEASTI VCGTKRTFYI 2450
AANGGTSYCC KHNWNCVECD TAGVGNTFIC TEVANDLTTT LRRLIKPTDQ 2500
SHYYVDSVVV KDAVVELHYN RDGSSCYERY PLCYFTNLEK LKFKEVCKTP 2550
TGIPEHNFLI YDTNDRGQEN LARSACVYYS QVLCKPMLLV DVNLVTTVGD 2600
SREIAIKMLD SFINSFISLF SVSRDKLEKL INTARDCVRR GDDFQNVLKT 2650
FTDAARGHAG VESDVETTMV VDALQYAHKN DIQLTTECYN NYVPGYIKPD 2700
SINTLDLGCL IDLKAASVNQ TSMRNANGAC VWNSGDYMKL SDSFKRQIRI 2750
ACRKCNIPFR LTTSKLRAAD NILSVKFSAT KIVGGAPSWL LRVRDLTVKG 2800
YCILTLFVFT VAVLSWFCLP SYSIATVNFN DDRILTYKVI ENGIVRDIAP 2850
NDVCFANKYG HFSKWFNENH GGVYRNSMDC PITIAVIAGV AGARVANVPA 2900
NLAWVGKQIV LFVSRVFANT NVCFTPINEI PYDTFSDSGC VLSSECTLFR 2950
DAEGNLNPFC YDPTVLPGAS SYADMKPHVR YDMYDSDMYI KFPEVIVEST 3000
LRITKTLATQ YCRFGSCEES AAGVCISTNG SWALYNQNYS TRPGIYCGDD 3050
YFDIVRRLAI SLFQPVTYFQ LSTSLAMGLV LCVFLTAAFY YINKVKRALA 3100
DYTQCAVVAV VAALLNSLCL CFIVANPLLV APYTAMYYYA TFYLTGEPAF 3150
IMHISWYVMF GAVVPIWMLA SYTVGVMLRH LFWVLAYFSK KHVDVFTDGK 3200
LNCSFQDAAS NIFVIGKDTY VALRNAITQD SFVRYLSLFN KYKYYSGAMD 3250
TASYREACAA HLCKALQTYS ETGSDILYQP PNCSVTSSVL QSGLVKMSAP 3300
SGAVENCIVQ VTCGSMTLNG LWLDNTVWCP RHIMCPADQL TDPNYDALLI 3350
SKTNHSFIVQ KHIGAQANLR VVAHSMVGVL LKLTVDVANP STPAYTFSTV 3400
KPGASFSVLA CYNGKPTGVF TVNLRHNSTI KGSFLCGSCG SVGYTENGGV 3450
INFVYMHQME LSNGTHTGSS FDGVMYGAFE DKQTHQLQLT DKYCTINVVA 3500
WLYAAVLNGC KWFVKPTRVG IVTYNEWALS NQFTEFVGTQ SIDMLAHRTG 3550
VSVEQMLAAI QSLHAGFQGK TILGQSTLED EFTPDDVNMQ VMGVVMQSGV 3600
KRISYGFIHW LISTFVLAYV SVMQLTKFTM WTYLFETIPT QMTPLLLGFM 3650
ACVMFTVKHK HTFMSLFLLP VALCLTYANI VYEPQTLISS TLIAVANWLT 3700
PTSVYMRTTH FDFGLYISLS FVLAIIVRRL YRPSMSNLAL ALCSGVMWFY 3750
TYVIGDHSSP ITYLMFITTL TSDYTITVFA TVNLAKFISG LVFFYAPHLG 3800
FILPEVKLVL LIYLGLGYMC TMYFGVFSLL NLKLRVPLGV YDYSVSTQEF 3850
RFLTGNGLHA PRNSWEALIL NFKLLGIGGT PCIKVATVQS KLTDLKCTSV 3900
VLLTVLQQLH LESNSKAWSY CVKLHNEILA AVDPTEAFER FVCLFATLMS 3950
FSANVDLDAL ANDLFENSSV LQATLTEFSH LATYAELETA QSSYQKALNS 4000
GDASPQVLKA LQKAVNVAKN AYEKDKAVAR KLERMAEQAM TSMYKQARAE 4050
DKKAKIVSAM QTMLFGMIKK LDNDVLNGVI ANARNGCVPL SIVPLCASNK 4100
LRVVIPDISV WNKVVNWPSV SYAGSLWDIT VINNVDNEVV KPTDVVETNE 4150
SLTWPLVIEC SRSSSSAVKL QNNEIHPKGL KTMVITAGVD QVNCNSSAVA 4200
YYEPVQGHRM VMGLLSENAH LKWAKVEGKD GFINIELQPP CKFLIAGPKG 4250
PEIRYLYFVK NLNNLHRGQL LGHIAATVRL QAGANTEFAS NSTVLTLVAF 4300
AVDPAKAYLD YVGSGGTPLS NYVKMLAPKT GTGVAISVKP EATADQETYG 4350
GASVCLYCRA HIEHPDVSGV CKYKTRFVQI PAHVRDPVGF LLKNVPCNVC 4400
QYWVGYGCNC DALRNNTVPQ SKDTNFLNRV RGSSVNARLE PCSSGLTTDV 4450
VYRAFDICNF KARVAGIGKY YKTNTCRFVQ VDDEGHKLDS YFIVKRHTMS 4500
NYELEKRCYD LLKDCDAVAI HDFFIFDVDK TKTPHIVRQS LTEYTMMDLV 4550
YALRHFDQNN CEVLKSILVK YGCCEQSYFD NKLWFDFVEN PSVIGVYHKL 4600
GERIRQAMLN TVKMCDHMVK SGLVGVLTLD NQDLNGKWYD FGDFVITQPG 4650
AGVAIVDSYY SYLMPVLSMT NCLAAETHKD CDFNKPLIEW PLLEYDYTDY 4700
KIGLFNKYFK YWDQTYHPNC VNCSDDRCIL HCANFNVLFS MVLPNTSFGP 4750
IVRKIFVDGV PFIVSCGYHY KELGLVMNMD FNIHRHRLAL KELMMYAADP 4800
AMHIASASAL WDLRTPCFSV AALTTGLTFQ TVRPGNFNKD FYDFVVSRGF 4850
FKEGSSVTLK HFFFAQDGHA AITDYSYYAY NLPTMVDIKQ MLFCMEVVDK 4900
YFDIYDGGCL NASEVIVNNL DKSAGHPFNK FGKARVYYES MSYQEQDELF 4950
AVTKRNVLPT ITQMNLKYAI SAKNRARTVA GVSILSTMTN RQYHQKMLKS 5000
MAATRGATCV IGTTKFYGGW DFMLKTLYKD VESPHLMGWD YPKCDRAMPN 5050
MCRILASLIL ARKHSTCCTN SDRFYRLANE CAQVLSEYVL CGGGYYVKPG 5100
GTSSGDATTA YANSVFNILQ ATTANVSALM SANGNTIIDR EIKDMQFDLY 5150
INVYRKVVPD PKFVDKYYAF LNKHFSMMIL SDDGVVCYNS DYAAKGYVAS 5200
IQNFKETLYY QNNVFMSEAK CWVETNLEKG PHEFCSQHTL YIKDGDDGYF 5250
LPYPDPSRIL SAGCFVDDIV KTDGTVMMER YVSLAIDAYP LTKHDDTEYQ 5300
NVFWVYLQYI EKLYKDLTGH MLDSYSVMLC GDDSAKFWEE GFYRDLYSSP 5350
TTLQAVGSCV VCHSQTSLRC GTCIRRPFLC CKCCYDHVIA TPHKMVLSVS 5400
PYVCNAPGCD VSDVTKLYLG GMSYYCNDHR PVCSFPLCAN GLVFGLYKNM 5450
CTGSSSIMEF NRLATCDWSD SGDYTLANTT TEPLKLFAAE TLRATEEASK 5500
QSYAIATIKE IVGERELILV WEVGKSKPPL NRNYVFTGYH LTKNSKVQLG 5550
EYVFERIDYS DAVSYKSSTT YKLAVGDIFV LTSHSVATLS APTIVNQERY 5600
LKITGIYPTI TVPEEFANHV VNFQKAGFSK YVTVQGPPGT GKSHFAIGLA 5650
IYYPTARIVY TACSHAAVDA LCEKAFKYLN IAKCSRIIPA KARVECYDRF 5700
KVNDTNSQYL FSTVNALPEI SVDILVVDEV SMCTNYDLSI INSRVKAKHI 5750
VYVGDPAQLP APRTLLIRGT LEPENFNSVT RLMCNLGPDI FLSVCYRCPK 5800
EIVSTVSALV YNNKLSAKKD ASGQCFKILF KGSVTHDASS AINRPQLNFV 5850
KTFIAANPNW SKAVFISPYN SQNAVARSML GLTTQTVDSS QGSEYPYVIF 5900
CQTADTAHAN NLNRFNVAVT RAQKGILCVM TSQVLFDSLE FAELSLNNYK 5950
LQSQIVTGLF KDCSREDTGL PPAYAPTYLS VDAKYKTTDE LCVNLNITPN 6000
VTYSRVISRM GFKLDATIPG YPKLFITRDE AIRQVRSWVG FDVEGAHASR 6050
NACGTNVPLQ LGFSTGVNFV VQPVGVVDTE WGSMLTTISA RPPPGEQFKH 6100
LVPLMNKGAT WPIVRRRIVQ MLSDTLDKLS DYCTFVCWAH GFELTSASYF 6150
CKIGKEQRCS MCSRRASTFS SPLQSYACWS HSSGYDYVYN PFFVDVQQWG 6200
YVGNLATNHD RYCGIHAGAH VASSDAIMTR CLAIYDCFIE RVDWDVTYPY 6250
ISHEQKLNSC CRTVERNVVR SAVLSGKFEK IYDIGNPKGI AIISEPVEWH 6300
FYDAQPLSNK VKKLFYTDDV SKQFEDGLCL FWNCNVSKYP SNAVVCRFDT 6350
RVHSEFNLPG CNGGSLYVNK HAFHTPAYDI NAFRDLKPLP FFYYSTTPCE 6400
VHGSGNMLED IDYVPLKSAV CITACNLGGA VCRKHAAEYR DYMEAYNIVS 6450
AAGFRLWVYK TFDIYNLWST FVKVQGLENI AFNVIKQGHF TGVDGELPVA 6500
VVNDKIFTKN GTDDVCIFKN ETALPTNVAF ELYAKRAVRS HPDLNLLRNL 6550
EVDVCYNFVL WDYDRNNIYG TTTIGVCKYT DIDVNPNLNM CFDIRDKGSL 6600
ERFMSMPNGV LISDRKIKNY PCISGPKHAY FNGAILRNID AKQPVIFYLY 6650
KKVNNEFVSF SDTFYTCGRT VGDFTVLTPM EEDFLVLDSD VFIKKYGLED 6700
YAFEHVVYGD FSHTTLGGLH LLIGLYKKMR EGHILMEEML KDRATVHNYF 6750
ITDSNTASYK AVCSVIDLRL DDFVTIIKEM DLDVVSKVVK VPIDLTMIEF 6800
MLWCRDGKVQ TFYPRLQATN DWKPGLTMPS LFKVQQMNLE PCLLANYKQS 6850
IPMPNGVHMN VAKYMQLCQY LNTCTLAVPA NMRVIHFGAG CEKGVAPGTS 6900
VLRQWLPLDA VLIDNDLNEF VSDADITIFG DCVTVHVGQQ VDLLISDMYD 6950
PCTKAVGEVN QTKALFFVYL CNFIKNNLAL GGSVAIKITE HSWSADLYKI 7000
MGRFAYWTVF CTNANASSSE GFLIGINFLG ELKEEIDGNV MHANYIFWRN 7050
STPMNLSTYS LFDLSRFPLK LKGTPVLQLK ESQINELVIS LLSQGKLLIR 7100
DNDTLNVSTD VLVNFRKRL 7119

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

Length:7,119
Mass (Da):795,200
Last modified:June 10, 2008 - v1
Checksum:iE85475854586DD79
GO
Isoform Replicase polyprotein 1a (identifier: P0C6T4-1) [UniParc]FASTAAdd to Basket

Also known as: pp1a, ORF1a polyprotein

The sequence of this isoform can be found in the external entry P0C6T4.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Note: Produced by conventional translation.

Length:4,434
Mass (Da):491,823
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
EF065505 Genomic RNA. Translation: ABN10838.1.
RefSeqiYP_001039952.1. NC_009019.1. [P0C6W3-1]

Genome annotation databases

GeneIDi4835998.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
EF065505 Genomic RNA. Translation: ABN10838.1 .
RefSeqi YP_001039952.1. NC_009019.1. [P0C6W3-1 ]

3D structure databases

ProteinModelPortali P0C6W3.
SMRi P0C6W3. Positions 3889-3972, 4221-4281, 4291-4411.
ModBasei Search...
MobiDBi Search...

Proteomic databases

PRIDEi P0C6W3.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 4835998.

Family and domain databases

Gene3Di 3.40.50.300. 2 hits.
InterProi IPR027351. (+)RNA_virus_helicase_core_dom.
IPR009461. Coronavirus_NSP16.
IPR027352. CV_MBD_dom.
IPR002589. Macro_dom.
IPR009466. NSP11.
IPR024375. Nsp3_coronavir.
IPR014828. NSP7.
IPR014829. NSP8.
IPR014822. NSP9.
IPR027417. P-loop_NTPase.
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.
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.
PF05409. Peptidase_C30. 1 hit.
PF00680. RdRP_1. 1 hit.
PF11633. SUD-M. 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. 1 hit.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Comparative analysis of twelve genomes of three novel group 2c and group 2d coronaviruses reveals unique group and subgroup features."
    Woo P.C.Y., Wang M., Lau S.K.P., Xu H.F., Poon R.W.S., Guo R., Wong B.H.L., Gao K., Tsoi H.-W., Huang Y., Li K.S.M., Lam C.S.F., Chan K.-H., Zheng B.-J., Yuen K.-Y.
    J. Virol. 81:1574-1585(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
    Strain: Isolate HKU4-1.

Entry informationi

Entry nameiR1AB_BCHK4
AccessioniPrimary (citable) accession number: P0C6W3
Secondary accession number(s): A3EX93
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: June 10, 2008
Last modified: July 9, 2014
This is version 55 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