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P0C6X2

- R1AB_CVHN1

UniProt

P0C6X2 - R1AB_CVHN1

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Protein

Replicase polyprotein 1ab

Gene
rep, 1a-1b
Organism
Human coronavirus HKU1 (isolate N1) (HCoV-HKU1)
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
Sitei222 – 2232Cleavage; by PL1-PRO By similarity
Sitei809 – 8102Cleavage; by PL1-PRO By similarity
Active sitei1161 – 11611For PL1-PRO activity By similarity
Active sitei1312 – 13121For PL1-PRO activity By similarity
Active sitei1757 – 17571For PL2-PRO activity By similarity
Active sitei1914 – 19141For PL2-PRO activity By similarity
Sitei2838 – 28392Cleavage; by PL2-PRO By similarity
Sitei3334 – 33352Cleavage; by 3CL-PRO By similarity
Active sitei3375 – 33751For 3CL-PRO activity By similarity
Active sitei3479 – 34791For 3CL-PRO activity By similarity
Sitei3637 – 36382Cleavage; by 3CL-PRO By similarity
Sitei3924 – 39252Cleavage; by 3CL-PRO By similarity
Sitei4016 – 40172Cleavage; by 3CL-PRO By similarity
Sitei4210 – 42112Cleavage; by 3CL-PRO By similarity
Sitei4320 – 43212Cleavage; by 3CL-PRO By similarity
Sitei4457 – 44582Cleavage; by 3CL-PRO By similarity
Sitei5385 – 53862Cleavage; by 3CL-PRO By similarity
Sitei6509 – 65102Cleavage; by 3CL-PRO By similarity
Sitei6883 – 68842Cleavage; by 3CL-PRO By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1238 – 126629C4-type 1 By similarityAdd
BLAST
Zinc fingeri1835 – 187137C4-type 2 By similarityAdd
BLAST
Zinc fingeri4394 – 441017 By similarityAdd
BLAST
Zinc fingeri4436 – 444914 By similarityAdd
BLAST
Nucleotide bindingi5666 – 56738ATP 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 genome replication Source: InterPro
  9. viral protein processing 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
OrganismiHuman coronavirus HKU1 (isolate N1) (HCoV-HKU1)
Taxonomic identifieri443239 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageNidoviralesCoronaviridaeCoronavirinaeBetacoronavirus
Virus hostiHomo sapiens (Human) [TaxID: 9606]
ProteomesiUP000008170: 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.
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.
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.
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.
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.

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei2226 – 224621Helical; Reviewed predictionAdd
BLAST
Transmembranei2287 – 230721Helical; Reviewed predictionAdd
BLAST
Transmembranei2318 – 233821Helical; Reviewed predictionAdd
BLAST
Transmembranei2401 – 242121Helical; Reviewed predictionAdd
BLAST
Transmembranei2443 – 246321Helical; Reviewed predictionAdd
BLAST
Transmembranei2844 – 286421Helical; Reviewed predictionAdd
BLAST
Transmembranei3119 – 313921Helical; Reviewed predictionAdd
BLAST
Transmembranei3151 – 317121Helical; Reviewed predictionAdd
BLAST
Transmembranei3178 – 319821Helical; Reviewed predictionAdd
BLAST
Transmembranei3203 – 322321Helical; Reviewed predictionAdd
BLAST
Transmembranei3651 – 367121Helical; Reviewed predictionAdd
BLAST
Transmembranei3676 – 369621Helical; Reviewed predictionAdd
BLAST
Transmembranei3701 – 372121Helical; Reviewed predictionAdd
BLAST
Transmembranei3744 – 376421Helical; Reviewed predictionAdd
BLAST
Transmembranei3772 – 379221Helical; Reviewed predictionAdd
BLAST
Transmembranei3800 – 382021Helical; Reviewed predictionAdd
BLAST
Transmembranei3843 – 386321Helical; 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 – 222222Non-structural protein 1 By similarityPRO_5000093333Add
BLAST
Chaini223 – 809587Non-structural protein 2 By similarityPRO_5000093334Add
BLAST
Chaini810 – 28382029Non-structural protein 3 By similarityPRO_5000093335Add
BLAST
Chaini2839 – 3334496Non-structural protein 4 By similarityPRO_5000093336Add
BLAST
Chaini3335 – 36373033C-like proteinase By similarityPRO_5000093337Add
BLAST
Chaini3638 – 3924287Non-structural protein 6 By similarityPRO_5000093338Add
BLAST
Chaini3925 – 401692Non-structural protein 7 By similarityPRO_5000093339Add
BLAST
Chaini4017 – 4210194Non-structural protein 8 By similarityPRO_5000093340Add
BLAST
Chaini4211 – 4320110Non-structural protein 9 By similarityPRO_5000093341Add
BLAST
Chaini4321 – 4457137Non-structural protein 10 By similarityPRO_5000093342Add
BLAST
Chaini4458 – 5385928RNA-directed RNA polymerase By similarityPRO_5000093343Add
BLAST
Chaini5386 – 5988603Helicase By similarityPRO_5000093344Add
BLAST
Chaini5989 – 6509521Exoribonuclease By similarityPRO_5000093345Add
BLAST
Chaini6510 – 6883374Uridylate-specific endoribonuclease By similarityPRO_5000093346Add
BLAST
Chaini6884 – 7182299Putative 2'-O-methyl transferase By similarityPRO_5000093347Add
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

PRIDEiP0C6X2.

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

ProteinModelPortaliP0C6X2.
SMRiP0C6X2. Positions 4052-4202, 4326-4450, 6510-6878.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati945 – 954101
Repeati955 – 964102
Repeati965 – 974103
Repeati975 – 984104
Repeati985 – 994105
Repeati995 – 1004106
Repeati1005 – 1014107
Repeati1015 – 1024108
Repeati1025 – 1034109
Repeati1035 – 10441010
Repeati1045 – 10541011
Repeati1055 – 10641012
Repeati1065 – 10741013
Repeati1075 – 10841014
Domaini1123 – 1373251Peptidase C16 1Add
BLAST
Domaini1351 – 1522172MacroAdd
BLAST
Domaini1718 – 1978261Peptidase C16 2Add
BLAST
Domaini3335 – 3637303Peptidase C30Add
BLAST
Domaini5065 – 5227163RdRp catalyticAdd
BLAST
Domaini5386 – 546984CV MBDAdd
BLAST
Domaini5641 – 5822182(+)RNA virus helicase ATP-bindingAdd
BLAST
Domaini5823 – 5992170(+)RNA virus helicase C-terminalAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni945 – 108414014 X 10 AA tandem repeat of N-[DN]-D-E-D-V-V-T-G-DAdd
BLAST
Regioni2226 – 2463238HD1 By similarityAdd
BLAST
Regioni2844 – 3223380HD2 By similarityAdd
BLAST
Regioni3651 – 3863213HD3 By similarityAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi934 – 1116183Asp-richAdd
BLAST
Compositional biasi2229 – 232193Phe-richAdd
BLAST
Compositional biasi2616 – 26194Poly-Val
Compositional biasi5390 – 541526Cys-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.

Sequence similaritiesi

Contains 1 Macro domain.

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1238 – 126629C4-type 1 By similarityAdd
BLAST
Zinc fingeri1835 – 187137C4-type 2 By similarityAdd
BLAST
Zinc fingeri4394 – 441017 By similarityAdd
BLAST
Zinc fingeri4436 – 444914 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.
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.
[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: P0C6X2-1) [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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MIKTSKYGLG FKWAPEFRWL LPDAAEELAS PMKSDEGGLC PSTGQAMESV     50
GFVYDNHVKI DCRCILGQEW HVQSNLIRDI FVHEDLHVVE VLTKTAVKSG 100
TAILIKSPLH SLGGFPKGYV MGLFRSYKTK RYVVHHLSMT TSTTNFGEDF 150
LGWIVPFGFM PSYVHKWFQF CRLYIEESDL IISNFKFDDY DFSVEDAYAE 200
VHAEPKGKYS QKAYALLRQY RGIKPVLFVD QYGCDYSGKL ADCLQAYGHY 250
SLQDMRQKQS VWLANCDFDI VVAWHVVRDS RFVMRLQTIA TICGIKYVAQ 300
PTEDVVDGDV VIREPVHLLS ADAIVLKLPS LMKVMTHMDD FSIKSIYNVD 350
LCDCGFVMQY GYVDCFNDNC DFYGWVSGNM MDGFSCPLCC TVYDSSEVKA 400
QSSGVIPENP VLFTNSTDTV NHDSFNLYGY SVTPFGSCIY WSPRPGLWIP 450
IIKSSVKSYD DLVYSGVVGC KSIVKETALI THALYLDYVQ CKCGNLEQNH 500
ILGVNNSWCR QLLLNRGDYN MLLKNIDLFV KRRADFACKF AVCGDGFVPF 550
LLDGLIPRSY YLIQSGIFFT SLMSQFSQEV SDMCLKMCIL FMDRVSVATF 600
YIEHYVNRLV TQFKLLGTTL VNKMVNWFNT MLDASAPATG WLLYQLLNGL 650
FVVSQANFNF VALIPDYAKI LVNKFYTFFK LLLECVTVDV LKDMPVLKTI 700
NGLVCIVGNK FYNVSTGLIP GFVLPCNAQE QQIYFFEGVA ESVIVEDDVI 750
ENVKSSLSSY EYCQPPKSVE KICIIDNMYM GKCGDKFFPI VMNDKNICLL 800
DQAWRFPCAG RKVNFNEKPV VMEIPSLMTV KVMFDLDSTF DDILGKVCSE 850
FEVEKGVTVD DFVAVVCDAI ENALNSCKEH PVVGYQVRAF LNKLNENVVY 900
LFDEAGDEAM ASRMYCTFAI EDVEDVISSE AVEDTIDGVV EDTINDDEDV 950
VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV 1000
VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV 1050
VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNNDEEI VTGDNDDQIV 1100
VTGDDVDDIE SIYDFDTYKA LLVFNDVYND ALFVSYGSSV ETETYFKVNG 1150
LWSPTITHTN CWLRSVLLVM QKLPFKFKDL AIENMWLSYK VGYNQSFVDY 1200
LLTTIPKAIV LPQGGFVADF AYWFLNQFDI NAYANWCCLK CGFSFDLNGL 1250
DALFFYGDIV SHVCKCGHNM TLIAADLPCT LHFSLFDDNF CAFCTPKKIF 1300
IAACAVDVNV CHSVAVIGDE QIDGKFVTKF SGDKFDFIVG YGMSFSMSSF 1350
ELPQLYGLCI TPNVCFVKGD IINVARLVKA DVIVNPANGH MLHGGGVAKA 1400
IAVAAGKKFS KETAAMVKSK GVCQVGDCYV STGGKLCKTI LNIVGPDARQ 1450
DGRQSYVLLA RAYKHLNNYD CCLSTLISAG IFSVPADVSL TYLLGVVDKQ 1500
VILVSNNKED FDIIQKCQIT SVVGTKALAV RLTANVGRVI KFETDAYKLF 1550
LSGDDCFVSN SSVIQEVLLL RHDIQLNNDV RDYLLSKMTS LPKDWRLINK 1600
FDVINGVKTV KYFECPNSIY ICSQGKDFGY VCDGSFYKAT VNQVCVLLAK 1650
KIDVLLTVDG VNFKSISLTV GEVFGKILGN VFCDGIDVTK LKCSDFYADK 1700
ILYQYENLSL ADISAVQSSF GFDQQQLLAY YNFLTVCKWS VVVNGPFFSF 1750
EQSHNNCYVN VACLMLQHIN LKFNKWQWQE AWYEFRAGRP HRLVALVLAK 1800
GHFKFDEPSD ATDFIRVVLK QADLSGAICE LELICDCGIK QESRVGVDAV 1850
MHFGTLAKTD LFNGYKIGCN CAGRIVHCTK LNVPFLICSN TPLSKDLPDD 1900
VVAANMFMGV GVGHYTHLKC GSPYQHYDAC SVKKYTGVSG CLTDCLYLKN 1950
LTQTFTSMLT NYFLDDVEMV AYNPDLSQYY CDNGKYYTKP IIKAQFKPFA 2000
KVDGVYTNFK LVGHDICAQL NDKLGFNVDL PFVEYKVTVW PVATGDVVLA 2050
SDDLYVKRYF KGCETFGKPV IWFCHDEASL NSLTYFNKPS FKSENRYSVL 2100
SVDSVSEESQ GNVVTSVMES QISTKEVKLK GVRKTVKIED AIIVNDENSS 2150
IKVVKSLSLV DVWDMYLTGC DYVVWVANEL SRLVKSPTVR EYIRYGIKPI 2200
TIPIDLLCLR DDNQTLLVPK IFKARAIEFY GFLKWLFIYV FSLLHFTNDK 2250
TIFYTTEIAS KFTFNLFCLA LKNAFQTFRW SIFIKGFLVV ATVFLFWFNF 2300
LYINVIFSDF YLPNISVFPI FVGRIVMWIK ATFGLVTICD FYSKLGVGFT 2350
SHFCNGSFIC ELCHSGFDML DTYAAIDFVQ YEVDRRVLFD YVSLVKLIVE 2400
LVIGYSLYTV WFYPLFCLIG LQLFTTWLPD LFMLETMHWL IRFIVFVANM 2450
LPAFVLLRFY IVVTAMYKVV GFIRHIVYGC NKAGCLFCYK RNCSVRVKCS 2500
TIVGGVIRYY DITANGGTGF CVKHQWNCFN CHSFKPGNTF ITVEAAIELS 2550
KELKRPVNPT DASHYVVTDI KQVGCMMRLF YDRDGQRVYD DVDASLFVDI 2600
NNLLHSKVKV VPNLYVVVVE SDADRANFLN AVVFYAQSLY RPILLVDKKL 2650
ITTACNGISV TQTMFDVYVD TFMSHFDVDR KSFNNFVNIA HASLREGVQL 2700
EKVLDTFVGC VRKCCSIDSD VETRFITKSM ISAVAAGLEF TDENYNNLVP 2750
TYLKSDNIVA ADLGVLIQNG AKHVQGNVAK AANISCIWFI DAFNQLTADL 2800
QHKLKKACVK TGLKLKLTFN KQEASVPILT TPFSLKGGVV LSNLLYILFF 2850
VSLICFILLW ALLPTYSVYK SDIHLPAYAS FKVIDNGVVR DISVNDLCFA 2900
NKFFQFDQWY ESTFGSVYYH NSMDCPIVVA VMDEDIGSTM FNVPTKVLRH 2950
GFHVLHFLTY AFASDSVQCY TPHIQISYND FYASGCVLSS LCTMFKRGDG 3000
TPHPYCYSDG VMKNASLYTS LVPHTRYSLA NSNGFIRFPD VISEGIVRIV 3050
RTRSMTYCRV GACEYAEEGI CFNFNSSWVL NNDYYRSMPG TFCGRDLFDL 3100
FYQFFSSLIR PIDFFSLTAS SIFGAILAIV VVLVFYYLIK LKRAFGDYTS 3150
VVVINVVVWC INFLMLFVFQ VYPICACVYA CFYFYVTLYF PSEISVIMHL 3200
QWIVMYGAIM PFWFCVTYVA MVIANHVLWL FSYCRKIGVN VCSDSTFEET 3250
SLTTFMITKD SYCRLKNSVS DVAYNRYLSL YNKYRYYSGK MDTAAYREAA 3300
CSQLAKAMET FNHNNGNDVL YQPPTASVST SFLQSGIVKM VSPTSKIEPC 3350
IVSVTYGSMT LNGLWLDDKV YCPRHVICSS SNMNEPDYSA LLCRVTLGDF 3400
TIMSGRMSLT VVSYQMQGCQ LVLTVSLQNP YTPKYTFGNV KPGETFTVLA 3450
AYNGRPQGAF HVTMRSSYTI KGSFLCGSCG SVGYVLTGDS VKFVYMHQLE 3500
LSTGCHTGTD FTGNFYGPYR DAQVVQLPVK DYVQTVNVIA WLYAAILNNC 3550
AWFVQNDVCS TEDFNVWAMA NGFSQVKADL VLDALASMTG VSIETLLAAI 3600
KRLYMGFQGR QILGSCTFED ELAPSDVYQQ LAGVKLQSKT KRFIKETIYW 3650
ILISTFLFSC IISAFVKWTI FMYINTHMIG VTLCVLCFVS FMMLLVKHKH 3700
FYLTMYIIPV LCTLFYVNYL VVYKEGFRGF TYVWLSYFVP AVNFTYVYEV 3750
FYGCILCVFA IFITMHSINH DIFSLMFLVG RIVTLISMWY FGSNLEEDVL 3800
LFITAFLGTY TWTTILSLAI AKIVANWLSV NIFYFTDVPY IKLILLSYLF 3850
IGYILSCYWG FFSLLNSVFR MPMGVYNYKI SVQELRYMNA NGLRPPRNSF 3900
EAILLNLKLL GIGGVPVIEV SQIQSKLTDV KCANVVLLNC LQHLHVASNS 3950
KLWQYCSVLH NEILSTSDLS VAFDKLAQLL IVLFANPAAV DTKCLASIDE 4000
VSDDYVQDST VLQALQSEFV NMASFVEYEV AKKNLADAKN SGSVNQQQIK 4050
QLEKACNIAK SVYERDKAVA RKLERMADLA LTNMYKEARI NDKKSKVVSA 4100
LQTMLFSMVR KLDNQALNSI LDNAVKGCVP LSAIPALAAN TLTIVIPDKQ 4150
VFDKVVDNVY VTYAGSVWHI QTVQDADGIN KQLTDISVDS NWPLVIIANR 4200
YNEVANAVMQ NNELMPHKLK IQVVNSGSDM NCNIPTQCYY NNGSSGRIVY 4250
AVLSDVDGLK YTKIMKDDGN CVVLELDPPC KFSIQDVKGL KIKYLYFIKG 4300
CNTLARGWVV GTLSSTIRLQ AGVATEYAAN SSILSLCAFS VDPKKTYLDY 4350
IQQGGVPIIN CVKMLCDHAG TGMAITIKPE ATINQDSYGG ASVCIYCRAR 4400
VEHPDVDGIC KLRGKFVQVP LGIKDPILYV LTHDVCQVCG FWRDGSCSCV 4450
GSSVAVQSKD LNFLNRVRGT SVNARLVPCA SGLSTDVQLR AFDICNTNRA 4500
GIGLYYKVNC CRFQRIDDDG NKLDKFFVVK RTNLEVYNKE KTYYELTKSC 4550
GVVAEHDFFT FDIDGSRVPH IVRRNLSKYT MLDLCYALRH FDRNDCSILC 4600
EILCEYADCK ESYFSKKDWY DFVENPDIIN IYKKLGPIFN RALLNTVIFA 4650
DTLVEVGLVG VLTLDNQDLY GQWYDFGDFI QTAPGFGVAV ADSYYSYMMP 4700
MLTMCHVLDC ELFVNDSYRQ FDLVQYDFTD YKLELFNKYF KYWGMKYHPN 4750
TVDCDNDRCI IHCANFNILF SMVLPNTCFG PLVRQIFVDG VPFVVSIGYH 4800
YKELGVVMNL DVDTHRYRLS LKDLLLYAAD PAMHVASASA LLDLRTCCFS 4850
VAAITSGIKF QTVKPGNFNQ DFYEFVKSKG LFKEGSTVDL KHFFFTQDGN 4900
AAITDYNYYK YNLPTMVDIK QLLFVLEVVY KYFEIYDGGC IPASQVIVNN 4950
YDKSAGYPFN KFGKARLYYE ALSFEEQNEI YAYTKRNVLP TLTQMNLKYA 5000
ISAKNRARTV AGVSILSTMT GRMFHQKCLK SIAATRGVPV VIGTTKFYGG 5050
WDDMLRHLIK DVDNPVLMGW DYPKCDRAMP NILRIVSSLV LARKHEFCCS 5100
HGDRFYRLAN ECAQVLSEIV MCGGCYYVKP GGTSSGDATT AFANSVFNIC 5150
QAVTANVCSL MACNGHKIED LSIRNLQKRL YSNVYRTDYV DYTFVNEYYE 5200
FLCKHFSMMI LSDDGVVCYN SDYASKGYIA NISVFQQVLY YQNNVFMSES 5250
KCWVENDITN GPHEFCSQHT MLVKIDGDYV YLPYPDPSRI LGAGCFVDDL 5300
LKTDSVLLIE RFVSLAIDAY PLVHHENEEY QKVFRVYLEY IKKLYNDLGT 5350
QILDSYSVIL STCDGLKFTE ESFYKNMYLK SAVMQSVGAC VVCSSQTSLR 5400
CGSCIRKPLL CCKCCYDHVM ATNHKYVLSV SPYVCNAPNC DVSDVTKLYL 5450
GGMSYYCENH KPHYSFKLVM NGMVFGLYKQ SCTGSPYIDD FNKIASCKWT 5500
EVDDYVLANE CIERLKLFAA ETQKATEEAF KQSYASATIQ EIVSDREVIL 5550
CWETGKVKPP LNKNYVFTGY HFTSTGKTVL GEYVFDKSEL TNGVYYRATT 5600
TYKLSIGDVF VLTSHSVASL SAPTLVPQEN YASIRFSSVY SVPLVFQNNV 5650
ANYQHIGMKR YCTVQGPPGT GKSHLAIGLA VYYYTARVVY TAASHAAVDA 5700
LCEKAYKFLN INDCTRIIPA KVRVDCYDKF KINDTTCKYV FTTINALPEL 5750
VTDIVVVDEV SMLTNYELSV INARIKAKHY VYIGDPAQLP APRVLLSKGS 5800
LEPRHFNSIT KIMCCLGPDI FLGNCYRCPK EIVETVSALV YDNKLKAKND 5850
NSSLCFKVYF KGQTTHESSS AVNIQQIYLI SKFLKANPVW NSAVFISPYN 5900
SQNYVAKRVL GVQTQTVDSA QGSEYDYVIY SQTAETAHSV NVNRFNVAIT 5950
RAKKGIFCVM SNMQLFESLN FITLPLDKIQ NQTLPRLHCT TNLFKDCSKS 6000
CLGYHPAHAP SFLAVDDKYK VNENLAVNLN ICEPVLTYSR LISLMGFKLD 6050
LTLDGYSKLF ITKDEAIKRV RGWVGFDVEG AHATRENIGT NFPLQIGFST 6100
GVDFVVEATG LFAERDCYTF KKTVAKAPPG EKFKHLIPLM SKGQKWDIVR 6150
IRIVQMLSDY LLDLSDSVVF ITWSASFELT CLRYFAKLGR ELNCNVCSNR 6200
ATCYNSRTGY YGCWRHSYTC DYVYNPLIVD IQQWGYTGSL TSNHDIICNV 6250
HKGAHVASAD AIMTRCLAIY DCFCKSVNWN LEYPIISNEV SINTSCRLLQ 6300
RVMLKAAMLC NRYNLCYDIG NPKGLACVKD YEFKFYDAFP VAKSVKQLFY 6350
VYDVHKDNFK DGLCMFWNCN VDKYPSNSIV CRFDTRVLNK LNLPGCNGGS 6400
LYVNKHAFHT NPFTRTVFEN LKPMPFFYYS DTPCVYVDGL ESKQVDYVPL 6450
RSATCITRCN LGGAVCSKHA EEYCNYLESY NIVTTAGFTF WVYKNFDFYN 6500
LWNTFTTLQS LENVIYNLVN VGHYDGRTGE LPCAIMNDKV VVKINNVDTV 6550
IFKNNTSFPT NIAVELFTKR SIRHHPELKI LRNLNIDICW KHVLWDYVKD 6600
SLFCSSTYGV CKYTDLKFIE NLNILFDGRD TGALEAFRKA RNGVFISTEK 6650
LSRLSMIKGP QRADLNGVIV DKVGELKVEF WFAMRKDGDD VIFSRTDSLC 6700
SSHYWSPQGN LGGNCAGNVI GNDALTRFTI FTQSRVLSSF EPRSDLERDF 6750
IDMDDNLFIA KYGLEDYAFD HIVYGSFNHK VIGGLHLLIG LFRRKKKSNL 6800
LIQEFLQYDS SIHSYFITDQ ECGSSKSVCT VIDLLLDDFV SIVKSLNLSC 6850
VSKVVNINVD FKDFQFMLWC NDNKIMTFYP KMQATNDWKP GYSMPVLYKY 6900
LNVPLERVSL WNYGKPINLP TGCMMNVAKY TQLCQYLNTT TLAVPVNMRV 6950
LHLGAGSDKE VAPGSAVLRQ WLPSGSILVD NDLNPFVSDS LVTYFGDCMT 7000
LPFDCHWDLI ISDMYDPLTK NIGDYNVSKD GFFTYICHLI RDKLSLGGSV 7050
AIKITEFSWN ADLYKLMSCF AFWTVFCTNV NASSSEGFLI GINYLGKSSF 7100
EIDGNVMHAN YLFWRNSTTW NGGAYSLFDM TKFSLKLAGT AVVNLRPDQL 7150
NDLVYSLIER GKLLVRDTRK EIFVGDSLVN TC 7182

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

Length:7,182
Mass (Da):810,941
Last modified:June 10, 2008 - v1
Checksum:i663B34161D6248BC
GO
Isoform Replicase polyprotein 1a (identifier: P0C6U3-1) [UniParc]FASTAAdd to Basket

Also known as: pp1a, ORF1a polyprotein

The sequence of this isoform can be found in the external entry P0C6U3.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Note: Produced by conventional translation.

Length:4,471
Mass (Da):502,589
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AY597011 Genomic RNA. Translation: AAT98578.1.
RefSeqiYP_173236.1. NC_006577.2.

Genome annotation databases

GeneIDi3200429.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AY597011 Genomic RNA. Translation: AAT98578.1 .
RefSeqi YP_173236.1. NC_006577.2.

3D structure databases

ProteinModelPortali P0C6X2.
SMRi P0C6X2. Positions 4052-4202, 4326-4450, 6510-6878.
ModBasei Search...
MobiDBi Search...

Proteomic databases

PRIDEi P0C6X2.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 3200429.

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.
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.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Characterization and complete genome sequence of a novel coronavirus, coronavirus HKU1, from patients with pneumonia."
    Woo P.C.Y., Lau S.K.P., Chu C.-M., Chan K.-H., Tsoi H.-W., Huang Y., Wong B.H.L., Poon R.W.S., Cai J.J., Luk W.-K., Poon L.L.M., Wong S.S.Y., Guan Y., Peiris J.S.M., Yuen K.-Y.
    J. Virol. 79:884-895(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Entry informationi

Entry nameiR1AB_CVHN1
AccessioniPrimary (citable) accession number: P0C6X2
Secondary accession number(s): Q5MQD2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: June 10, 2008
Last modified: September 3, 2014
This is version 56 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Miscellaneous

Isolate N1 belongs to genotype A.

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