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P0C6X3 (R1AB_CVHN2) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 51. Feed History...

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

Names and origin

Protein namesRecommended name:
Replicase polyprotein 1ab

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

Cleaved into the following 15 chains:

  1. Non-structural protein 1
    Short name=nsp1
    Alternative name(s):
    p28
  2. Non-structural protein 2
    Short name=nsp2
    Alternative name(s):
    p65
  3. Non-structural protein 3
    Short name=nsp3
    EC=3.4.19.12
    EC=3.4.22.69
    Alternative name(s):
    PL1-PRO/PL2-PRO
    PL1/PL2
    Papain-like proteinases 1/2
    p210
  4. Non-structural protein 4
    Short name=nsp4
    Alternative name(s):
    Peptide HD2
    p44
  5. 3C-like proteinase
    Short name=3CL-PRO
    Short name=3CLp
    EC=3.4.22.-
    Alternative name(s):
    M-PRO
    nsp5
    p27
  6. Non-structural protein 6
    Short name=nsp6
  7. Non-structural protein 7
    Short name=nsp7
    Alternative name(s):
    p10
  8. Non-structural protein 8
    Short name=nsp8
    Alternative name(s):
    p22
  9. Non-structural protein 9
    Short name=nsp9
    Alternative name(s):
    p12
  10. Non-structural protein 10
    Short name=nsp10
    Alternative name(s):
    Growth factor-like peptide
    Short name=GFL
    p15
  11. RNA-directed RNA polymerase
    Short name=Pol
    Short name=RdRp
    EC=2.7.7.48
    Alternative name(s):
    nsp12
    p100
  12. Helicase
    Short name=Hel
    EC=3.6.4.12
    EC=3.6.4.13
    Alternative name(s):
    nsp13
    p67
  13. Exoribonuclease
    Short name=ExoN
    EC=3.1.13.-
    Alternative name(s):
    nsp14
  14. Uridylate-specific endoribonuclease
    EC=3.1.-.-
    Alternative name(s):
    NendoU
    nsp15
    p35
  15. Putative 2'-O-methyl transferase
    EC=2.1.1.-
    Alternative name(s):
    nsp16
Gene names
Name:rep
ORF Names:1a-1b
OrganismHuman coronavirus HKU1 (isolate N2) (HCoV-HKU1) [Complete proteome]
Taxonomic identifier443240 [NCBI]
Taxonomic lineageVirusesssRNA positive-strand viruses, no DNA stageNidoviralesCoronaviridaeCoronavirinaeBetacoronavirus
Virus hostHomo sapiens (Human) [TaxID: 9606]

Protein attributes

Sequence length7152 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceInferred from homology

General annotation (Comments)

Function

The replicase polyprotein of coronaviruses is a multifunctional protein: it contains the activities necessary for the transcription of negative stranded RNA, leader RNA, subgenomic mRNAs and progeny virion RNA as well as proteinases responsible for the cleavage of the polyprotein into functional products.

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

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

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

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

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

Nsp9 is a ssRNA-binding protein By similarity.

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

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

Catalytic activity

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

ATP + H2O = ADP + phosphate.

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

Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).

Subunit structure

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

Subcellular location

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

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

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

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

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.

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.

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.

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

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

Domain

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

Post-translational modification

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

Miscellaneous

Isolate N2 belongs to genotype B.

Sequence similarities

Belongs to the coronaviruses polyprotein 1ab family.

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

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

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

Contains 1 Macro domain.

Contains 2 peptidase C16 domains.

Contains 1 peptidase C30 domain.

Contains 1 RdRp catalytic domain.

Ontologies

Keywords
   Biological processActivation of host autophagy by virus
Decay of host mRNAs by virus
Host gene expression shutoff by virus
Host mRNA suppression by virus
Host translation shutoff by virus
Host-virus interaction
Inhibition of host innate immune response by virus
Inhibition of host interferon signaling pathway by virus
Inhibition of host ISG15 by virus
Modulation of host ubiquitin pathway by viral deubiquitinase
Modulation of host ubiquitin pathway by virus
Ubl conjugation pathway
Viral immunoevasion
Viral RNA replication
   Cellular componentHost cytoplasm
Host membrane
Membrane
   Coding sequence diversityRibosomal frameshifting
   DomainRepeat
Transmembrane
Transmembrane helix
Zinc-finger
   LigandATP-binding
Metal-binding
Nucleotide-binding
RNA-binding
Zinc
   Molecular functionEndonuclease
Exonuclease
Helicase
Hydrolase
Nuclease
Nucleotidyltransferase
Protease
RNA-directed RNA polymerase
Thiol protease
Transferase
   Technical termComplete proteome
Gene Ontology (GO)
   Biological_processinduction by virus of catabolism of host mRNA

Inferred from electronic annotation. Source: UniProtKB-KW

induction by virus of host autophagy

Inferred from electronic annotation. Source: UniProtKB-KW

modulation by virus of host protein ubiquitination

Inferred from electronic annotation. Source: UniProtKB-KW

proteolysis

Inferred from electronic annotation. Source: UniProtKB-KW

suppression by virus of host ISG15 activity

Inferred from electronic annotation. Source: UniProtKB-KW

suppression by virus of host translation

Inferred from electronic annotation. Source: UniProtKB-KW

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

Inferred from electronic annotation. Source: UniProtKB-KW

transcription, DNA-templated

Inferred from electronic annotation. Source: InterPro

viral genome replication

Inferred from electronic annotation. Source: InterPro

viral protein processing

Inferred from electronic annotation. Source: InterPro

   Cellular_componenthost cell endoplasmic reticulum-Golgi intermediate compartment

Inferred from electronic annotation. Source: UniProtKB-SubCell

host cell membrane

Inferred from electronic annotation. Source: UniProtKB-SubCell

host cell perinuclear region of cytoplasm

Inferred from electronic annotation. Source: UniProtKB-SubCell

integral component of membrane

Inferred from electronic annotation. Source: UniProtKB-KW

   Molecular_functionATP binding

Inferred from electronic annotation. Source: UniProtKB-KW

RNA binding

Inferred from electronic annotation. Source: UniProtKB-KW

RNA-directed RNA polymerase activity

Inferred from electronic annotation. Source: UniProtKB-KW

cysteine-type endopeptidase activity

Inferred from electronic annotation. Source: InterPro

endonuclease activity

Inferred from electronic annotation. Source: UniProtKB-KW

exoribonuclease activity, producing 5'-phosphomonoesters

Inferred from electronic annotation. Source: InterPro

helicase activity

Inferred from electronic annotation. Source: UniProtKB-KW

methyltransferase activity

Inferred from electronic annotation. Source: InterPro

omega peptidase activity

Inferred from electronic annotation. Source: InterPro

zinc ion binding

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by ribosomal frameshifting. [Align] [Select]
Isoform Replicase polyprotein 1ab (identifier: P0C6X3-1)

Also known as: pp1ab;

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.
Note: Produced by -1 ribosomal frameshifting at the 1a-1b genes boundary.
Isoform Replicase polyprotein 1a (identifier: P0C6U4-1)

Also known as: pp1a; ORF1a polyprotein;

The sequence of this isoform can be found in the external entry P0C6U4.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Note: Produced by conventional translation.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 222222Non-structural protein 1 By similarity
PRO_0000297773
Chain223 – 809587Non-structural protein 2 By similarity
PRO_0000297774
Chain810 – 28081999Non-structural protein 3 By similarity
PRO_0000297775
Chain2809 – 3304496Non-structural protein 4 By similarity
PRO_0000297776
Chain3305 – 36073033C-like proteinase By similarity
PRO_0000297777
Chain3608 – 3894287Non-structural protein 6 By similarity
PRO_0000297778
Chain3895 – 398692Non-structural protein 7 By similarity
PRO_0000297779
Chain3987 – 4180194Non-structural protein 8 By similarity
PRO_0000297780
Chain4181 – 4290110Non-structural protein 9 By similarity
PRO_0000297781
Chain4291 – 4427137Non-structural protein 10 By similarity
PRO_0000297782
Chain4428 – 5355928RNA-directed RNA polymerase By similarity
PRO_0000297783
Chain5356 – 5958603Helicase By similarity
PRO_0000297784
Chain5959 – 6479521Exoribonuclease By similarity
PRO_0000297785
Chain6480 – 6853374Uridylate-specific endoribonuclease By similarity
PRO_0000297786
Chain6854 – 7152299Putative 2'-O-methyl transferase By similarity
PRO_0000297787

Regions

Transmembrane2196 – 221621Helical; Potential
Transmembrane2257 – 227721Helical; Potential
Transmembrane2288 – 230821Helical; Potential
Transmembrane2371 – 239121Helical; Potential
Transmembrane2413 – 243321Helical; Potential
Transmembrane2814 – 283421Helical; Potential
Transmembrane3089 – 310921Helical; Potential
Transmembrane3121 – 314121Helical; Potential
Transmembrane3148 – 316821Helical; Potential
Transmembrane3173 – 319321Helical; Potential
Transmembrane3621 – 364121Helical; Potential
Transmembrane3646 – 366621Helical; Potential
Transmembrane3671 – 369121Helical; Potential
Transmembrane3714 – 373421Helical; Potential
Transmembrane3742 – 376221Helical; Potential
Transmembrane3770 – 379021Helical; Potential
Transmembrane3813 – 383321Helical; Potential
Repeat945 – 954101
Repeat955 – 964102
Repeat965 – 974103
Repeat975 – 984104
Repeat985 – 994105
Repeat995 – 1004106
Repeat1005 – 1014107
Repeat1015 – 1024108
Repeat1025 – 1034109
Repeat1035 – 10441010
Repeat1045 – 10541011
Domain1093 – 1343251Peptidase C16 1
Domain1321 – 1492172Macro
Domain1688 – 1948261Peptidase C16 2
Domain3305 – 3607303Peptidase C30
Domain5035 – 5197163RdRp catalytic
Domain5356 – 543984CV MBD
Domain5611 – 5792182(+)RNA virus helicase ATP-binding
Domain5793 – 5962170(+)RNA virus helicase C-terminal
Zinc finger1208 – 123629C4-type 1 By similarity
Zinc finger1805 – 184137C4-type 2 By similarity
Zinc finger4364 – 438017 By similarity
Zinc finger4406 – 441914 By similarity
Nucleotide binding5636 – 56438ATP By similarity
Region945 – 105411011 X 10 AA tandem repeat of N-[DN]-D-E-D-V-V-T-G-D
Region2196 – 2433238HD1 By similarity
Region2814 – 3193380HD2 By similarity
Region3621 – 3833213HD3 By similarity
Compositional bias934 – 1086153Asp-rich
Compositional bias2199 – 229193Phe-rich
Compositional bias2586 – 25894Poly-Val
Compositional bias5360 – 538526Cys-rich

Sites

Active site11311For PL1-PRO activity By similarity
Active site12821For PL1-PRO activity By similarity
Active site17271For PL2-PRO activity By similarity
Active site18841For PL2-PRO activity By similarity
Active site33451For 3CL-PRO activity By similarity
Active site34491For 3CL-PRO activity By similarity
Site222 – 2232Cleavage; by PL1-PRO By similarity
Site809 – 8102Cleavage; by PL1-PRO By similarity
Site2808 – 28092Cleavage; by PL2-PRO By similarity
Site3304 – 33052Cleavage; by 3CL-PRO By similarity
Site3607 – 36082Cleavage; by 3CL-PRO By similarity
Site3894 – 38952Cleavage; by 3CL-PRO By similarity
Site3986 – 39872Cleavage; by 3CL-PRO By similarity
Site4180 – 41812Cleavage; by 3CL-PRO By similarity
Site4290 – 42912Cleavage; by 3CL-PRO By similarity
Site4427 – 44282Cleavage; by 3CL-PRO By similarity
Site5355 – 53562Cleavage; by 3CL-PRO By similarity
Site6479 – 64802Cleavage; by 3CL-PRO By similarity
Site6853 – 68542Cleavage; by 3CL-PRO By similarity

Sequences

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

Last modified June 10, 2008. Version 1.
Checksum: 1B6E93484EF69631

FASTA7,152807,495
        10         20         30         40         50         60 
MIKTSKYGLG FKWAPEFRWL LPDAAEELAS PMKSDEGGLC PSTGQAMESV GFVYDNHVKI 

        70         80         90        100        110        120 
DCRCILGQEW HVQSNLIRDI FVHEDLHVVE VLTKTAVKSG TAILIKSPLH SLGGFPKGYV 

       130        140        150        160        170        180 
MGLFRSYKTK RYVVHHLSMT TSTTNFGEDF LGWIVPFGFM PSYVHKWFQF CRLYIEESDL 

       190        200        210        220        230        240 
IISNFKFDDY DFSVEDAYAE VHAEPKGKYS QKAYALLRQY RGIKPVLFVD QYGCDYSGKL 

       250        260        270        280        290        300 
ADCLQAYGHY SLQDMRQKQS VWLANCDFDI VVAWHVVRDS RFVMRLQTIA TICGIKYVAQ 

       310        320        330        340        350        360 
PTEDVVDGAV VIREPVHLLS ADAIVLKLPS LMKVMTHMDD FSIKSIYNVD LCDCGFVMQY 

       370        380        390        400        410        420 
GYVDCFNDNC DFYGWVSGNM MDGFSCPLCC TVYDSSEVKA QSSGVIPENP VLFTNSTDTV 

       430        440        450        460        470        480 
NPDSFNLYGY SVTPFGSCIY WSPRPGLWIP IIKSSVKSYD DLVYSGVVGC KSIVKETALI 

       490        500        510        520        530        540 
THALYLDYVQ CKCGNLEQNH ILGVNNSWCR QLLLNRGDYN MLLKNIDLFV KRRADFACKF 

       550        560        570        580        590        600 
AVCGDGFVPF LLDGLIPRSY YLIQSGIFFT SLMSQFSQEV SDMCLKMCIL FMDRVSVATF 

       610        620        630        640        650        660 
YIEHYVNRLV TQFKLLGTTL VNKMVNWFNT MLDASAPATG WLLYQLLNGL FVVSQANFNF 

       670        680        690        700        710        720 
VALIPDYAKI LVNKFYTFFK LLLECVTVDV LKDMPVLKTI NGLVCIVGNK FYNVSTGLIP 

       730        740        750        760        770        780 
GFVLPCNAQE QQIYFFEGVA ESVIVEDDVI ENVKSSLSSY EYCQPPKSVE KICIIDNMYM 

       790        800        810        820        830        840 
GKCGDKFFPI VMNDKNICLL DQAWRFPCAG RKVNFNEKPV VMEIPSLMTV KVMFDLDSTF 

       850        860        870        880        890        900 
DDILGKVCSE FEVEKGVTVD DFVAVVCDAI ENALNSCKDH PVVGYQVRAF LNKLNENVVY 

       910        920        930        940        950        960 
LFDEAGDEAM ASRMYCTFAI EDVEDVISSE AVEDTIDGVV EDTINDDEDV VTGDNDDEDV 

       970        980        990       1000       1010       1020 
VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV 

      1030       1040       1050       1060       1070       1080 
VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEEI VTGDNDDQIV VTGDDVDDIE 

      1090       1100       1110       1120       1130       1140 
SVYDFDTYKA LLVFNDVYND ALFVSYGSSV ETETYFKVNG LWSPTITHTN CWLRSVLLVM 

      1150       1160       1170       1180       1190       1200 
QKLPFKFKDL AIENMWLSYK VGYNQSFVDY LLTTIPKAIV LPQGGYVADF AYWFLNQFDI 

      1210       1220       1230       1240       1250       1260 
NAYANWCCLK CGFSFDLNGL DAVFFYGDIV SHVCKCGHNM TLIAADLPCT LHFSLFDDNF 

      1270       1280       1290       1300       1310       1320 
CAFCTPKKIF IAACAVDVNV CHSVAVIGDE QIDGKFVTKF SGDKFDFIVG YGMSFSMSSF 

      1330       1340       1350       1360       1370       1380 
ELAQLYGLCI TPNVCFVKGD IINVARLVKA DVIVNPANGH MLHGGGVAKA IAVAAGKKFS 

      1390       1400       1410       1420       1430       1440 
KETAAMVKSK GVCQVGDCYV STGGKLCKTI LNIVGPDARQ DGRQSYVLLA RAYKHLNNYD 

      1450       1460       1470       1480       1490       1500 
CCLSTLISAG IFSVPADVSL TYLLGVVDKQ VILVSNNKED FDIIQKCQIT SVVGTKALAV 

      1510       1520       1530       1540       1550       1560 
RLTANVGRVI KFETDAYKLF LSGDDCFVSN SSVIQEVLLL RHDIQLNNDV RDYLLSKMTS 

      1570       1580       1590       1600       1610       1620 
LPKDWRLINK FDVINGVKTV KYFECPNSIY ICSQGKDFGY VCDGSFYKAT VNQVCVLLAK 

      1630       1640       1650       1660       1670       1680 
KIDVLLTVDG VNFKSISLTV GEVFGKILGN VFCDGIDVTK LKCSDFYADK ILYQYENLSL 

      1690       1700       1710       1720       1730       1740 
ADISAVQSSF GFDQQQLLAY YNFLTVCKWS VVVNGPFFSF EQSHNNCYVN VACLMLQHIN 

      1750       1760       1770       1780       1790       1800 
LKFNKWQWQE AWYEFRAGRP HRLVALVLAK GHFKFDEPSD ATDFIRVVLK QADLSGAICE 

      1810       1820       1830       1840       1850       1860 
LELICDCGIK QESRVGVDAV MHFGTLAKTD LFNGYKIGCN CAGRIVHCTK LNVPFLICSN 

      1870       1880       1890       1900       1910       1920 
TPLSKDLPDD VVAANMFMGV GVGHYTHLKC GSPYQHYDAC SVKKYTGVSG CLTDCLYLKN 

      1930       1940       1950       1960       1970       1980 
LTQTFTSMLT NYFLDDVEMV AYNPDLSQYY CDNGKYYTKP IIKAQFKPFA KVDGVYTNFK 

      1990       2000       2010       2020       2030       2040 
LVGHDICAQL NDKLGFNVDL PFVEYKVTVW PVATGDVVLA SDDLYVKRYF KGCETFGKPV 

      2050       2060       2070       2080       2090       2100 
IWLCHDEASL NSLTYFNKPS FKSENRYSVL SVDSVSEESQ GNVVTSVMES QISTKEVKLK 

      2110       2120       2130       2140       2150       2160 
GVRKTVKIED AIIVNDENSS IKVVKSLSLV DVWDMYLTGC DYVVWVANEL SRLVKSPTVR 

      2170       2180       2190       2200       2210       2220 
EYIRYGIKPI TIPIDLLCLR DDNQTLLVPK IFKARAIEFY GFLKWLFIYV FSLLHFTNDK 

      2230       2240       2250       2260       2270       2280 
TIFYTTEIAS KFTFNLFCLA LKNAFQTFRW SIFIKGFLVV ATVFLFWFNF LYINVIFSDF 

      2290       2300       2310       2320       2330       2340 
YLPNISVFPI FVGRIVMWIK ATFGLVTICD FYSKLGVGFT SHFCNGSFIC ELCYSGFDML 

      2350       2360       2370       2380       2390       2400 
DTYAAIDFVQ YEVDRRVLFD YVSLVKLIVE LVIGYSLYTV WFYPLFCLIG LQLFTTWLPD 

      2410       2420       2430       2440       2450       2460 
LFMLETMHWL IRFIVFVANM LPAFVLLRFY IVVTAMYKVV GFIRHIVYGC NKAGCLFCYK 

      2470       2480       2490       2500       2510       2520 
RNCSVRVKCS TIVGGVIRYY DITANGGTGF CVKHQWNCFN CHSFKPGNTF ITVEAAIELS 

      2530       2540       2550       2560       2570       2580 
KELKRPVNPT DASHYVVTDI KQVGCMMRLF YDRDGQRVYD DVDASLFVDI NNLLHSKVKV 

      2590       2600       2610       2620       2630       2640 
VPNLYVVVVE SDADRANFLN AVVFYAQSLY RPILLVDKKL ITTACNGISV TQTMFDVYVD 

      2650       2660       2670       2680       2690       2700 
TFMSHFDVDR KSFNNFVNIA HASLREGVQL EKVLDTFVGC VRKCCSIDSD VETRFITKSM 

      2710       2720       2730       2740       2750       2760 
ISAVAAGLEF TDENYNNLVP TYLKSDNIVA ADLGVLIQNG AKHVQGNVAK AANISCIWFI 

      2770       2780       2790       2800       2810       2820 
DTFNQLTADL QHKLKKACVK TGLKLKLTFN KQEASVPILT TPFSLKGGVV LSNLLYILFF 

      2830       2840       2850       2860       2870       2880 
ISLICFILLW ALLPTYSVYK SDIHLPAYAS FKVIDNGVVR DISVNDLCFA NKFFQFDQWY 

      2890       2900       2910       2920       2930       2940 
ESTFGSFYYH NSMDCPIVVA VMDEDIGSTM FNVPTKVLRH GFHVLHFLTY AFASDSVQCY 

      2950       2960       2970       2980       2990       3000 
TPHIQISYND FYASGCVLSS LCTMFKRGDG TPHPYCYSDG VMKNASLYTS LVPHTRYSLA 

      3010       3020       3030       3040       3050       3060 
NSNGFIRFPD VISEGIVRIV RTRSMTYCRV GACEYAEEGI CFNFNSSWVL NNDYYRSMPG 

      3070       3080       3090       3100       3110       3120 
TFCGRDLFDL FYQFFSSLIR PIDFFSLTAS SIFGAILAIV VVLVFYYLIK LKRAFGDYTS 

      3130       3140       3150       3160       3170       3180 
VVVINVIVWC INFLMLFVFQ VYPICACVYA CFYFYVTLYF PSEISVIMHL QWIVMYGAIM 

      3190       3200       3210       3220       3230       3240 
PFWFCVTYVA MVIANHVLWL FSYCRKIGVN VCNDSTFEET SLTTFMITKD SYCRLKNSVS 

      3250       3260       3270       3280       3290       3300 
DVAYNRYLSL YNKYRYYSGK MDTAAYREAA CSQLAKAMET FNHNNGNDVL YQPPTASVST 

      3310       3320       3330       3340       3350       3360 
SFLQSGIVKM VSPTSKIEPC IVSVTYGSMT LNGLWLDDKV YCPRHVICLS SNMNEPDYSA 

      3370       3380       3390       3400       3410       3420 
LLCRVTLGDF TIMSGRMSLT VVSYQMQGCQ LVLTVSLQNP YTPKYTFGVV KPGETFTVLA 

      3430       3440       3450       3460       3470       3480 
AYNGRPQGAF HVTMRSSYTI KGSFLCGSCG SVGYVLTGDS VKFVYMHQLE LSTGCHTGTD 

      3490       3500       3510       3520       3530       3540 
FTGNFYGPYR DAQVVQLPVK DYVQTVNVIA WLYAAILNNC AWFVQNDVCS IEDFNVWAMT 

      3550       3560       3570       3580       3590       3600 
NGFSQVKADL VLDALASMTG VSIETLLAAI KRLYMGFQGR QILGSCTFED ELAPSDVYQQ 

      3610       3620       3630       3640       3650       3660 
LAGVKLQSKT KRFIKETIYW ILISTFLFSC IISAFVKWTI FMYINTHMIG VTLCVLCFVS 

      3670       3680       3690       3700       3710       3720 
FMMLLVKHKH FYLTMYIIPV LCTLFYVNYL VVYKEGFRGL TYVWLSYFVP AVNFTYVYEV 

      3730       3740       3750       3760       3770       3780 
FYGCILCVFA IFITMHSINH DIFSLMFLVG RIVTLISMWY FGSNLEEDVL LFITAFLGTY 

      3790       3800       3810       3820       3830       3840 
TWTTILSLAI AKIVANWLSV NIFYFTDVPY IKLILLSYLF IGYILSCYWG FFSLLNSVFR 

      3850       3860       3870       3880       3890       3900 
MPMGVYNYKI SVQELRYMNA NGLRPPRNSF EAILLNLKLL GIGGVPVIEV SQIQSKLTDV 

      3910       3920       3930       3940       3950       3960 
KCANVVLLNC LQHLHVASNS RLWQYCSILH NEILSTSDLS VAFDKLAQLL IVLFANPAAV 

      3970       3980       3990       4000       4010       4020 
DTKCLASIDE VSDDYVQDST VLQALQSEFV NMASFVEYEV AKKNLADAKN SGSVNQQQIK 

      4030       4040       4050       4060       4070       4080 
QLEKACNIAK SVYERDKAVA RKLERMADLA LTNMYKEARI NDKKSKVVSA LQTMLFSMVR 

      4090       4100       4110       4120       4130       4140 
KLDNQALNSI LDNAVKGCVP LNAIPALAAN TLTIIIPDKQ VFDKVVDNVY VAYAGSVWHI 

      4150       4160       4170       4180       4190       4200 
QTVQDADGIN KQLTDISVDS NWPLVIIANR YNEVANAVMQ NNELMPHKLK IQVVNSGSDM 

      4210       4220       4230       4240       4250       4260 
NCNIPTQCYY NNGSSGRIVY AVLSDVDGLK YTKIIKDDGN CVVLELDPPC KFSIQDVKGL 

      4270       4280       4290       4300       4310       4320 
KIKYLYFIKG CNTLARGWVV GTLSSTIRLQ AGVATEYAAN SSILSLCAFS VDPKKTYLDY 

      4330       4340       4350       4360       4370       4380 
IQQGGVPIIN CVKMLCDHAG TGMAITIKPE ATINQDSYGG ASVCIYCRAR VEHPDVDGLC 

      4390       4400       4410       4420       4430       4440 
KLRGKFVQVP LGIKDPILYV LTHDVCQVCG FWRDGSCSCV GSGVAVQSKD LNFLNRVRGT 

      4450       4460       4470       4480       4490       4500 
SVNARLVPCA SGLSTDVQLR AFDICNTNRA GIGLYYKVNC CRFQRIDDDG NKLDKFFVVK 

      4510       4520       4530       4540       4550       4560 
RTNLEVYNKE KTYYELTKSC GVVAEHDFFT FDIDGSRVPH IVRKNLSKYT MLDLCYALRH 

      4570       4580       4590       4600       4610       4620 
FDCNDCSVLC EILCEYADCK ESYFSKKDWY DFVENPDIIN IYKKLGPIFN RALLNTVSFA 

      4630       4640       4650       4660       4670       4680 
DTLVKVGLVG VLTLDNQDLY GQWYDFGDFI QTAPGFGVAV ADSYYSYMMP MLTMCHVLDC 

      4690       4700       4710       4720       4730       4740 
ELFVNDSYRQ FDLVQYDFTD YKLELFNKYF KYWGMKYHPN TVDCDNDRCI IHCANFNILF 

      4750       4760       4770       4780       4790       4800 
SMVLPNTCFG PLVRQIFVDG VPFVVSIGYH YKELGVVMNL DVDTHRYRLS LKDLLLYAAD 

      4810       4820       4830       4840       4850       4860 
PAMHVASASA LLDLRTCCFS VAAITSGIKF QTVKPGNFNQ DFYEFVKSKG LFKEGSTVDL 

      4870       4880       4890       4900       4910       4920 
KHFFFTQDGN AAITDYNYYK YNLPTMVDIK QLLFVLEVVY KYFEIYDGGC IPASQVIVNN 

      4930       4940       4950       4960       4970       4980 
YDKSAGYPFN KFGKARLYYE ALSFEEQNEI YAYTKRNVLP TLTQMNLKYA ISAKNRARTV 

      4990       5000       5010       5020       5030       5040 
AGVSILSTMT GRMFHQKCLK SIAATRGVPV VIGTTKFYGG WDDMLRHLIK DVDNPVLMGW 

      5050       5060       5070       5080       5090       5100 
DYPKCDRAMP NILRIVSSLV LARKHEFCCS HGDRFYRLAN ECAQVLSEIV MCGGCYYVKP 

      5110       5120       5130       5140       5150       5160 
GGTSSGDATT AFANSVFNIC QAVTANVCSL MACNGHKIED LSIRNLQKRL YSNVYRTDYV 

      5170       5180       5190       5200       5210       5220 
DYTFVNEYYE FLCKHFSMMI LSDDGVVCYN SDYASKGYIA NISVFQQVLY YQNNVFMSES 

      5230       5240       5250       5260       5270       5280 
KCWVENDITN GPHEFCSQHT MLVKIDGDYV YLPYPDPSRI LGAGCFVDDL LKTDSVLLIE 

      5290       5300       5310       5320       5330       5340 
RFVSLAIDAY PLVHHENEEY QKVFRVYLEY IKKLYNDLGN QILDSYSVIL STCDGLKFTD 

      5350       5360       5370       5380       5390       5400 
ESFYKNMYLK SAVMQSVGAC VVCSSQTSLR CGSCIRKPLL CCKCCYDHVM ATNHKYVLSV 

      5410       5420       5430       5440       5450       5460 
SPYVCNAPNC DVSDVTKLYL GGMSYYCENH KPHYSFKLVM NGMVFGLYKQ SCTGSPYIDD 

      5470       5480       5490       5500       5510       5520 
FNKIASCKWT EVDDYVLANE CIERLKLFAA ETQKATEEAF KQSYASATIQ EIVSDREIIL 

      5530       5540       5550       5560       5570       5580 
CWETGKVKPP LNKNYVFTGY HFTSTGKTVL GEYVFDKSEL TNGVYYRATT TYKLSIGDVF 

      5590       5600       5610       5620       5630       5640 
VLTSHSVANL SAPTLVPQEN YASIRFSSVY SVPLLFQTNV ANYQHIGMKR YCTVQGPPGT 

      5650       5660       5670       5680       5690       5700 
GKSHLAIGLA VYYYTARVVY TAASHAAVDA LCEKAYKFLN INDCTRIIPA KVRVDCYDKF 

      5710       5720       5730       5740       5750       5760 
KINDTTCKYV FTTINALPEL VTDIVVVDEV SMLTNYELSV INARVKAKHY VYIGDPAQLP 

      5770       5780       5790       5800       5810       5820 
APRVLLSKGS LEPRHFNSIT KIMCCLGPDI FLGNCYRCPK EIVETVSALV YDNKLKAKND 

      5830       5840       5850       5860       5870       5880 
NSSLCFKVYF KGQTTHESSS AVNIQQIYLI SKFLKANPVW NSAVFISPYN SQNYVAKRIL 

      5890       5900       5910       5920       5930       5940 
GVQTQTVDSA QGSEYDYVIY SQTAETAHSI NVNRFNVAIT RAKKGIFCVM SNMQLFESLN 

      5950       5960       5970       5980       5990       6000 
FITLPLDKIQ NQTLSRLHCT TNLFKDCSKN FLGYHPAHAP SFLSVDDKYK VNEDLAVCLN 

      6010       6020       6030       6040       6050       6060 
ICEPVLTYSR LISLMGFKLD LTLDGYSKFF ITKDEAIKRV RGWVGFDVEG AHATRDNIGT 

      6070       6080       6090       6100       6110       6120 
NFPLQIGFST GVDFVVEATG LFAERDCYIF KRTVAKAPPG DNFKHLIPLM SKGQKWDVVR 

      6130       6140       6150       6160       6170       6180 
IRIVQMLSDY LLDLSDSVVF ITWSASFELT CLRYFAKLGR ELNCDVCPNR ATCYNSRTGY 

      6190       6200       6210       6220       6230       6240 
YGCWRHSYTC DYVYNPLIVD IQQWGYTGSL TSNHDIICNV HKGAHVASSD AIMTRCLAIY 

      6250       6260       6270       6280       6290       6300 
DCFCKSVNWN LEYPIISNEV SINTSCRLLQ RVMLKAAMLC NRYNLCYDIG NPKGIACVKD 

      6310       6320       6330       6340       6350       6360 
YEFKFYDASP VVKSVKQLFY VYDVHKDNFK DGLCMFWNCN VDKYPSNSIV CRFDTRVLNK 

      6370       6380       6390       6400       6410       6420 
LNLPGCNGGS LYVNKHAFHT NPFTRTVFEN LKPMPFFYYS DTPCVYVDGL ESKQVDYVPL 

      6430       6440       6450       6460       6470       6480 
RSATCITRCN LGGAVCSKHA EDYCKYLESY NVATTAGFTF WVYKTFDFYN LWNTFTMLQS 

      6490       6500       6510       6520       6530       6540 
LENVIYNLVN AGHYDGRIGE LPCAIMNDKV VVKINNVDTV IFKNNTSLPT NIAVELFTKR 

      6550       6560       6570       6580       6590       6600 
SIRHHPELKI LRNLNIDICW KHVLWDYVKD SLFCSSTYGV CKYTDLNFIE NLNVLFDGRD 

      6610       6620       6630       6640       6650       6660 
NGALEAFRKA RNGVFISTGK LSSLSMIKGP QRADLNGVIV DKVGELNVEF WFAMRKDGDD 

      6670       6680       6690       6700       6710       6720 
VIFSRADSLS PSHYWSPQGN LGGNCAGNAS GNDALARFTI FTQSRVLSTF EPRSDLERDF 

      6730       6740       6750       6760       6770       6780 
IDMEDSLFIA KYGLEDYAFD HIVYGSFNYK VIGGLHLLIG LFRRLKKSNL VIQEFLQYDS 

      6790       6800       6810       6820       6830       6840 
SIHSYFITDQ ECGSSKSVCT VIDLLLDDFV VIVKSLNLNC VSKVVNINVD FKDFQFMLWC 

      6850       6860       6870       6880       6890       6900 
NDNKIMTFYP KMQATSDWKP GYSMPVLYKY LNVPLERVSL WNYGKAINLP TGCMMNVAKY 

      6910       6920       6930       6940       6950       6960 
TQLCQYLNTT TLAVPVNMRV LHLGAGSDKE VAPGSAVLRQ WLPSGSILVD NDLNPFVSDS 

      6970       6980       6990       7000       7010       7020 
LVTYFGDCMT LPFDCHWDLI ISDMYDPLTK NIGDYNVSKD GFFTYICYLI RDKLSLGGSV 

      7030       7040       7050       7060       7070       7080 
AIKITEFSWN ADLYKLMSYF AFWTVFCTNV NASSSEGFLI GINYLGKSCF EIDGNVMHAN 

      7090       7100       7110       7120       7130       7140 
YLFWRNSTTW NGGAYSLFDM SKFSLKLAGT AVVNLRPDQL NDLVYSLIER GKLLVRDTRK 

      7150 
EIFVGDSLVN TC 

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

See P0C6U4.

References

[1]"Comparative analysis of 22 coronavirus HKU1 genomes reveals a novel genotype and evidence of natural recombination in coronavirus HKU1."
Woo P.C.Y., Lau S.K.P., Yip C.C.Y., Huang Y., Tsoi H.-W., Chan K.-H., Yuen K.-Y.
J. Virol. 80:7136-7145(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AY884001 Genomic RNA. Translation: AAX76519.1.

3D structure databases

ProteinModelPortalP0C6X3.
SMRP0C6X3. Positions 4022-4172, 4296-4420, 6480-6848.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Family and domain databases

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

Entry information

Entry nameR1AB_CVHN2
AccessionPrimary (citable) accession number: P0C6X3
Secondary accession number(s): Q14EB2
Entry history
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: June 10, 2008
Last modified: April 16, 2014
This is version 51 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Peptidase families

Classification of peptidase families and list of entries