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P0C6X3

- R1AB_CVHN2

UniProt

P0C6X3 - R1AB_CVHN2

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Protein

Replicase polyprotein 1ab

Gene

rep

Organism
Human coronavirus HKU1 (isolate N2) (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.By similarity
Host translation inhibitor nsp1: Inhibits host translation by interacting with the 40S ribosomal subunit. The nsp1-40S ribosome complex further induces an endonucleolytic cleavage near the 5'UTR of host mRNAs, targeting them for degradation. Viral mRNAs are not susceptible to nsp1-mediated endonucleolytic RNA cleavage thanks to the presence of a 5'-end leader sequence and are therefore protected from degradation. By suppressing host gene expression, nsp1 facilitates efficient viral gene expression in infected cells and evasion from host immune response.By similarity
Non-structural protein 2: May play a role in the modulation of host cell survival signaling pathway by interacting with host PHB and PHB2. Indeed, these two proteins play a role in maintaining the functional integrity of the mitochondria and protecting cells from various stresses.By similarity
Papain-like proteinase: Responsible for the cleavages located at the N-terminus of the 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. Participates together with nsp4 in the assembly of virally-induced cytoplasmic double-membrane vesicles necessary for viral replication. Antagonizes innate immune induction of type I interferon by blocking the phosphorylation, dimerization and subsequent nuclear translocation of host IRF3. Prevents also host NF-kappa-B signaling.By similarity
Non-structural protein 4: Participates in the assembly of virally-induced cytoplasmic double-membrane vesicles necessary for viral replication.By similarity
Proteinase 3CL-PRO: Cleaves the C-terminus of replicase polyprotein at 11 sites. Recognizes substrates containing the core sequence [ILMVF]-Q-|-[SGACN]. Also able to bind an ADP-ribose-1''-phosphate (ADRP).By similarityPROSITE-ProRule annotation
Non-structural protein 6: Plays a role in the initial induction of autophagosomes from host reticulum endoplasmic. Later, limits the expansion of these phagosomes that are no longer able to deliver viral components to lysosomes.By similarity
Non-structural protein 7: Forms an hexadecamer with nsp8 (8 subunits of each) that may participate in viral replication by acting as a primase. Alternatively, may synthesize substantially longer products than oligonucleotide primers.By similarity
Non-structural protein 8: Forms an hexadecamer with nsp7 (8 subunits of each) that may participate in viral replication by acting as a primase. Alternatively, may synthesize substantially longer products than oligonucleotide primers.By similarity
Non-structural protein 9: May participate in viral replication by acting as a ssRNA-binding protein.By similarity
Non-structural protein 10: Plays a pivotal role in viral transcription by stimulating both nsp14 3'-5' exoribonuclease and nsp16 2'-O-methyltransferase activities. Therefore plays an essential role in viral mRNAs cap methylation.By similarity
RNA-directed RNA polymerase: Responsible for replication and transcription of the viral RNA genome.By similarity
Helicase: Multi-functional protein with a zinc-binding domain in N-terminus displaying RNA and DNA duplex-unwinding activities with 5' to 3' polarity. Activity of helicase is dependent on magnesium.By similarity
Guanine-N7 methyltransferase: Enzyme possessing two different activities: an exoribonuclease activity acting on both ssRNA and dsRNA in a 3' to 5' direction and a N7-guanine methyltransferase activity.By similarity
Uridylate-specific endoribonuclease: Mn2+-dependent, uridylate-specific enzyme, which leaves 2'-3'-cyclic phosphates 5' to the cleaved bond.By similarity
2'-O-methyltransferase: Methyltransferase that mediates mRNA cap 2'-O-ribose methylation to the 5'-cap structure of viral mRNAs. N7-methyl guanosine cap is a prerequisite for binding of nsp16. Therefore plays an essential role in viral mRNAs cap methylation which is essential to evade immune system.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-PROBy similarity
Sitei809 – 8102Cleavage; by PL1-PROBy similarity
Active sitei1131 – 11311For PL1-PRO activityPROSITE-ProRule annotation
Active sitei1282 – 12821For PL1-PRO activityPROSITE-ProRule annotation
Active sitei1727 – 17271For PL2-PRO activityPROSITE-ProRule annotation
Active sitei1884 – 18841For PL2-PRO activityPROSITE-ProRule annotation
Sitei2808 – 28092Cleavage; by PL2-PROBy similarity
Sitei3304 – 33052Cleavage; by 3CL-PROBy similarity
Active sitei3345 – 33451For 3CL-PRO activityPROSITE-ProRule annotation
Active sitei3449 – 34491For 3CL-PRO activityPROSITE-ProRule annotation
Sitei3607 – 36082Cleavage; by 3CL-PROBy similarity
Sitei3894 – 38952Cleavage; by 3CL-PROBy similarity
Sitei3986 – 39872Cleavage; by 3CL-PROBy similarity
Sitei4180 – 41812Cleavage; by 3CL-PROBy similarity
Sitei4290 – 42912Cleavage; by 3CL-PROBy similarity
Sitei4427 – 44282Cleavage; by 3CL-PROBy similarity
Sitei5355 – 53562Cleavage; by 3CL-PROBy similarity
Sitei6479 – 64802Cleavage; by 3CL-PROBy similarity
Sitei6853 – 68542Cleavage; by 3CL-PROBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1208 – 123629C4-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri1805 – 184137C4-type 2PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri4364 – 438017By similarityAdd
BLAST
Zinc fingeri4406 – 441914By similarityAdd
BLAST
Nucleotide bindingi5636 – 56438ATPBy 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 gene expression Source: UniProtKB-KW
  5. suppression by virus of host ISG15 activity 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, Inhibition of host NF-kappa-B 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:
Alternative name(s):
p28
Non-structural protein 2
Short name:
nsp2
Alternative name(s):
p65
Papain-like proteinase (EC:3.4.19.12, EC:3.4.22.69)
Short name:
PL-PRO
Alternative name(s):
Non-structural protein 3
Short name:
nsp3
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
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 N2) (HCoV-HKU1)
Taxonomic identifieri443240 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageNidoviralesCoronaviridaeCoronavirinaeBetacoronavirus
Virus hostiHomo sapiens (Human) [TaxID: 9606]
ProteomesiUP000006551: Genome

Subcellular locationi

Chain Papain-like proteinase : Host membrane; Multi-pass membrane protein. Host cytoplasm By similarity
Chain Non-structural protein 4 : Host membrane; Multi-pass membrane protein. Host cytoplasm
Note: Localizes in virally-induced cytoplasmic double-membrane vesicles.By similarity
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 Curated
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
Transmembranei2196 – 221621HelicalSequence AnalysisAdd
BLAST
Transmembranei2257 – 227721HelicalSequence AnalysisAdd
BLAST
Transmembranei2288 – 230821HelicalSequence AnalysisAdd
BLAST
Transmembranei2371 – 239121HelicalSequence AnalysisAdd
BLAST
Transmembranei2413 – 243321HelicalSequence AnalysisAdd
BLAST
Transmembranei2814 – 283421HelicalSequence AnalysisAdd
BLAST
Transmembranei3089 – 310921HelicalSequence AnalysisAdd
BLAST
Transmembranei3121 – 314121HelicalSequence AnalysisAdd
BLAST
Transmembranei3148 – 316821HelicalSequence AnalysisAdd
BLAST
Transmembranei3173 – 319321HelicalSequence AnalysisAdd
BLAST
Transmembranei3621 – 364121HelicalSequence AnalysisAdd
BLAST
Transmembranei3646 – 366621HelicalSequence AnalysisAdd
BLAST
Transmembranei3671 – 369121HelicalSequence AnalysisAdd
BLAST
Transmembranei3714 – 373421HelicalSequence AnalysisAdd
BLAST
Transmembranei3742 – 376221HelicalSequence AnalysisAdd
BLAST
Transmembranei3770 – 379021HelicalSequence AnalysisAdd
BLAST
Transmembranei3813 – 383321HelicalSequence AnalysisAdd
BLAST

GO - Cellular componenti

  1. host cell cytoplasm Source: UniProtKB-KW
  2. host cell membrane Source: UniProtKB-KW
  3. 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 – 222222Host translation inhibitor nsp1By similarityPRO_0000297773Add
BLAST
Chaini223 – 809587Non-structural protein 2By similarityPRO_0000297774Add
BLAST
Chaini810 – 28081999Papain-like proteinaseBy similarityPRO_0000297775Add
BLAST
Chaini2809 – 3304496Non-structural protein 4By similarityPRO_0000297776Add
BLAST
Chaini3305 – 36073033C-like proteinaseBy similarityPRO_0000297777Add
BLAST
Chaini3608 – 3894287Non-structural protein 6By similarityPRO_0000297778Add
BLAST
Chaini3895 – 398692Non-structural protein 7By similarityPRO_0000297779Add
BLAST
Chaini3987 – 4180194Non-structural protein 8By similarityPRO_0000297780Add
BLAST
Chaini4181 – 4290110Non-structural protein 9By similarityPRO_0000297781Add
BLAST
Chaini4291 – 4427137Non-structural protein 10By similarityPRO_0000297782Add
BLAST
Chaini4428 – 5355928RNA-directed RNA polymeraseBy similarityPRO_0000297783Add
BLAST
Chaini5356 – 5958603HelicaseBy similarityPRO_0000297784Add
BLAST
Chaini5959 – 6479521Guanine-N7 methyltransferaseBy similarityPRO_0000297785Add
BLAST
Chaini6480 – 6853374Uridylate-specific endoribonucleaseBy similarityPRO_0000297786Add
BLAST
Chaini6854 – 71522992'-O-methyltransferaseBy similarityPRO_0000297787Add
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).By similarity

Interactioni

Subunit structurei

Nsp2 interacts with host PHB and PHB2. 3CL-PRO exists as monomer and homodimer. Nsp4 interacts with PL-PRO and nsp6. Only the homodimer shows catalytic activity. Eight copies of nsp7 and eight copies of nsp8 assemble to form a heterohexadecamer dsRNA-encircling ring structure. Nsp9 is a dimer. Nsp10 forms a dodecamer and interacts with nsp14 and nsp16; these interactions enhance nsp14 and nsp16 enzymatic activities. Nsp14 interacts (via N-terminus) with DDX1.By similarity

Structurei

3D structure databases

ProteinModelPortaliP0C6X3.
SMRiP0C6X3. Positions 4022-4172, 4296-4420, 6480-6848.
ModBaseiSearch...
MobiDBiSearch...

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
Domaini1093 – 1343251Peptidase C16 1PROSITE-ProRule annotationAdd
BLAST
Domaini1321 – 1492172MacroPROSITE-ProRule annotationAdd
BLAST
Domaini1688 – 1948261Peptidase C16 2PROSITE-ProRule annotationAdd
BLAST
Domaini3305 – 3607303Peptidase C30PROSITE-ProRule annotationAdd
BLAST
Domaini5035 – 5197163RdRp catalyticAdd
BLAST
Domaini5356 – 543984CV MBDAdd
BLAST
Domaini5611 – 5792182(+)RNA virus helicase ATP-bindingAdd
BLAST
Domaini5793 – 5962170(+)RNA virus helicase C-terminalAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni945 – 105411011 X 10 AA tandem repeat of N-[DN]-D-E-D-V-V-T-G-DAdd
BLAST
Regioni2196 – 2433238HD1By similarityAdd
BLAST
Regioni2814 – 3193380HD2By similarityAdd
BLAST
Regioni3621 – 3833213HD3By similarityAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi934 – 1086153Asp-richAdd
BLAST
Compositional biasi2199 – 229193Phe-richAdd
BLAST
Compositional biasi2586 – 25894Poly-Val
Compositional biasi5360 – 538526Cys-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.PROSITE-ProRule annotation
Contains 2 peptidase C16 domains.PROSITE-ProRule annotation
Contains 1 peptidase C30 domain.PROSITE-ProRule annotation
Contains 1 RdRp catalytic domain.Curated

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1208 – 123629C4-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri1805 – 184137C4-type 2PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri4364 – 438017By similarityAdd
BLAST
Zinc fingeri4406 – 441914By 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: P0C6X3-1) [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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        10         20         30         40         50
MIKTSKYGLG FKWAPEFRWL LPDAAEELAS PMKSDEGGLC PSTGQAMESV
60 70 80 90 100
GFVYDNHVKI DCRCILGQEW HVQSNLIRDI FVHEDLHVVE VLTKTAVKSG
110 120 130 140 150
TAILIKSPLH SLGGFPKGYV MGLFRSYKTK RYVVHHLSMT TSTTNFGEDF
160 170 180 190 200
LGWIVPFGFM PSYVHKWFQF CRLYIEESDL IISNFKFDDY DFSVEDAYAE
210 220 230 240 250
VHAEPKGKYS QKAYALLRQY RGIKPVLFVD QYGCDYSGKL ADCLQAYGHY
260 270 280 290 300
SLQDMRQKQS VWLANCDFDI VVAWHVVRDS RFVMRLQTIA TICGIKYVAQ
310 320 330 340 350
PTEDVVDGAV VIREPVHLLS ADAIVLKLPS LMKVMTHMDD FSIKSIYNVD
360 370 380 390 400
LCDCGFVMQY GYVDCFNDNC DFYGWVSGNM MDGFSCPLCC TVYDSSEVKA
410 420 430 440 450
QSSGVIPENP VLFTNSTDTV NPDSFNLYGY SVTPFGSCIY WSPRPGLWIP
460 470 480 490 500
IIKSSVKSYD DLVYSGVVGC KSIVKETALI THALYLDYVQ CKCGNLEQNH
510 520 530 540 550
ILGVNNSWCR QLLLNRGDYN MLLKNIDLFV KRRADFACKF AVCGDGFVPF
560 570 580 590 600
LLDGLIPRSY YLIQSGIFFT SLMSQFSQEV SDMCLKMCIL FMDRVSVATF
610 620 630 640 650
YIEHYVNRLV TQFKLLGTTL VNKMVNWFNT MLDASAPATG WLLYQLLNGL
660 670 680 690 700
FVVSQANFNF VALIPDYAKI LVNKFYTFFK LLLECVTVDV LKDMPVLKTI
710 720 730 740 750
NGLVCIVGNK FYNVSTGLIP GFVLPCNAQE QQIYFFEGVA ESVIVEDDVI
760 770 780 790 800
ENVKSSLSSY EYCQPPKSVE KICIIDNMYM GKCGDKFFPI VMNDKNICLL
810 820 830 840 850
DQAWRFPCAG RKVNFNEKPV VMEIPSLMTV KVMFDLDSTF DDILGKVCSE
860 870 880 890 900
FEVEKGVTVD DFVAVVCDAI ENALNSCKDH PVVGYQVRAF LNKLNENVVY
910 920 930 940 950
LFDEAGDEAM ASRMYCTFAI EDVEDVISSE AVEDTIDGVV EDTINDDEDV
960 970 980 990 1000
VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV
1010 1020 1030 1040 1050
VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV
1060 1070 1080 1090 1100
VTGDNDDEEI VTGDNDDQIV VTGDDVDDIE SVYDFDTYKA LLVFNDVYND
1110 1120 1130 1140 1150
ALFVSYGSSV ETETYFKVNG LWSPTITHTN CWLRSVLLVM QKLPFKFKDL
1160 1170 1180 1190 1200
AIENMWLSYK VGYNQSFVDY LLTTIPKAIV LPQGGYVADF AYWFLNQFDI
1210 1220 1230 1240 1250
NAYANWCCLK CGFSFDLNGL DAVFFYGDIV SHVCKCGHNM TLIAADLPCT
1260 1270 1280 1290 1300
LHFSLFDDNF CAFCTPKKIF IAACAVDVNV CHSVAVIGDE QIDGKFVTKF
1310 1320 1330 1340 1350
SGDKFDFIVG YGMSFSMSSF ELAQLYGLCI TPNVCFVKGD IINVARLVKA
1360 1370 1380 1390 1400
DVIVNPANGH MLHGGGVAKA IAVAAGKKFS KETAAMVKSK GVCQVGDCYV
1410 1420 1430 1440 1450
STGGKLCKTI LNIVGPDARQ DGRQSYVLLA RAYKHLNNYD CCLSTLISAG
1460 1470 1480 1490 1500
IFSVPADVSL TYLLGVVDKQ VILVSNNKED FDIIQKCQIT SVVGTKALAV
1510 1520 1530 1540 1550
RLTANVGRVI KFETDAYKLF LSGDDCFVSN SSVIQEVLLL RHDIQLNNDV
1560 1570 1580 1590 1600
RDYLLSKMTS LPKDWRLINK FDVINGVKTV KYFECPNSIY ICSQGKDFGY
1610 1620 1630 1640 1650
VCDGSFYKAT VNQVCVLLAK KIDVLLTVDG VNFKSISLTV GEVFGKILGN
1660 1670 1680 1690 1700
VFCDGIDVTK LKCSDFYADK ILYQYENLSL ADISAVQSSF GFDQQQLLAY
1710 1720 1730 1740 1750
YNFLTVCKWS VVVNGPFFSF EQSHNNCYVN VACLMLQHIN LKFNKWQWQE
1760 1770 1780 1790 1800
AWYEFRAGRP HRLVALVLAK GHFKFDEPSD ATDFIRVVLK QADLSGAICE
1810 1820 1830 1840 1850
LELICDCGIK QESRVGVDAV MHFGTLAKTD LFNGYKIGCN CAGRIVHCTK
1860 1870 1880 1890 1900
LNVPFLICSN TPLSKDLPDD VVAANMFMGV GVGHYTHLKC GSPYQHYDAC
1910 1920 1930 1940 1950
SVKKYTGVSG CLTDCLYLKN LTQTFTSMLT NYFLDDVEMV AYNPDLSQYY
1960 1970 1980 1990 2000
CDNGKYYTKP IIKAQFKPFA KVDGVYTNFK LVGHDICAQL NDKLGFNVDL
2010 2020 2030 2040 2050
PFVEYKVTVW PVATGDVVLA SDDLYVKRYF KGCETFGKPV IWLCHDEASL
2060 2070 2080 2090 2100
NSLTYFNKPS FKSENRYSVL SVDSVSEESQ GNVVTSVMES QISTKEVKLK
2110 2120 2130 2140 2150
GVRKTVKIED AIIVNDENSS IKVVKSLSLV DVWDMYLTGC DYVVWVANEL
2160 2170 2180 2190 2200
SRLVKSPTVR EYIRYGIKPI TIPIDLLCLR DDNQTLLVPK IFKARAIEFY
2210 2220 2230 2240 2250
GFLKWLFIYV FSLLHFTNDK TIFYTTEIAS KFTFNLFCLA LKNAFQTFRW
2260 2270 2280 2290 2300
SIFIKGFLVV ATVFLFWFNF LYINVIFSDF YLPNISVFPI FVGRIVMWIK
2310 2320 2330 2340 2350
ATFGLVTICD FYSKLGVGFT SHFCNGSFIC ELCYSGFDML DTYAAIDFVQ
2360 2370 2380 2390 2400
YEVDRRVLFD YVSLVKLIVE LVIGYSLYTV WFYPLFCLIG LQLFTTWLPD
2410 2420 2430 2440 2450
LFMLETMHWL IRFIVFVANM LPAFVLLRFY IVVTAMYKVV GFIRHIVYGC
2460 2470 2480 2490 2500
NKAGCLFCYK RNCSVRVKCS TIVGGVIRYY DITANGGTGF CVKHQWNCFN
2510 2520 2530 2540 2550
CHSFKPGNTF ITVEAAIELS KELKRPVNPT DASHYVVTDI KQVGCMMRLF
2560 2570 2580 2590 2600
YDRDGQRVYD DVDASLFVDI NNLLHSKVKV VPNLYVVVVE SDADRANFLN
2610 2620 2630 2640 2650
AVVFYAQSLY RPILLVDKKL ITTACNGISV TQTMFDVYVD TFMSHFDVDR
2660 2670 2680 2690 2700
KSFNNFVNIA HASLREGVQL EKVLDTFVGC VRKCCSIDSD VETRFITKSM
2710 2720 2730 2740 2750
ISAVAAGLEF TDENYNNLVP TYLKSDNIVA ADLGVLIQNG AKHVQGNVAK
2760 2770 2780 2790 2800
AANISCIWFI DTFNQLTADL QHKLKKACVK TGLKLKLTFN KQEASVPILT
2810 2820 2830 2840 2850
TPFSLKGGVV LSNLLYILFF ISLICFILLW ALLPTYSVYK SDIHLPAYAS
2860 2870 2880 2890 2900
FKVIDNGVVR DISVNDLCFA NKFFQFDQWY ESTFGSFYYH NSMDCPIVVA
2910 2920 2930 2940 2950
VMDEDIGSTM FNVPTKVLRH GFHVLHFLTY AFASDSVQCY TPHIQISYND
2960 2970 2980 2990 3000
FYASGCVLSS LCTMFKRGDG TPHPYCYSDG VMKNASLYTS LVPHTRYSLA
3010 3020 3030 3040 3050
NSNGFIRFPD VISEGIVRIV RTRSMTYCRV GACEYAEEGI CFNFNSSWVL
3060 3070 3080 3090 3100
NNDYYRSMPG TFCGRDLFDL FYQFFSSLIR PIDFFSLTAS SIFGAILAIV
3110 3120 3130 3140 3150
VVLVFYYLIK LKRAFGDYTS VVVINVIVWC INFLMLFVFQ VYPICACVYA
3160 3170 3180 3190 3200
CFYFYVTLYF PSEISVIMHL QWIVMYGAIM PFWFCVTYVA MVIANHVLWL
3210 3220 3230 3240 3250
FSYCRKIGVN VCNDSTFEET SLTTFMITKD SYCRLKNSVS DVAYNRYLSL
3260 3270 3280 3290 3300
YNKYRYYSGK MDTAAYREAA CSQLAKAMET FNHNNGNDVL YQPPTASVST
3310 3320 3330 3340 3350
SFLQSGIVKM VSPTSKIEPC IVSVTYGSMT LNGLWLDDKV YCPRHVICLS
3360 3370 3380 3390 3400
SNMNEPDYSA LLCRVTLGDF TIMSGRMSLT VVSYQMQGCQ LVLTVSLQNP
3410 3420 3430 3440 3450
YTPKYTFGVV KPGETFTVLA AYNGRPQGAF HVTMRSSYTI KGSFLCGSCG
3460 3470 3480 3490 3500
SVGYVLTGDS VKFVYMHQLE LSTGCHTGTD FTGNFYGPYR DAQVVQLPVK
3510 3520 3530 3540 3550
DYVQTVNVIA WLYAAILNNC AWFVQNDVCS IEDFNVWAMT NGFSQVKADL
3560 3570 3580 3590 3600
VLDALASMTG VSIETLLAAI KRLYMGFQGR QILGSCTFED ELAPSDVYQQ
3610 3620 3630 3640 3650
LAGVKLQSKT KRFIKETIYW ILISTFLFSC IISAFVKWTI FMYINTHMIG
3660 3670 3680 3690 3700
VTLCVLCFVS FMMLLVKHKH FYLTMYIIPV LCTLFYVNYL VVYKEGFRGL
3710 3720 3730 3740 3750
TYVWLSYFVP AVNFTYVYEV FYGCILCVFA IFITMHSINH DIFSLMFLVG
3760 3770 3780 3790 3800
RIVTLISMWY FGSNLEEDVL LFITAFLGTY TWTTILSLAI AKIVANWLSV
3810 3820 3830 3840 3850
NIFYFTDVPY IKLILLSYLF IGYILSCYWG FFSLLNSVFR MPMGVYNYKI
3860 3870 3880 3890 3900
SVQELRYMNA NGLRPPRNSF EAILLNLKLL GIGGVPVIEV SQIQSKLTDV
3910 3920 3930 3940 3950
KCANVVLLNC LQHLHVASNS RLWQYCSILH NEILSTSDLS VAFDKLAQLL
3960 3970 3980 3990 4000
IVLFANPAAV DTKCLASIDE VSDDYVQDST VLQALQSEFV NMASFVEYEV
4010 4020 4030 4040 4050
AKKNLADAKN SGSVNQQQIK QLEKACNIAK SVYERDKAVA RKLERMADLA
4060 4070 4080 4090 4100
LTNMYKEARI NDKKSKVVSA LQTMLFSMVR KLDNQALNSI LDNAVKGCVP
4110 4120 4130 4140 4150
LNAIPALAAN TLTIIIPDKQ VFDKVVDNVY VAYAGSVWHI QTVQDADGIN
4160 4170 4180 4190 4200
KQLTDISVDS NWPLVIIANR YNEVANAVMQ NNELMPHKLK IQVVNSGSDM
4210 4220 4230 4240 4250
NCNIPTQCYY NNGSSGRIVY AVLSDVDGLK YTKIIKDDGN CVVLELDPPC
4260 4270 4280 4290 4300
KFSIQDVKGL KIKYLYFIKG CNTLARGWVV GTLSSTIRLQ AGVATEYAAN
4310 4320 4330 4340 4350
SSILSLCAFS VDPKKTYLDY IQQGGVPIIN CVKMLCDHAG TGMAITIKPE
4360 4370 4380 4390 4400
ATINQDSYGG ASVCIYCRAR VEHPDVDGLC KLRGKFVQVP LGIKDPILYV
4410 4420 4430 4440 4450
LTHDVCQVCG FWRDGSCSCV GSGVAVQSKD LNFLNRVRGT SVNARLVPCA
4460 4470 4480 4490 4500
SGLSTDVQLR AFDICNTNRA GIGLYYKVNC CRFQRIDDDG NKLDKFFVVK
4510 4520 4530 4540 4550
RTNLEVYNKE KTYYELTKSC GVVAEHDFFT FDIDGSRVPH IVRKNLSKYT
4560 4570 4580 4590 4600
MLDLCYALRH FDCNDCSVLC EILCEYADCK ESYFSKKDWY DFVENPDIIN
4610 4620 4630 4640 4650
IYKKLGPIFN RALLNTVSFA DTLVKVGLVG VLTLDNQDLY GQWYDFGDFI
4660 4670 4680 4690 4700
QTAPGFGVAV ADSYYSYMMP MLTMCHVLDC ELFVNDSYRQ FDLVQYDFTD
4710 4720 4730 4740 4750
YKLELFNKYF KYWGMKYHPN TVDCDNDRCI IHCANFNILF SMVLPNTCFG
4760 4770 4780 4790 4800
PLVRQIFVDG VPFVVSIGYH YKELGVVMNL DVDTHRYRLS LKDLLLYAAD
4810 4820 4830 4840 4850
PAMHVASASA LLDLRTCCFS VAAITSGIKF QTVKPGNFNQ DFYEFVKSKG
4860 4870 4880 4890 4900
LFKEGSTVDL KHFFFTQDGN AAITDYNYYK YNLPTMVDIK QLLFVLEVVY
4910 4920 4930 4940 4950
KYFEIYDGGC IPASQVIVNN YDKSAGYPFN KFGKARLYYE ALSFEEQNEI
4960 4970 4980 4990 5000
YAYTKRNVLP TLTQMNLKYA ISAKNRARTV AGVSILSTMT GRMFHQKCLK
5010 5020 5030 5040 5050
SIAATRGVPV VIGTTKFYGG WDDMLRHLIK DVDNPVLMGW DYPKCDRAMP
5060 5070 5080 5090 5100
NILRIVSSLV LARKHEFCCS HGDRFYRLAN ECAQVLSEIV MCGGCYYVKP
5110 5120 5130 5140 5150
GGTSSGDATT AFANSVFNIC QAVTANVCSL MACNGHKIED LSIRNLQKRL
5160 5170 5180 5190 5200
YSNVYRTDYV DYTFVNEYYE FLCKHFSMMI LSDDGVVCYN SDYASKGYIA
5210 5220 5230 5240 5250
NISVFQQVLY YQNNVFMSES KCWVENDITN GPHEFCSQHT MLVKIDGDYV
5260 5270 5280 5290 5300
YLPYPDPSRI LGAGCFVDDL LKTDSVLLIE RFVSLAIDAY PLVHHENEEY
5310 5320 5330 5340 5350
QKVFRVYLEY IKKLYNDLGN QILDSYSVIL STCDGLKFTD ESFYKNMYLK
5360 5370 5380 5390 5400
SAVMQSVGAC VVCSSQTSLR CGSCIRKPLL CCKCCYDHVM ATNHKYVLSV
5410 5420 5430 5440 5450
SPYVCNAPNC DVSDVTKLYL GGMSYYCENH KPHYSFKLVM NGMVFGLYKQ
5460 5470 5480 5490 5500
SCTGSPYIDD FNKIASCKWT EVDDYVLANE CIERLKLFAA ETQKATEEAF
5510 5520 5530 5540 5550
KQSYASATIQ EIVSDREIIL CWETGKVKPP LNKNYVFTGY HFTSTGKTVL
5560 5570 5580 5590 5600
GEYVFDKSEL TNGVYYRATT TYKLSIGDVF VLTSHSVANL SAPTLVPQEN
5610 5620 5630 5640 5650
YASIRFSSVY SVPLLFQTNV ANYQHIGMKR YCTVQGPPGT GKSHLAIGLA
5660 5670 5680 5690 5700
VYYYTARVVY TAASHAAVDA LCEKAYKFLN INDCTRIIPA KVRVDCYDKF
5710 5720 5730 5740 5750
KINDTTCKYV FTTINALPEL VTDIVVVDEV SMLTNYELSV INARVKAKHY
5760 5770 5780 5790 5800
VYIGDPAQLP APRVLLSKGS LEPRHFNSIT KIMCCLGPDI FLGNCYRCPK
5810 5820 5830 5840 5850
EIVETVSALV YDNKLKAKND NSSLCFKVYF KGQTTHESSS AVNIQQIYLI
5860 5870 5880 5890 5900
SKFLKANPVW NSAVFISPYN SQNYVAKRIL GVQTQTVDSA QGSEYDYVIY
5910 5920 5930 5940 5950
SQTAETAHSI NVNRFNVAIT RAKKGIFCVM SNMQLFESLN FITLPLDKIQ
5960 5970 5980 5990 6000
NQTLSRLHCT TNLFKDCSKN FLGYHPAHAP SFLSVDDKYK VNEDLAVCLN
6010 6020 6030 6040 6050
ICEPVLTYSR LISLMGFKLD LTLDGYSKFF ITKDEAIKRV RGWVGFDVEG
6060 6070 6080 6090 6100
AHATRDNIGT NFPLQIGFST GVDFVVEATG LFAERDCYIF KRTVAKAPPG
6110 6120 6130 6140 6150
DNFKHLIPLM SKGQKWDVVR IRIVQMLSDY LLDLSDSVVF ITWSASFELT
6160 6170 6180 6190 6200
CLRYFAKLGR ELNCDVCPNR ATCYNSRTGY YGCWRHSYTC DYVYNPLIVD
6210 6220 6230 6240 6250
IQQWGYTGSL TSNHDIICNV HKGAHVASSD AIMTRCLAIY DCFCKSVNWN
6260 6270 6280 6290 6300
LEYPIISNEV SINTSCRLLQ RVMLKAAMLC NRYNLCYDIG NPKGIACVKD
6310 6320 6330 6340 6350
YEFKFYDASP VVKSVKQLFY VYDVHKDNFK DGLCMFWNCN VDKYPSNSIV
6360 6370 6380 6390 6400
CRFDTRVLNK LNLPGCNGGS LYVNKHAFHT NPFTRTVFEN LKPMPFFYYS
6410 6420 6430 6440 6450
DTPCVYVDGL ESKQVDYVPL RSATCITRCN LGGAVCSKHA EDYCKYLESY
6460 6470 6480 6490 6500
NVATTAGFTF WVYKTFDFYN LWNTFTMLQS LENVIYNLVN AGHYDGRIGE
6510 6520 6530 6540 6550
LPCAIMNDKV VVKINNVDTV IFKNNTSLPT NIAVELFTKR SIRHHPELKI
6560 6570 6580 6590 6600
LRNLNIDICW KHVLWDYVKD SLFCSSTYGV CKYTDLNFIE NLNVLFDGRD
6610 6620 6630 6640 6650
NGALEAFRKA RNGVFISTGK LSSLSMIKGP QRADLNGVIV DKVGELNVEF
6660 6670 6680 6690 6700
WFAMRKDGDD VIFSRADSLS PSHYWSPQGN LGGNCAGNAS GNDALARFTI
6710 6720 6730 6740 6750
FTQSRVLSTF EPRSDLERDF IDMEDSLFIA KYGLEDYAFD HIVYGSFNYK
6760 6770 6780 6790 6800
VIGGLHLLIG LFRRLKKSNL VIQEFLQYDS SIHSYFITDQ ECGSSKSVCT
6810 6820 6830 6840 6850
VIDLLLDDFV VIVKSLNLNC VSKVVNINVD FKDFQFMLWC NDNKIMTFYP
6860 6870 6880 6890 6900
KMQATSDWKP GYSMPVLYKY LNVPLERVSL WNYGKAINLP TGCMMNVAKY
6910 6920 6930 6940 6950
TQLCQYLNTT TLAVPVNMRV LHLGAGSDKE VAPGSAVLRQ WLPSGSILVD
6960 6970 6980 6990 7000
NDLNPFVSDS LVTYFGDCMT LPFDCHWDLI ISDMYDPLTK NIGDYNVSKD
7010 7020 7030 7040 7050
GFFTYICYLI RDKLSLGGSV AIKITEFSWN ADLYKLMSYF AFWTVFCTNV
7060 7070 7080 7090 7100
NASSSEGFLI GINYLGKSCF EIDGNVMHAN YLFWRNSTTW NGGAYSLFDM
7110 7120 7130 7140 7150
SKFSLKLAGT AVVNLRPDQL NDLVYSLIER GKLLVRDTRK EIFVGDSLVN

TC

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

Length:7,152
Mass (Da):807,495
Last modified:June 10, 2008 - v1
Checksum:i1B6E93484EF69631
GO
Isoform Replicase polyprotein 1a (identifier: P0C6U4-1) [UniParc]FASTAAdd to Basket

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.

Length:4,441
Mass (Da):499,423
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY884001 Genomic RNA. Translation: AAX76519.1.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY884001 Genomic RNA. Translation: AAX76519.1 .

3D structure databases

ProteinModelPortali P0C6X3.
SMRi P0C6X3. Positions 4022-4172, 4296-4420, 6480-6848.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Family and domain databases

Gene3Di 3.40.50.300. 2 hits.
InterProi IPR027351. (+)RNA_virus_helicase_core_dom.
IPR022570. Coronavirus_NSP1.
IPR009461. Coronavirus_NSP16.
IPR027352. CV_MBD_dom.
IPR002589. Macro_dom.
IPR009466. NSP11.
IPR014828. NSP7.
IPR014829. NSP8.
IPR014822. NSP9.
IPR027417. P-loop_NTPase.
IPR002705. Pept_C30/C16_B_coronavir.
IPR008740. Peptidase_C30.
IPR013016. Peptidase_C30/C16.
IPR001205. RNA-dir_pol_C.
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. "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].

Entry informationi

Entry nameiR1AB_CVHN2
AccessioniPrimary (citable) accession number: P0C6X3
Secondary accession number(s): Q14EB2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: June 10, 2008
Last modified: October 29, 2014
This is version 57 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Miscellaneous

Isolate N2 belongs to genotype B.

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