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P0C6W5

- R1AB_BCHK9

UniProt

P0C6W5 - R1AB_BCHK9

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Protein

Replicase polyprotein 1ab

Gene

rep

Organism
Bat coronavirus HKU9 (BtCoV) (BtCoV/HKU9)
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 similarity1 Publication
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).PROSITE-ProRule annotation
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
Sitei175 – 1762CleavageSequence Analysis
Sitei772 – 7732Cleavage; by PL-PROSequence Analysis
Active sitei1533 – 15331For PL-PRO activityPROSITE-ProRule annotation
Active sitei1694 – 16941For PL-PRO activityPROSITE-ProRule annotation
Sitei2609 – 26102Cleavage; by PL-PROSequence Analysis
Sitei3103 – 31042Cleavage; by 3CL-PROSequence Analysis
Active sitei3144 – 31441For 3CL-PRO activityPROSITE-ProRule annotation
Active sitei3248 – 32481For 3CL-PRO activityPROSITE-ProRule annotation
Sitei3409 – 34102Cleavage; by 3CL-PROSequence Analysis
Sitei3699 – 37002Cleavage; by 3CL-PROSequence Analysis
Sitei3782 – 37832Cleavage; by 3CL-PROSequence Analysis
Sitei3982 – 39832Cleavage; by 3CL-PROSequence Analysis
Sitei4094 – 40952Cleavage; by 3CL-PROSequence Analysis
Sitei4233 – 42342Cleavage; by 3CL-PROSequence Analysis
Sitei5165 – 51662Cleavage; by 3CL-PROSequence Analysis
Sitei5766 – 57672Cleavage; by 3CL-PROSequence Analysis
Sitei6296 – 62972Cleavage; by 3CL-PROSequence Analysis
Sitei6633 – 66342Cleavage; by 3CL-PROSequence Analysis

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1610 – 164738C4-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri4168 – 418417By similarityAdd
BLAST
Zinc fingeri4211 – 422414By similarityAdd
BLAST
Nucleotide bindingi5447 – 54548ATPSequence Analysis

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 protein processing Source: InterPro
  9. viral RNA genome replication Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Exonuclease, Helicase, Hydrolase, Nuclease, Nucleotidyltransferase, Protease, RNA-directed RNA polymerase, Thiol protease, Transferase

Keywords - Biological processi

Activation of host autophagy by virus, Decay of host mRNAs by virus, Eukaryotic host gene expression shutoff by virus, Eukaryotic host translation shutoff by virus, Host gene expression shutoff by virus, Host mRNA suppression by virus, Host-virus interaction, Inhibition of host innate immune response by virus, Inhibition of host interferon signaling pathway by virus, Inhibition of host ISG15 by virus, 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):
Leader protein
Non-structural protein 2
Short name:
nsp2
Alternative name(s):
p65 homolog
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
Non-structural protein 4
Short name:
nsp4
3C-like proteinase (EC:3.4.22.-)
Short name:
3CL-PRO
Short name:
3CLp
Alternative name(s):
nsp5
Non-structural protein 6
Short name:
nsp6
Non-structural protein 7
Short name:
nsp7
Non-structural protein 8
Short name:
nsp8
Non-structural protein 9
Short name:
nsp9
Non-structural protein 10
Short name:
nsp10
Alternative name(s):
Growth factor-like peptide
Short name:
GFL
RNA-directed RNA polymerase (EC:2.7.7.48)
Short name:
Pol
Short name:
RdRp
Alternative name(s):
nsp12
Helicase (EC:3.6.4.12, EC:3.6.4.13)
Short name:
Hel
Alternative name(s):
nsp13
Alternative name(s):
nsp14
Alternative name(s):
NendoU
nsp15
Alternative name(s):
nsp16
Gene namesi
Name:rep
ORF Names:1a-1b
OrganismiBat coronavirus HKU9 (BtCoV) (BtCoV/HKU9)
Taxonomic identifieri694006 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageNidoviralesCoronaviridaeCoronavirinaeBetacoronavirus
Virus hostiRousettus leschenaultii (Leschenault's rousette) [TaxID: 9408]
ProteomesiUP000006576: 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 (By similarity).By similarity
Chain Non-structural protein 8 : Host cytoplasmhost perinuclear region By similarity
Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes (By similarity).By similarity
Chain Non-structural protein 9 : Host cytoplasmhost perinuclear region By similarity
Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes (By similarity).By similarity
Chain Non-structural protein 10 : Host cytoplasmhost perinuclear region By similarity
Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes (By similarity).By similarity
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.By similarity

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei2015 – 203521HelicalSequence AnalysisAdd
BLAST
Transmembranei2040 – 206021HelicalSequence AnalysisAdd
BLAST
Transmembranei2081 – 210121HelicalSequence AnalysisAdd
BLAST
Transmembranei2162 – 218221HelicalSequence AnalysisAdd
BLAST
Transmembranei2183 – 220321HelicalSequence AnalysisAdd
BLAST
Transmembranei2218 – 223821HelicalSequence AnalysisAdd
BLAST
Transmembranei2621 – 264121HelicalSequence AnalysisAdd
BLAST
Transmembranei2719 – 273921HelicalSequence AnalysisAdd
BLAST
Transmembranei2865 – 288521HelicalSequence AnalysisAdd
BLAST
Transmembranei2887 – 290721HelicalSequence AnalysisAdd
BLAST
Transmembranei2916 – 293621HelicalSequence AnalysisAdd
BLAST
Transmembranei2946 – 296621HelicalSequence AnalysisAdd
BLAST
Transmembranei2970 – 299021HelicalSequence AnalysisAdd
BLAST
Transmembranei3423 – 344321HelicalSequence AnalysisAdd
BLAST
Transmembranei3449 – 346921HelicalSequence AnalysisAdd
BLAST
Transmembranei3474 – 349421HelicalSequence AnalysisAdd
BLAST
Transmembranei3517 – 353721HelicalSequence AnalysisAdd
BLAST
Transmembranei3569 – 358921HelicalSequence AnalysisAdd
BLAST
Transmembranei3592 – 361221HelicalSequence AnalysisAdd
BLAST
Transmembranei3620 – 364021HelicalSequence 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 – 175175Host translation inhibitor nsp1By similarityPRO_0000291350Add
BLAST
Chaini176 – 772597Non-structural protein 2By similarityPRO_0000291351Add
BLAST
Chaini773 – 26091837Papain-like proteinaseBy similarityPRO_0000291352Add
BLAST
Chaini2610 – 3103494Non-structural protein 4By similarityPRO_0000291353Add
BLAST
Chaini3104 – 34093063C-like proteinaseBy similarityPRO_0000291354Add
BLAST
Chaini3410 – 3699290Non-structural protein 6By similarityPRO_0000291355Add
BLAST
Chaini3700 – 378283Non-structural protein 7By similarityPRO_0000291356Add
BLAST
Chaini3783 – 3982200Non-structural protein 8By similarityPRO_0000291357Add
BLAST
Chaini3983 – 4094112Non-structural protein 9By similarityPRO_0000291358Add
BLAST
Chaini4095 – 4233139Non-structural protein 10By similarityPRO_0000291359Add
BLAST
Chaini4234 – 5165932RNA-directed RNA polymeraseBy similarityPRO_0000291360Add
BLAST
Chaini5166 – 5766601HelicaseBy similarityPRO_0000291361Add
BLAST
Chaini5767 – 6296530Guanine-N7 methyltransferaseBy similarityPRO_0000291362Add
BLAST
Chaini6297 – 6633337Uridylate-specific endoribonucleaseBy similarityPRO_0000291363Add
BLAST
Chaini6634 – 69302972'-O-methyltransferaseBy similarityPRO_0000291364Add
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

Proteomic databases

PRIDEiP0C6W5.

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

ProteinModelPortaliP0C6W5.
SMRiP0C6W5. Positions 934-1096, 3106-3403, 3699-3782, 3820-3972, 3985-4094, 4104-4224.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini930 – 1097168MacroPROSITE-ProRule annotationAdd
BLAST
Domaini1492 – 1757266Peptidase C16PROSITE-ProRule annotationAdd
BLAST
Domaini3104 – 3409306Peptidase C30PROSITE-ProRule annotationAdd
BLAST
Domaini4845 – 5007163RdRp catalyticPROSITE-ProRule annotationAdd
BLAST
Domaini5166 – 524984CV MBDAdd
BLAST
Domaini5412 – 5603192(+)RNA virus helicase ATP-bindingAdd
BLAST
Domaini5604 – 5778175(+)RNA virus helicase C-terminalAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni2015 – 2238224HD1By similarityAdd
BLAST
Regioni2621 – 2990370HD2By similarityAdd
BLAST
Regioni3423 – 3640218HD3By similarityAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi5170 – 519526Cys-richAdd
BLAST
Compositional biasi6832 – 68354Poly-Ser

Domaini

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

Sequence similaritiesi

Contains 1 Macro domain.PROSITE-ProRule annotation
Contains 1 peptidase C16 domain.PROSITE-ProRule annotation
Contains 1 peptidase C30 domain.PROSITE-ProRule annotation
Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1610 – 164738C4-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri4168 – 418417By similarityAdd
BLAST
Zinc fingeri4211 – 422414By similarityAdd
BLAST

Keywords - Domaini

Repeat, Transmembrane, Transmembrane helix, Zinc-finger

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR027351. (+)RNA_virus_helicase_core_dom.
IPR009461. Coronavirus_NSP16.
IPR027352. CV_MBD_dom.
IPR002589. Macro_dom.
IPR009466. NSP11.
IPR024375. Nsp3_coronavir.
IPR014828. NSP7.
IPR014829. NSP8.
IPR014822. NSP9.
IPR027417. P-loop_NTPase.
IPR008740. Peptidase_C30.
IPR013016. Peptidase_C30/C16.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
IPR009469. RNA_pol_N_coronovir.
IPR018995. RNA_synth_NSP10_coronavirus.
IPR029063. SAM-dependent_MTases-like.
IPR009003. Trypsin-like_Pept_dom.
IPR014827. Viral_protease.
[Graphical view]
PfamiPF06478. Corona_RPol_N. 1 hit.
PF01661. Macro. 1 hit.
PF09401. NSP10. 1 hit.
PF06471. NSP11. 1 hit.
PF06460. NSP13. 1 hit.
PF08716. nsp7. 1 hit.
PF08717. nsp8. 1 hit.
PF08710. nsp9. 1 hit.
PF05409. Peptidase_C30. 1 hit.
PF00680. RdRP_1. 1 hit.
PF11633. SUD-M. 1 hit.
PF01443. Viral_helicase1. 1 hit.
PF08715. Viral_protease. 1 hit.
[Graphical view]
SUPFAMiSSF101816. SSF101816. 1 hit.
SSF144246. SSF144246. 1 hit.
SSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
SSF53335. SSF53335. 1 hit.
PROSITEiPS51653. CV_MBD. 1 hit.
PS51442. M_PRO. 1 hit.
PS51154. MACRO. 1 hit.
PS51124. PEPTIDASE_C16. 1 hit.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by ribosomal frameshifting. Align

Isoform Replicase polyprotein 1ab (identifier: P0C6W5-1) [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
MEGVPDPPKL KSMVVTTLKW CDPFANPNVT GWDIPIEEAL EYAKQQLRTP
60 70 80 90 100
EPQLVFVPYY LSHAPGISGD RVVITDSIWY ATNFGWQPIR ELAMDKDGVR
110 120 130 140 150
YGRGGTHGVL LPMQDPSFIM GDIDIQIRKY GIGANSPPDV LPLWDGFSDP
160 170 180 190 200
GPDVGPYLDF PDNCCPTKPK AKRGGDVYLS DQYGFDNNGI LVEPVMKLLG
210 220 230 240 250
VIKSDFTLEQ LLAALGKYRT EDGYDLPDGY VKVAIKVGRK AVPVLKQSIF
260 270 280 290 300
TVVGVTEQLV PGYYYPFSTS SVVEHTKPTR GGPVGKTVEA VMLSLYGTNN
310 320 330 340 350
YNPATPVARL KCSYCDYYGW TPLKDIGTVN CLCGAEFQLT SSCVDAESAG
360 370 380 390 400
VIKPGCVMLL DKSPGMRLIP GNRTYVSFGG AIWSPIGKVN GVTVWVPRAY
410 420 430 440 450
SIVAGEHSGA VGSGDTVAIN KELVEYLIEG IRVDADTLDN PTCATFIANL
460 470 480 490 500
DCDTKAPVVH TVESLQGLCL ANKIMLGDKP LPTDEFHPFI VGLAYHVQRA
510 520 530 540 550
CWYGALASRT FEAFRDFVRT EEERFAQFFG KVCAPINGCV YLAYTTGRVT
560 570 580 590 600
LFSAYQVLNT AIAKSKDAFG GVAAIVVDML KPILEWVLKK MSIAKGAWLP
610 620 630 640 650
YAEGLLALFK AQFTVVKGKF QFLRASLNSK CHSLCDLLTT IMSKLLTSVK
660 670 680 690 700
WAGCKVDALY TGTYYYFSRK GVLTEVQLCA KRLGLLLTPK QQKMEVEVLD
710 720 730 740 750
GDFDAPVTLT DLELEECTGV LEEVFGASDV KLVKGTLVSL ASKLFVRTED
760 770 780 790 800
GFLYRYVKSG GVLGKAFRLR GGGVSKVTFG DEEVHTIPNT VTVNFSYDVC
810 820 830 840 850
EGLDAILDKV MAPFQVEEGT KLEDLACVVQ KAVYERLSDL FSDCPAELRP
860 870 880 890 900
INLEDFLTSE CFVYSKDYEK ILMPEMYFSL EDAVPVDDEM VDDIEDTVEQ
910 920 930 940 950
ASDSDDQWLG DEGAEDCDNT IQDVDVATSM TTPCGYTKIA EHVYIKCADI
960 970 980 990 1000
VQEARNYSYA VLVNAANVNL HHGGGVAGAL NRATNNAMQK ESSEYIKANG
1010 1020 1030 1040 1050
SLQPGGHVLL SSHGLASHGI LHVVGPDKRL GQDLALLDAV YAAYTGFDSV
1060 1070 1080 1090 1100
LTPLVSAGIF GFTVEESLCS LVKNVACTTY VVVYDRQLYE RALATSFDVP
1110 1120 1130 1140 1150
GPQSSVQHVP AIDWAEAVEV QESIVDQVET PSLGAVDTVD SNADSGLNET
1160 1170 1180 1190 1200
ARSPENVVGS VPDDVVADVE SCVRDLVRQV VKKVKRDKRP PPIVPQQTVE
1210 1220 1230 1240 1250
QQPQEISSPG DCNTVLVDVV SMSFSAMVNF GKEKGLLIPV VIDYPAFLKV
1260 1270 1280 1290 1300
LKRFSPKEGL FSSNGYEFYG YSRDKPLHEV SKDLNSLGRP LIMIPFGFIV
1310 1320 1330 1340 1350
NGQTLAVSAV SMRGLTVPHT VVVPSESSVP LYRAYFNGVF SGDTTAVQDF
1360 1370 1380 1390 1400
VVDILLNGAR DWDVLQTTCT VDRKVYKTIC KRGNTYLCFD DTNLYAITGD
1410 1420 1430 1440 1450
VVLKFATVSK ARAYLETKLC APEPLIKVLT TVDGINYSTV LVSTAQSYRA
1460 1470 1480 1490 1500
QIGTVFCDGH DWSNKNPMPT DEGTHLYKQD NFSSAEVTAI REYYGVDDSN
1510 1520 1530 1540 1550
IIARAMSIRK TVQTWPYTVV DGRVLLAQRD SNCYLNVAIS LLQDIDVSFS
1560 1570 1580 1590 1600
TPWVCRAYDA LKGGNPLPMA EVLIALGKAT PGVSDDAHMV LSAVLNHGTV
1610 1620 1630 1640 1650
TARRVMQTVC EHCGVSQMVF TGTDACTFYG SVVLDDLYAP VSVVCQCGRP
1660 1670 1680 1690 1700
AIRYVSEQKS PWLLMSCTPT QVPLDTSGIW KTAIVFRGPV TAGHYMYAVN
1710 1720 1730 1740 1750
GTLISVYDAN TRRRTSDLKL PATDILYGPT SFTSDSKVET YYLDGVKRTT
1760 1770 1780 1790 1800
IDPDFSKYVK RGDYYFTTAP IEVVAAPKLV TSYDGFYLSS CQNPQLAESF
1810 1820 1830 1840 1850
NKAINATKTG PMKLLTMYPN VAGDVVAISD DNVVAHPYGS LHMGKPVLFV
1860 1870 1880 1890 1900
TRPNTWKKLV PLLSTVVVNT PNTYDVLAVD PLPVNNETSE EPISVKAPIP
1910 1920 1930 1940 1950
LYGLKATMVL NGTTYVPGNK GHLLCLKEFT LTDLQTFYVE GVQPFVLLKA
1960 1970 1980 1990 2000
SHLSKVLGLR VSDSSLHVNH LSKGVVYAYA ATRLTTRVTT SLLGGLVTRS
2010 2020 2030 2040 2050
VRKTADFVRS TNPGSKCVGL LCLFYQLFMR FWLLVKKPPI VKVSGIIAYN
2060 2070 2080 2090 2100
TGCGVTTCVL NYLRSRCGNI SWSRLLKLLR YMLYIWFVWT CLTICGVWLS
2110 2120 2130 2140 2150
EPYAPSLVTR FKYFLGIVMP CDYVLVNETG TGWLHHLCMA GMDSLDYPAL
2160 2170 2180 2190 2200
RMQQHRYGSP YNYTYILMLL EAFFAYLLYT PALPIVGILA VLHLIVLYLP
2210 2220 2230 2240 2250
IPLGNSWLVV FLYYIIRLVP FTSMLRMYIV IAFLWLCYKG FLHVRYGCNN
2260 2270 2280 2290 2300
VACLMCYKKN VAKRIECSTV VNGVKRMFYV NANGGTHFCT KHNWNCVSCD
2310 2320 2330 2340 2350
TYTVDSTFIC RQVALDLSAQ FKRPIIHTDE AYYEVTSVEV RNGYVYCYFE
2360 2370 2380 2390 2400
SDGQRSYERF PMDAFTNVSK LHYSELKGAA PAFNVLVFDA TNRIEENAVK
2410 2420 2430 2440 2450
TAAIYYAQLA CKPILLVDKR MVGVVGDDAT IARAMFEAYA QNYLLKYSIA
2460 2470 2480 2490 2500
MDKVKHLYST ALQQISSGMT VESVLKVFVG STRAEAKDLE SDVDTNDLVS
2510 2520 2530 2540 2550
CIRLCHQEGW EWTTDSWNNL VPTYIKQDTL STLEVGQFMT ANAKYVNANI
2560 2570 2580 2590 2600
AKGAAVNLIW RYADFIKLSE SMRRQLKVAA RKTGLNLLVT TSSLKADVPC
2610 2620 2630 2640 2650
MVTPFKIIGG HRRIVSWRRV LIHVFMLLVV LNPQWFTPWY IMRPIEYNVV
2660 2670 2680 2690 2700
DFKVIDNAVI RDITSADQCF ANKFSAFENW YSNRYGSYVN SRGCPMVVGV
2710 2720 2730 2740 2750
VSDIVGSLVP GLPARFLRVG TTLLPLVNYG LGAVGSVCYT PHYAINYDVF
2760 2770 2780 2790 2800
DTSACVLAAT CTLFSSASGE RMPYCADAAL IQNASRYDML KPHVMYPFYE
2810 2820 2830 2840 2850
HSGYIRFPEV ISAGVHIVRT MAMEYCKVGR CDVSEAGLCM SLQPRWVVNN
2860 2870 2880 2890 2900
AYFRQQSGVY CGTSAFDLFM NMLLPIFTPV GAVDITTSIL MGALLAVVVS
2910 2920 2930 2940 2950
MSLYYLLRFR RAFGDYSGVI FTNILAFVLN VIVLCLEGPY PMLPSIYAMV
2960 2970 2980 2990 3000
FLYATCYFGS DIACMMHVSF LIMFAGVVPL WVTVLYIVVV LSRHILWFAS
3010 3020 3030 3040 3050
LCTKRTVQVG DLAFHSFQDA ALQTFMLDKE VFLRLKREIS SDAYFKYLAM
3060 3070 3080 3090 3100
YNKYKYYSGP MDTAAYREAA CSHLVMALEK YSNGGGDTIY QPPRCSVASA
3110 3120 3130 3140 3150
ALQAGLTRMA HPSGLVEPCL VKVNYGSMTL NGIWLDNFVI CPRHVMCSRD
3160 3170 3180 3190 3200
ELANPDYPRL SMRAANYDFH VSQNGHNIRV IGHTMEGSLL KLTVDVNNPK
3210 3220 3230 3240 3250
TPAYSFIRVS TGQAMSLLAC YDGLPTGVYT CTLRSNGTMR ASFLCGSCGS
3260 3270 3280 3290 3300
PGFVMNGKEV QFCYLHQLEL PNGTHTGTDF SGVFYGPFED KQVPQLAAPD
3310 3320 3330 3340 3350
CTITVNVLAW LYAAVLSGEN WFLTKSSISP AEFNNCAVKY MCQSVTSESL
3360 3370 3380 3390 3400
QVLQPLAAKT GISVERMLSA LKVLLSAGFC GRTIMGSCSL EDEHTPYDIG
3410 3420 3430 3440 3450
RQMLGVKLQG KFQSMFRWTL QWFAIIFVLT ILILLQLAQW TFVGALPFTL
3460 3470 3480 3490 3500
LLPLIGFVAV CVGFVSLLIK HKHTYLTVYL LPVAMVTAYY NFQYTPEGVQ
3510 3520 3530 3540 3550
GYLLSLYNYV NPGRIDVIGT DLLTMLIISV ACTLLSVRMV RTDAYSRIWY
3560 3570 3580 3590 3600
VCTAVGWLYN CWTGSADTVA ISYLTFMVSV FTNYTGVACA SLYAAQFMVW
3610 3620 3630 3640 3650
VLKFLDPTIL LLYGRFRCVL VCYLLVGYLC TCYFGVFNLI NRLFRCTLGN
3660 3670 3680 3690 3700
YEYVVSSQEL RYMNSHGLLP PTNSWQALML NIKLAGIGGI PIYRVSTIQS
3710 3720 3730 3740 3750
NMTDLKCTSV VLLSVLQQLR VESSSKLWAL CVKLHNEILA SNSPTEAFEA
3760 3770 3780 3790 3800
FVSLLSVLLS LPGAINLDEL CSSILENNSV LQAVASEFSN LSSYVDYENA
3810 3820 3830 3840 3850
QKAYDTAVAT GAPASTVNAL KKAMNVAKSV LDKDVATTRK LERMSELAMT
3860 3870 3880 3890 3900
AMYKQARAED RRSKVTAAMQ TMLFNMIRRL DSDALSNILN NARNGVVPLG
3910 3920 3930 3940 3950
VIPRTAANKL LLVVPDFSVY TATITMPTLT YAGSAWDVMQ VADADGKTVN
3960 3970 3980 3990 4000
ATDITRENSV NLAWPLVVTA QRQQATSPVK LQNNELMPQT VKRMNVVAGV
4010 4020 4030 4040 4050
SQTACVTDAV AYYNATKEGR HVMAILADTD GLAFAKVEKS TGDGFVILEL
4060 4070 4080 4090 4100
EPPCKFMVDT PKGPALKYLY FTKGLKNLCR GTVLGTLACT VRLHAGSATE
4110 4120 4130 4140 4150
VASNSSILSL CSFSVDPEAT YKDYLDNGGS PIGNCVKMLT PHTGTGLAIT
4160 4170 4180 4190 4200
AKPDANIDQE SFGGASCCLY CRCHIEHPGA SGVCKYKGKF VQIPLVGVND
4210 4220 4230 4240 4250
PIGFCIRNVV CAVCNMWQGY GCPCSSLREI NLQARDECFL NRVRGTSGVA
4260 4270 4280 4290 4300
RLVPLGSGVQ PDIVLRAFDI CNTKVAGFGL HLKNNCCRYQ ELDADGTQLD
4310 4320 4330 4340 4350
SYFVVKRHTE SNYLLEQRCY EKLKDCGVVA RHDFFKFNIE GVMTPHVSRE
4360 4370 4380 4390 4400
RLTKYTMADL VYSLRHFDNN NCDTLKEILV LRGCCTADYF DRKDWYDPVE
4410 4420 4430 4440 4450
NPDIIRVYHN LGETVRKAVL SAVKMADSMV EQGLIGVLTL DNQDLNGQWY
4460 4470 4480 4490 4500
DFGDFIEGPA GAGVAVMDTY YSLAMPVYTM TNMLAAECHV DGDFSKPKRV
4510 4520 4530 4540 4550
WDICKYDYTQ FKYSLFSKYF KYWDMQYHPN CVACADDRCI LHCANFNILF
4560 4570 4580 4590 4600
SMVLPNTSFG PLVQKIYVDG VPFVVSTGYH YRELGVVMNQ DIRQHAQRLS
4610 4620 4630 4640 4650
LRELLVYAAD PAMHVAASNA LADKRTVCMS VAAMTTGVTF QTVKPGQFNE
4660 4670 4680 4690 4700
DFYNFAVKCG FFKEGSTISF KHFFYAQDGN AAISDYDYYR YNLPTMCDIK
4710 4720 4730 4740 4750
QLLFSLEVVD KYFDCYDGGC LQASQVVVAN YDKSAGFPFN KFGKARLYYE
4760 4770 4780 4790 4800
SLSYADQDEL FAYTKRNVLP TITQMNLKYA ISAKNRARTV AGVSIASTMT
4810 4820 4830 4840 4850
NRQFHQKMLK SIAAARGASV VIGTTKFYGG WNRMLRTLCE GVENPHLMGW
4860 4870 4880 4890 4900
DYPKCDRAMP NLLRIFASLI LARKHATCCN ASERFYRLAN ECAQVLSEMV
4910 4920 4930 4940 4950
LCGGGFYVKP GGTSSGDSTT AYANSVFNIC QAVSANLNTF LSIDGNKIYT
4960 4970 4980 4990 5000
TYVQELQRRL YLGIYRSNTV DNELVLDYYN YLRKHFSMMI LSDDGVVCYN
5010 5020 5030 5040 5050
ADYAQKGYVA DIQGFKELLY FQNNVFMSES KCWVEPDITK GPHEFCSQHT
5060 5070 5080 5090 5100
MLVDMKGEQV YLPYPDPSRI LGAGCFVDDL LKTDGTLMME RYVSLAIDAY
5110 5120 5130 5140 5150
PLTKHPDPEY QNVFWCYLQY IKKLHEELTG HLLDTYSVML ASDNASKYWE
5160 5170 5180 5190 5200
VEFYENMYME SATLQSVGTC VVCNSQTSLR CGGCIRRPFL CCKCCYDHVV
5210 5220 5230 5240 5250
STTHKLVLSV TPYVCNNPSC DVADVTQLYL GGMSYYCRDH RPPISFPLCA
5260 5270 5280 5290 5300
NGQVFGLYKN ICTGSPDVAD FNSLATCDWS NSKDYVLANT ATERLKLFAA
5310 5320 5330 5340 5350
ETLRATEENA KQAYASAVVK EVLSDRELVL SWETGKTRPP LNRNYVFTGF
5360 5370 5380 5390 5400
HITKNSKVQL GEYIFEKGDY GDVVNYRSST TYKLQVGDYF VLTSHSVQPL
5410 5420 5430 5440 5450
SSPTLLPQER YTKLVGLYPA MNVPESFASN VVHYQRVGMS RYTTVQGPPG
5460 5470 5480 5490 5500
TGKSHLSIGL ALYYPSAKIV YTACSHAAVD ALCEKAHKNL PINRCSRIVP
5510 5520 5530 5540 5550
AKARVECFSK FKVNDVGAQY VFSTINALPE TTADILVVDE VSMCTNYDLS
5560 5570 5580 5590 5600
MINARVRAKH IVYVGDPAQL PAPRTLLTKG TLAPEHFNSV CRLMVAVGPD
5610 5620 5630 5640 5650
IFLATCYRCP KEIVDTVSAL VYDKKLKANK VTTGECYKCY YKGSVTHDSS
5660 5670 5680 5690 5700
SAINKPQLGL VKEFLIKNPK WQSAVFISPY NSQNSVARRM LGLQTQTVDS
5710 5720 5730 5740 5750
SQGSEFDYVI YCQTSDTAHA LNVNRFNVAI TRAKKGILCV MSDSTLYESL
5760 5770 5780 5790 5800
EFTPLDVNDY VKPKMQSEVT VGLFKDCAKA EPLGPAYAPT FVSVNDKFKL
5810 5820 5830 5840 5850
NESLCVHFDT TELQMPYNRL ISKMGFKFDL NIPGYSKLFI TREQAIREVR
5860 5870 5880 5890 5900
GWVGFDVEGA HACGPNIGTN LPLQIGFSTG VNFVVTPSGY IDTESGSRLA
5910 5920 5930 5940 5950
NVVSKAPPGD QFKHLIPLMR KGEPWSVVRK RIVEMLCDTL DGVSDTVTFV
5960 5970 5980 5990 6000
TWAHGFELTT LHYFAKVGPE RKCFMCPRRA TLFSSVYGAY SCWSHHRHIG
6010 6020 6030 6040 6050
GADFVYNPFL VDVQQWGYVG NLQVNHDNVC DVHKGAHVAS CDAIMTRCLA
6060 6070 6080 6090 6100
IHDCFCGEVN WDVEYPIIAN ELAINRACRS VQRVVLKAAV KALHIETIYD
6110 6120 6130 6140 6150
IGNPKAIKVY GVNVNNWNFY DTNPVVEGVK QLHYVYDVHR DQFKDGLAMF
6160 6170 6180 6190 6200
WNCNVDCYPH NALVCRFDTR VLSKLNLAGC NGGSLYVNQH AFHTDAFNKN
6210 6220 6230 6240 6250
AFVNLKPLPF FYYSDTACEN ATGVSTNYVS EVDYVPLKSN VCITRCNLGG
6260 6270 6280 6290 6300
AVCKKHADEY RNFLESYNTM VSAGFTLWVD KTFDVFNLWS TFVKLQSLEN
6310 6320 6330 6340 6350
VAYNVLKSGH FTAVAGELPV AILNDRLYIK EDGADKLLFT NNTCLPTNVA
6360 6370 6380 6390 6400
FELWAKRSVN VVPEVKLLRN LGVTCTYNLV IWDYESNAPL VPNTVGICTY
6410 6420 6430 6440 6450
TDLTKLDDQV VLVDGRQLDA YSKFCQLKNA IYFSPSKPKC VCTRGPTHAS
6460 6470 6480 6490 6500
INGVVVEAPD RGTAFWYAMR KDGAFVQPTD GYFTQSRTVD DFQPRTQLEI
6510 6520 6530 6540 6550
DFLDLEQSCF LDKYDLHDLG LEHIVYGQFD GTIGGLHLLI GAVRRKRTAH
6560 6570 6580 6590 6600
LVMETVLGTD TVTSYAVIDQ PTASSKQVCS VVDIILDDFI ALIKAQDRSV
6610 6620 6630 6640 6650
VSKVVQCCLD FKVFRFMLWC KGGKISTFYP QLQAKQDWKP GYSMPALYKV
6660 6670 6680 6690 6700
QNAVLEPCLL HNYGQAARLP SGTLMNVAKY TQLCQYLNTC SLAVPAKMRV
6710 6720 6730 6740 6750
MHFGAGSDKG VCPGTAVLKQ WLPADAYLVD NDLCYCASDA DSTYVGSCET
6760 6770 6780 6790 6800
FFSVNKWDFI FSDMYDARTK NTSGDNTSKE GFFTYLTGFI RSKLALGGSI
6810 6820 6830 6840 6850
AIKITEHSWS ADLYAIMGHF NWWTCFCTSV NSSSSEAFLI GVNYIGVGAL
6860 6870 6880 6890 6900
LDGWQMHANY VFWRNSTVMQ LSSYSLYDLQ RFPLRLKGTP VMSLKEDQLN
6910 6920 6930
ELVLNLIRAG RLIVRDAVDI GVRGVACSGV

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

Length:6,930
Mass (Da):769,729
Last modified:June 10, 2008 - v1
Checksum:i9ED06D0888C7EC7B
GO
Isoform Replicase polyprotein 1a (identifier: P0C6T6-1) [UniParc]FASTAAdd to Basket

Also known as: pp1a, ORF1a polyprotein

The sequence of this isoform can be found in the external entry P0C6T6.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Note: Produced by conventional translation.

Length:4,248
Mass (Da):468,590
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
EF065513 Genomic RNA. Translation: ABN10910.1.
RefSeqiYP_001039970.1. NC_009021.1. [P0C6W5-1]

Genome annotation databases

GeneIDi4836014.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
EF065513 Genomic RNA. Translation: ABN10910.1 .
RefSeqi YP_001039970.1. NC_009021.1. [P0C6W5-1 ]

3D structure databases

ProteinModelPortali P0C6W5.
SMRi P0C6W5. Positions 934-1096, 3106-3403, 3699-3782, 3820-3972, 3985-4094, 4104-4224.
ModBasei Search...
MobiDBi Search...

Proteomic databases

PRIDEi P0C6W5.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 4836014.

Family and domain databases

Gene3Di 3.40.50.300. 2 hits.
InterProi IPR027351. (+)RNA_virus_helicase_core_dom.
IPR009461. Coronavirus_NSP16.
IPR027352. CV_MBD_dom.
IPR002589. Macro_dom.
IPR009466. NSP11.
IPR024375. Nsp3_coronavir.
IPR014828. NSP7.
IPR014829. NSP8.
IPR014822. NSP9.
IPR027417. P-loop_NTPase.
IPR008740. Peptidase_C30.
IPR013016. Peptidase_C30/C16.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
IPR009469. RNA_pol_N_coronovir.
IPR018995. RNA_synth_NSP10_coronavirus.
IPR029063. SAM-dependent_MTases-like.
IPR009003. Trypsin-like_Pept_dom.
IPR014827. Viral_protease.
[Graphical view ]
Pfami PF06478. Corona_RPol_N. 1 hit.
PF01661. Macro. 1 hit.
PF09401. NSP10. 1 hit.
PF06471. NSP11. 1 hit.
PF06460. NSP13. 1 hit.
PF08716. nsp7. 1 hit.
PF08717. nsp8. 1 hit.
PF08710. nsp9. 1 hit.
PF05409. Peptidase_C30. 1 hit.
PF00680. RdRP_1. 1 hit.
PF11633. SUD-M. 1 hit.
PF01443. Viral_helicase1. 1 hit.
PF08715. Viral_protease. 1 hit.
[Graphical view ]
SUPFAMi SSF101816. SSF101816. 1 hit.
SSF144246. SSF144246. 1 hit.
SSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
SSF53335. SSF53335. 1 hit.
PROSITEi PS51653. CV_MBD. 1 hit.
PS51442. M_PRO. 1 hit.
PS51154. MACRO. 1 hit.
PS51124. PEPTIDASE_C16. 1 hit.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Comparative analysis of twelve genomes of three novel group 2c and group 2d coronaviruses reveals unique group and subgroup features."
    Woo P.C.Y., Wang M., Lau S.K.P., Xu H.F., Poon R.W.S., Guo R., Wong B.H.L., Gao K., Tsoi H.-W., Huang Y., Li K.S.M., Lam C.S.F., Chan K.-H., Zheng B.-J., Yuen K.-Y.
    J. Virol. 81:1574-1585(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
    Strain: Isolate HKU9-1.
  2. "Suppression of host gene expression by nsp1 proteins of group 2 bat coronaviruses."
    Tohya Y., Narayanan K., Kamitani W., Huang C., Lokugamage K., Makino S.
    J. Virol. 83:5282-5288(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION OF NSP1.

Entry informationi

Entry nameiR1AB_BCHK9
AccessioniPrimary (citable) accession number: P0C6W5
Secondary accession number(s): A3EXG5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: June 10, 2008
Last modified: October 29, 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

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