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P0C6W3

- R1AB_BCHK4

UniProt

P0C6W3 - R1AB_BCHK4

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Protein

Replicase polyprotein 1ab

Gene

rep

Organism
Bat coronavirus HKU4 (BtCoV) (BtCoV/HKU4/2004)
Status
Reviewed - Annotation score: 5 out of 5- Protein inferred from homologyi

Functioni

The replicase polyprotein of coronaviruses is a multifunctional protein: it contains the activities necessary for the transcription of negative stranded RNA, leader RNA, subgenomic mRNAs and progeny virion RNA as well as proteinases responsible for the cleavage of the polyprotein into functional products.By similarity
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).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
Sitei195 – 1962CleavageSequence Analysis
Sitei847 – 8482Cleavage; by PL-PROSequence Analysis
Active sitei1634 – 16341For PL-PRO activityPROSITE-ProRule annotation
Active sitei1800 – 18001For PL-PRO activityPROSITE-ProRule annotation
Sitei2784 – 27852Cleavage; by PL-PROSequence Analysis
Sitei3291 – 32922Cleavage; by 3CL-PROSequence Analysis
Active sitei3332 – 33321For 3CL-PRO activityPROSITE-ProRule annotation
Active sitei3439 – 34391For 3CL-PRO activityPROSITE-ProRule annotation
Sitei3597 – 35982Cleavage; by 3CL-PROSequence Analysis
Sitei3889 – 38902Cleavage; by 3CL-PROSequence Analysis
Sitei3972 – 39732Cleavage; by 3CL-PROSequence Analysis
Sitei4171 – 41722Cleavage; by 3CL-PROSequence Analysis
Sitei4281 – 42822Cleavage; by 3CL-PROSequence Analysis
Sitei4420 – 44212Cleavage; by 3CL-PROSequence Analysis
Sitei5354 – 53552Cleavage; by 3CL-PROSequence Analysis
Sitei5952 – 59532Cleavage; by 3CL-PROSequence Analysis
Sitei6475 – 64762Cleavage; by 3CL-PROSequence Analysis
Sitei6817 – 68182Cleavage; by 3CL-PROSequence Analysis

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1714 – 175138C4-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri4355 – 437117By similarityAdd
BLAST
Zinc fingeri4397 – 441014By 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 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 HKU4 (BtCoV) (BtCoV/HKU4/2004)
Taxonomic identifieri694007 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageNidoviralesCoronaviridaeCoronavirinaeBetacoronavirus
Virus hostiTylonycteris pachypus (Lesser bamboo bat) [TaxID: 258959]
ProteomesiUP000006574: Genome

Subcellular locationi

Chain 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

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 – 195195Host translation inhibitor nsp1By similarityPRO_0000290288Add
BLAST
Chaini196 – 847652Non-structural protein 2By similarityPRO_0000290289Add
BLAST
Chaini848 – 27841937Papain-like proteinaseBy similarityPRO_0000290290Add
BLAST
Chaini2785 – 3291507Non-structural protein 4By similarityPRO_0000290291Add
BLAST
Chaini3292 – 35973063C-like proteinaseBy similarityPRO_0000290292Add
BLAST
Chaini3598 – 3889292Non-structural protein 6By similarityPRO_0000290293Add
BLAST
Chaini3890 – 397283Non-structural protein 7By similarityPRO_0000290294Add
BLAST
Chaini3973 – 4171199Non-structural protein 8By similarityPRO_0000290295Add
BLAST
Chaini4172 – 4281110Non-structural protein 9By similarityPRO_0000290296Add
BLAST
Chaini4282 – 4420139Non-structural protein 10By similarityPRO_0000290297Add
BLAST
Chaini4421 – 5354934RNA-directed RNA polymeraseBy similarityPRO_0000290298Add
BLAST
Chaini5355 – 5952598HelicaseBy similarityPRO_0000290299Add
BLAST
Chaini5953 – 6475523Guanine-N7 methyltransferaseBy similarityPRO_0000290300Add
BLAST
Chaini6476 – 6817342Uridylate-specific endoribonucleaseBy similarityPRO_0000290301Add
BLAST
Chaini6818 – 71193022'-O-methyltransferaseBy similarityPRO_0000290302Add
BLAST

Post-translational modificationi

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

Proteomic databases

PRIDEiP0C6W3.

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

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

Transmembrane

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei2112 – 213221HelicalSequence AnalysisAdd
BLAST
Transmembranei2145 – 216521HelicalSequence AnalysisAdd
BLAST
Transmembranei2222 – 224221HelicalSequence AnalysisAdd
BLAST
Transmembranei2326 – 234621HelicalSequence AnalysisAdd
BLAST
Transmembranei2350 – 237021HelicalSequence AnalysisAdd
BLAST
Transmembranei2375 – 239521HelicalSequence AnalysisAdd
BLAST
Transmembranei2800 – 282021HelicalSequence AnalysisAdd
BLAST
Transmembranei3072 – 309221HelicalSequence AnalysisAdd
BLAST
Transmembranei3105 – 312521HelicalSequence AnalysisAdd
BLAST
Transmembranei3149 – 316921HelicalSequence AnalysisAdd
BLAST
Transmembranei3603 – 362321HelicalSequence AnalysisAdd
BLAST
Transmembranei3637 – 365721HelicalSequence AnalysisAdd
BLAST
Transmembranei3662 – 368221HelicalSequence AnalysisAdd
BLAST
Transmembranei3707 – 372721HelicalSequence AnalysisAdd
BLAST
Transmembranei3735 – 375521HelicalSequence AnalysisAdd
BLAST
Transmembranei3784 – 380421HelicalSequence AnalysisAdd
BLAST
Transmembranei3808 – 382821HelicalSequence AnalysisAdd
BLAST

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1152 – 1321170MacroPROSITE-ProRule annotationAdd
BLAST
Domaini1593 – 1864272Peptidase C16PROSITE-ProRule annotationAdd
BLAST
Domaini3292 – 3597306Peptidase C30PROSITE-ProRule annotationAdd
BLAST
Domaini5034 – 5196163RdRp catalyticPROSITE-ProRule annotationAdd
BLAST
Domaini5355 – 543884CV MBDAdd
BLAST
Domaini5611 – 5792182(+)RNA virus helicase ATP-bindingAdd
BLAST
Domaini5793 – 5967175(+)RNA virus helicase C-terminalAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni2112 – 2395284HD1By similarityAdd
BLAST
Regioni2800 – 3169370HD2By similarityAdd
BLAST
Regioni3603 – 3828226HD3By similarityAdd
BLAST

Compositional bias

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

Domaini

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

Sequence similaritiesi

Contains 1 Macro domain.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 fingeri1714 – 175138C4-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri4355 – 437117By similarityAdd
BLAST
Zinc fingeri4397 – 441014By similarityAdd
BLAST

Keywords - Domaini

Repeat, Transmembrane, Transmembrane helix, Zinc-finger

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR027351. (+)RNA_virus_helicase_core_dom.
IPR009461. Coronavirus_NSP16.
IPR027352. CV_MBD_dom.
IPR002589. Macro_dom.
IPR009466. NSP11.
IPR024375. Nsp3_coronavir.
IPR014828. NSP7.
IPR014829. NSP8.
IPR014822. NSP9.
IPR027417. P-loop_NTPase.
IPR008740. Peptidase_C30.
IPR013016. Peptidase_C30/C16.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
IPR009469. RNA_pol_N_coronovir.
IPR018995. RNA_synth_NSP10_coronavirus.
IPR029063. SAM-dependent_MTases-like.
IPR009003. Trypsin-like_Pept_dom.
IPR014827. Viral_protease.
[Graphical view]
PfamiPF06478. Corona_RPol_N. 1 hit.
PF01661. Macro. 1 hit.
PF09401. NSP10. 1 hit.
PF06471. NSP11. 1 hit.
PF06460. NSP13. 1 hit.
PF08716. nsp7. 1 hit.
PF08717. nsp8. 1 hit.
PF08710. nsp9. 1 hit.
PF05409. Peptidase_C30. 1 hit.
PF00680. RdRP_1. 1 hit.
PF11633. SUD-M. 1 hit.
PF08715. Viral_protease. 1 hit.
[Graphical view]
SMARTiSM00506. A1pp. 1 hit.
[Graphical view]
SUPFAMiSSF101816. SSF101816. 1 hit.
SSF144246. SSF144246. 1 hit.
SSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
SSF53335. SSF53335. 1 hit.
PROSITEiPS51653. CV_MBD. 1 hit.
PS51442. M_PRO. 1 hit.
PS51154. MACRO. 1 hit.
PS51124. PEPTIDASE_C16. 1 hit.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by ribosomal frameshifting. Align

Isoform Replicase polyprotein 1ab (identifier: P0C6W3-1) [UniParc]FASTAAdd to Basket

Also known as: pp1ab

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

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        10         20         30         40         50
MLSKASVTTQ GARGKYRAEL YNEKRSDHVA CTVPLCDTDD MACKLTPWFE
60 70 80 90 100
DGETAFNQVS SILKEKGKIL FVPMHMQRAM KFLPGPRVYL VERLTGGMLS
110 120 130 140 150
KHFLVNQLAY KDQVGAAMMR TTLNAKPLGM FFPYDSSLET GEYTFLLRKN
160 170 180 190 200
GLGGQLFRER PWDRKETPYV EILDDLEADP TGKYSQNLLK KLIGGDCIPI
210 220 230 240 250
DQYMCGKNGK PIADYAKIVA KEGLTTLADI EVDVKSRMDS DRFIVLNKKL
260 270 280 290 300
YRVVWNVTRR NVPYPKQTAF TIVSVVQCDD KDSVPEHTFT IGSQILMVSP
310 320 330 340 350
LKATNNKNFN LKQRLLYTFY GKDAVQQPGY IYHSAYVDCN ACGRGTWCTG
360 370 380 390 400
NAIQGFACDC GANYSANDVD LQSSGLVPRN ALFLANCPCA NNGACSHSAA
410 420 430 440 450
QVYNILDGKA CVEVGGKSFT LTFGGVVYAY MGCCDGTMYF VPRAKSCVSR
460 470 480 490 500
IGDAIFTGCT GTWDKVVETA NLFLEKAQRS LNFCQQFALT EVVLAILSGT
510 520 530 540 550
TSTFEELRDL CHNASYEKVR DHLVNHGFVV TIGDYIRDAI NIGANGVCNA
560 570 580 590 600
TINAPFIAFT GLGESFKKVS AIPWKICSNL KSALDYYSSN IMFRVFPYDI
610 620 630 640 650
PCDVSNFVEL LLDCGKLTVA TSYFVLRYLD EKFDTVLGTV SSACQTALSS
660 670 680 690 700
FLNACVAASR ATAGFINDMF KLFKVLMHKL YVYTSCGYVA VAEHSSKIVQ
710 720 730 740 750
QVLDIMSKAM KLLHTNVSWA GTKLSAIIYE GREALLFNSG TYFCLSTKAK
760 770 780 790 800
TLQGQMNLVL PGDYNKKTLG ILDPVPNADT IDVNANSTVV DVVHGQLEPT
810 820 830 840 850
NEHGPSMIVG NYVLVSDKLF VRTEDEEFYP LCTNGKVVST LFRLKGGMPS
860 870 880 890 900
KKVTFGDVNT VEVTAYRSVS ITYDIHPVLD ALLSSSKLAT FTVEKDLLVE
910 920 930 940 950
DFVDVIKDEV LTLLTPLLRG YDIDGFDVED FIDVPCYVYN QDGDCAWSSN
960 970 980 990 1000
MTFSINPVED VEEVEEFIED DYLSDELPIA DDEEAWARAV EEVMPLDDIL
1010 1020 1030 1040 1050
VAEIELEEDP PLETALESVE AEVVETAEAQ EPSVESIDST PSTSTVVGEN
1060 1070 1080 1090 1100
DLSVKPMSRV AETDDVLELE TAVVGGPVSD VTAIVTNDIV SVEQAQQCGV
1110 1120 1130 1140 1150
SSLPIQDEAS ENQVHQVSDL QGNELLCSET KVEIVQPRQD LKPRRSRKSK
1160 1170 1180 1190 1200
VDLSKYKHTV INNSVTLVLG DAIQIASLLP KCILVNAANR HLKHGGGIAG
1210 1220 1230 1240 1250
VINKASGGDV QEESDEYISN NGPLHVGDSV LLKGHGLADA ILHVVGPDAR
1260 1270 1280 1290 1300
NNEDAALLKR CYKAFNKHTI VVTPLISAGI FSVDPKVSFE YLLANVTTTT
1310 1320 1330 1340 1350
YVVVNNEDIY NTLATPSKPD GLVYSFEGWR GTVRTAKNYG FTCFICTEYS
1360 1370 1380 1390 1400
ANVKFLRTKG VDTTKKIQTV DGVSYYLYSA RDALTDVIAA ANGCSGICAM
1410 1420 1430 1440 1450
PFGYVTHGLD LAQSGNYVRQ VKVPYVCLLA SKEQIPIMNS DVAIQTPETA
1460 1470 1480 1490 1500
FINNVTSNGG YHSWHLVSGD LIVKDVCYKK LLHWSGQTIC YADNKFYVVK
1510 1520 1530 1540 1550
NDVALPFSDL EACRAYLTSR AAQQVNIEVL VTIDGVNFRT VILNDTTTFR
1560 1570 1580 1590 1600
KQLGATFYKG VDISDAFPTV KMGGESLFVA DNLSESEKVV LKEYYGTSDV
1610 1620 1630 1640 1650
TFLQRYYSLQ PLVQQWKFVV HDGVKSLKLS NYNCYINATI MMIDMLHDIK
1660 1670 1680 1690 1700
FVVPALQNAY LRYKGGDPYD FLALIMAYGD CTFDNPDDEA KLLHTLLAKA
1710 1720 1730 1740 1750
ELTVSAKMVW REWCTVCGIR DIEYTGMRAC VYAGVNSMEE LQSVFNETCV
1760 1770 1780 1790 1800
CGSVKHRQLV EHSAPWLLVS GLNEVKVSTS TDPIYRAFNV FQGVETSVGH
1810 1820 1830 1840 1850
YVHIRVKDGL FYKYDSGSLT KTSDMKCKMT SVWYPTVRYT ADCNVVVYDL
1860 1870 1880 1890 1900
DGVTKVEVNP DLSNYYMKDG KYYTSKPTIK YSPATILPGS VYSNSCLVGV
1910 1920 1930 1940 1950
DGTPGSDTIS KFFNDLLGFD ETKPISKKLT YSLLPNEDGD VLLSEFSNYN
1960 1970 1980 1990 2000
PVYKKGVMLK GKPILWVNNG VCDSALNKPN RASLRQLYDV APIVLDNKYT
2010 2020 2030 2040 2050
VLQDNTSQLV EHNVPVVDDV PITTRKLIEV KCKGLNKPFV KGNFSFVNDP
2060 2070 2080 2090 2100
NGVTVVDTLG LTELRALYVD INTRYIVLRD NNWSSLFKLH TVESGDLQIV
2110 2120 2130 2140 2150
AAGGSVTRRA RVLLGASSLF ASFAKITVTA TTAACKTAGR GFCKFVVNYG
2160 2170 2180 2190 2200
VLQNMFVFLK MLFFLPFNYL WPKKQPTVDI GVSGLRTAGI VTTNIVKQCG
2210 2220 2230 2240 2250
TAAYYMLLGK FKRVDWKATL RLFLLLCTTI LLLSSIYHLV LFNQVLSSDV
2260 2270 2280 2290 2300
MLEDATGILA IYKEVRSYLG IRTLCDGLVV EYRNTSFDVM EFCSNRSVLC
2310 2320 2330 2340 2350
QWCLIGQDSL TRYSALQMLQ THITSYVLNI DWIWFALEFF LAYVLYTSSF
2360 2370 2380 2390 2400
NVLLLVVTAQ YFFAYTSAFV NWRAYNYIVS GLFFLVTHIP LHGLVRVYNF
2410 2420 2430 2440 2450
LACLWFLRKF YSHVINGCKD TACLLCYKRN RLTRVEASTI VCGTKRTFYI
2460 2470 2480 2490 2500
AANGGTSYCC KHNWNCVECD TAGVGNTFIC TEVANDLTTT LRRLIKPTDQ
2510 2520 2530 2540 2550
SHYYVDSVVV KDAVVELHYN RDGSSCYERY PLCYFTNLEK LKFKEVCKTP
2560 2570 2580 2590 2600
TGIPEHNFLI YDTNDRGQEN LARSACVYYS QVLCKPMLLV DVNLVTTVGD
2610 2620 2630 2640 2650
SREIAIKMLD SFINSFISLF SVSRDKLEKL INTARDCVRR GDDFQNVLKT
2660 2670 2680 2690 2700
FTDAARGHAG VESDVETTMV VDALQYAHKN DIQLTTECYN NYVPGYIKPD
2710 2720 2730 2740 2750
SINTLDLGCL IDLKAASVNQ TSMRNANGAC VWNSGDYMKL SDSFKRQIRI
2760 2770 2780 2790 2800
ACRKCNIPFR LTTSKLRAAD NILSVKFSAT KIVGGAPSWL LRVRDLTVKG
2810 2820 2830 2840 2850
YCILTLFVFT VAVLSWFCLP SYSIATVNFN DDRILTYKVI ENGIVRDIAP
2860 2870 2880 2890 2900
NDVCFANKYG HFSKWFNENH GGVYRNSMDC PITIAVIAGV AGARVANVPA
2910 2920 2930 2940 2950
NLAWVGKQIV LFVSRVFANT NVCFTPINEI PYDTFSDSGC VLSSECTLFR
2960 2970 2980 2990 3000
DAEGNLNPFC YDPTVLPGAS SYADMKPHVR YDMYDSDMYI KFPEVIVEST
3010 3020 3030 3040 3050
LRITKTLATQ YCRFGSCEES AAGVCISTNG SWALYNQNYS TRPGIYCGDD
3060 3070 3080 3090 3100
YFDIVRRLAI SLFQPVTYFQ LSTSLAMGLV LCVFLTAAFY YINKVKRALA
3110 3120 3130 3140 3150
DYTQCAVVAV VAALLNSLCL CFIVANPLLV APYTAMYYYA TFYLTGEPAF
3160 3170 3180 3190 3200
IMHISWYVMF GAVVPIWMLA SYTVGVMLRH LFWVLAYFSK KHVDVFTDGK
3210 3220 3230 3240 3250
LNCSFQDAAS NIFVIGKDTY VALRNAITQD SFVRYLSLFN KYKYYSGAMD
3260 3270 3280 3290 3300
TASYREACAA HLCKALQTYS ETGSDILYQP PNCSVTSSVL QSGLVKMSAP
3310 3320 3330 3340 3350
SGAVENCIVQ VTCGSMTLNG LWLDNTVWCP RHIMCPADQL TDPNYDALLI
3360 3370 3380 3390 3400
SKTNHSFIVQ KHIGAQANLR VVAHSMVGVL LKLTVDVANP STPAYTFSTV
3410 3420 3430 3440 3450
KPGASFSVLA CYNGKPTGVF TVNLRHNSTI KGSFLCGSCG SVGYTENGGV
3460 3470 3480 3490 3500
INFVYMHQME LSNGTHTGSS FDGVMYGAFE DKQTHQLQLT DKYCTINVVA
3510 3520 3530 3540 3550
WLYAAVLNGC KWFVKPTRVG IVTYNEWALS NQFTEFVGTQ SIDMLAHRTG
3560 3570 3580 3590 3600
VSVEQMLAAI QSLHAGFQGK TILGQSTLED EFTPDDVNMQ VMGVVMQSGV
3610 3620 3630 3640 3650
KRISYGFIHW LISTFVLAYV SVMQLTKFTM WTYLFETIPT QMTPLLLGFM
3660 3670 3680 3690 3700
ACVMFTVKHK HTFMSLFLLP VALCLTYANI VYEPQTLISS TLIAVANWLT
3710 3720 3730 3740 3750
PTSVYMRTTH FDFGLYISLS FVLAIIVRRL YRPSMSNLAL ALCSGVMWFY
3760 3770 3780 3790 3800
TYVIGDHSSP ITYLMFITTL TSDYTITVFA TVNLAKFISG LVFFYAPHLG
3810 3820 3830 3840 3850
FILPEVKLVL LIYLGLGYMC TMYFGVFSLL NLKLRVPLGV YDYSVSTQEF
3860 3870 3880 3890 3900
RFLTGNGLHA PRNSWEALIL NFKLLGIGGT PCIKVATVQS KLTDLKCTSV
3910 3920 3930 3940 3950
VLLTVLQQLH LESNSKAWSY CVKLHNEILA AVDPTEAFER FVCLFATLMS
3960 3970 3980 3990 4000
FSANVDLDAL ANDLFENSSV LQATLTEFSH LATYAELETA QSSYQKALNS
4010 4020 4030 4040 4050
GDASPQVLKA LQKAVNVAKN AYEKDKAVAR KLERMAEQAM TSMYKQARAE
4060 4070 4080 4090 4100
DKKAKIVSAM QTMLFGMIKK LDNDVLNGVI ANARNGCVPL SIVPLCASNK
4110 4120 4130 4140 4150
LRVVIPDISV WNKVVNWPSV SYAGSLWDIT VINNVDNEVV KPTDVVETNE
4160 4170 4180 4190 4200
SLTWPLVIEC SRSSSSAVKL QNNEIHPKGL KTMVITAGVD QVNCNSSAVA
4210 4220 4230 4240 4250
YYEPVQGHRM VMGLLSENAH LKWAKVEGKD GFINIELQPP CKFLIAGPKG
4260 4270 4280 4290 4300
PEIRYLYFVK NLNNLHRGQL LGHIAATVRL QAGANTEFAS NSTVLTLVAF
4310 4320 4330 4340 4350
AVDPAKAYLD YVGSGGTPLS NYVKMLAPKT GTGVAISVKP EATADQETYG
4360 4370 4380 4390 4400
GASVCLYCRA HIEHPDVSGV CKYKTRFVQI PAHVRDPVGF LLKNVPCNVC
4410 4420 4430 4440 4450
QYWVGYGCNC DALRNNTVPQ SKDTNFLNRV RGSSVNARLE PCSSGLTTDV
4460 4470 4480 4490 4500
VYRAFDICNF KARVAGIGKY YKTNTCRFVQ VDDEGHKLDS YFIVKRHTMS
4510 4520 4530 4540 4550
NYELEKRCYD LLKDCDAVAI HDFFIFDVDK TKTPHIVRQS LTEYTMMDLV
4560 4570 4580 4590 4600
YALRHFDQNN CEVLKSILVK YGCCEQSYFD NKLWFDFVEN PSVIGVYHKL
4610 4620 4630 4640 4650
GERIRQAMLN TVKMCDHMVK SGLVGVLTLD NQDLNGKWYD FGDFVITQPG
4660 4670 4680 4690 4700
AGVAIVDSYY SYLMPVLSMT NCLAAETHKD CDFNKPLIEW PLLEYDYTDY
4710 4720 4730 4740 4750
KIGLFNKYFK YWDQTYHPNC VNCSDDRCIL HCANFNVLFS MVLPNTSFGP
4760 4770 4780 4790 4800
IVRKIFVDGV PFIVSCGYHY KELGLVMNMD FNIHRHRLAL KELMMYAADP
4810 4820 4830 4840 4850
AMHIASASAL WDLRTPCFSV AALTTGLTFQ TVRPGNFNKD FYDFVVSRGF
4860 4870 4880 4890 4900
FKEGSSVTLK HFFFAQDGHA AITDYSYYAY NLPTMVDIKQ MLFCMEVVDK
4910 4920 4930 4940 4950
YFDIYDGGCL NASEVIVNNL DKSAGHPFNK FGKARVYYES MSYQEQDELF
4960 4970 4980 4990 5000
AVTKRNVLPT ITQMNLKYAI SAKNRARTVA GVSILSTMTN RQYHQKMLKS
5010 5020 5030 5040 5050
MAATRGATCV IGTTKFYGGW DFMLKTLYKD VESPHLMGWD YPKCDRAMPN
5060 5070 5080 5090 5100
MCRILASLIL ARKHSTCCTN SDRFYRLANE CAQVLSEYVL CGGGYYVKPG
5110 5120 5130 5140 5150
GTSSGDATTA YANSVFNILQ ATTANVSALM SANGNTIIDR EIKDMQFDLY
5160 5170 5180 5190 5200
INVYRKVVPD PKFVDKYYAF LNKHFSMMIL SDDGVVCYNS DYAAKGYVAS
5210 5220 5230 5240 5250
IQNFKETLYY QNNVFMSEAK CWVETNLEKG PHEFCSQHTL YIKDGDDGYF
5260 5270 5280 5290 5300
LPYPDPSRIL SAGCFVDDIV KTDGTVMMER YVSLAIDAYP LTKHDDTEYQ
5310 5320 5330 5340 5350
NVFWVYLQYI EKLYKDLTGH MLDSYSVMLC GDDSAKFWEE GFYRDLYSSP
5360 5370 5380 5390 5400
TTLQAVGSCV VCHSQTSLRC GTCIRRPFLC CKCCYDHVIA TPHKMVLSVS
5410 5420 5430 5440 5450
PYVCNAPGCD VSDVTKLYLG GMSYYCNDHR PVCSFPLCAN GLVFGLYKNM
5460 5470 5480 5490 5500
CTGSSSIMEF NRLATCDWSD SGDYTLANTT TEPLKLFAAE TLRATEEASK
5510 5520 5530 5540 5550
QSYAIATIKE IVGERELILV WEVGKSKPPL NRNYVFTGYH LTKNSKVQLG
5560 5570 5580 5590 5600
EYVFERIDYS DAVSYKSSTT YKLAVGDIFV LTSHSVATLS APTIVNQERY
5610 5620 5630 5640 5650
LKITGIYPTI TVPEEFANHV VNFQKAGFSK YVTVQGPPGT GKSHFAIGLA
5660 5670 5680 5690 5700
IYYPTARIVY TACSHAAVDA LCEKAFKYLN IAKCSRIIPA KARVECYDRF
5710 5720 5730 5740 5750
KVNDTNSQYL FSTVNALPEI SVDILVVDEV SMCTNYDLSI INSRVKAKHI
5760 5770 5780 5790 5800
VYVGDPAQLP APRTLLIRGT LEPENFNSVT RLMCNLGPDI FLSVCYRCPK
5810 5820 5830 5840 5850
EIVSTVSALV YNNKLSAKKD ASGQCFKILF KGSVTHDASS AINRPQLNFV
5860 5870 5880 5890 5900
KTFIAANPNW SKAVFISPYN SQNAVARSML GLTTQTVDSS QGSEYPYVIF
5910 5920 5930 5940 5950
CQTADTAHAN NLNRFNVAVT RAQKGILCVM TSQVLFDSLE FAELSLNNYK
5960 5970 5980 5990 6000
LQSQIVTGLF KDCSREDTGL PPAYAPTYLS VDAKYKTTDE LCVNLNITPN
6010 6020 6030 6040 6050
VTYSRVISRM GFKLDATIPG YPKLFITRDE AIRQVRSWVG FDVEGAHASR
6060 6070 6080 6090 6100
NACGTNVPLQ LGFSTGVNFV VQPVGVVDTE WGSMLTTISA RPPPGEQFKH
6110 6120 6130 6140 6150
LVPLMNKGAT WPIVRRRIVQ MLSDTLDKLS DYCTFVCWAH GFELTSASYF
6160 6170 6180 6190 6200
CKIGKEQRCS MCSRRASTFS SPLQSYACWS HSSGYDYVYN PFFVDVQQWG
6210 6220 6230 6240 6250
YVGNLATNHD RYCGIHAGAH VASSDAIMTR CLAIYDCFIE RVDWDVTYPY
6260 6270 6280 6290 6300
ISHEQKLNSC CRTVERNVVR SAVLSGKFEK IYDIGNPKGI AIISEPVEWH
6310 6320 6330 6340 6350
FYDAQPLSNK VKKLFYTDDV SKQFEDGLCL FWNCNVSKYP SNAVVCRFDT
6360 6370 6380 6390 6400
RVHSEFNLPG CNGGSLYVNK HAFHTPAYDI NAFRDLKPLP FFYYSTTPCE
6410 6420 6430 6440 6450
VHGSGNMLED IDYVPLKSAV CITACNLGGA VCRKHAAEYR DYMEAYNIVS
6460 6470 6480 6490 6500
AAGFRLWVYK TFDIYNLWST FVKVQGLENI AFNVIKQGHF TGVDGELPVA
6510 6520 6530 6540 6550
VVNDKIFTKN GTDDVCIFKN ETALPTNVAF ELYAKRAVRS HPDLNLLRNL
6560 6570 6580 6590 6600
EVDVCYNFVL WDYDRNNIYG TTTIGVCKYT DIDVNPNLNM CFDIRDKGSL
6610 6620 6630 6640 6650
ERFMSMPNGV LISDRKIKNY PCISGPKHAY FNGAILRNID AKQPVIFYLY
6660 6670 6680 6690 6700
KKVNNEFVSF SDTFYTCGRT VGDFTVLTPM EEDFLVLDSD VFIKKYGLED
6710 6720 6730 6740 6750
YAFEHVVYGD FSHTTLGGLH LLIGLYKKMR EGHILMEEML KDRATVHNYF
6760 6770 6780 6790 6800
ITDSNTASYK AVCSVIDLRL DDFVTIIKEM DLDVVSKVVK VPIDLTMIEF
6810 6820 6830 6840 6850
MLWCRDGKVQ TFYPRLQATN DWKPGLTMPS LFKVQQMNLE PCLLANYKQS
6860 6870 6880 6890 6900
IPMPNGVHMN VAKYMQLCQY LNTCTLAVPA NMRVIHFGAG CEKGVAPGTS
6910 6920 6930 6940 6950
VLRQWLPLDA VLIDNDLNEF VSDADITIFG DCVTVHVGQQ VDLLISDMYD
6960 6970 6980 6990 7000
PCTKAVGEVN QTKALFFVYL CNFIKNNLAL GGSVAIKITE HSWSADLYKI
7010 7020 7030 7040 7050
MGRFAYWTVF CTNANASSSE GFLIGINFLG ELKEEIDGNV MHANYIFWRN
7060 7070 7080 7090 7100
STPMNLSTYS LFDLSRFPLK LKGTPVLQLK ESQINELVIS LLSQGKLLIR
7110
DNDTLNVSTD VLVNFRKRL

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

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

Also known as: pp1a, ORF1a polyprotein

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

Note: Produced by conventional translation.

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

Sequence databases

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

Genome annotation databases

GeneIDi4835998.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

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

3D structure databases

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

Proteomic databases

PRIDEi P0C6W3.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 4835998.

Family and domain databases

Gene3Di 3.40.50.300. 2 hits.
InterProi IPR027351. (+)RNA_virus_helicase_core_dom.
IPR009461. Coronavirus_NSP16.
IPR027352. CV_MBD_dom.
IPR002589. Macro_dom.
IPR009466. NSP11.
IPR024375. Nsp3_coronavir.
IPR014828. NSP7.
IPR014829. NSP8.
IPR014822. NSP9.
IPR027417. P-loop_NTPase.
IPR008740. Peptidase_C30.
IPR013016. Peptidase_C30/C16.
IPR001205. RNA-dir_pol_C.
IPR007094. RNA-dir_pol_PSvirus.
IPR009469. RNA_pol_N_coronovir.
IPR018995. RNA_synth_NSP10_coronavirus.
IPR029063. SAM-dependent_MTases-like.
IPR009003. Trypsin-like_Pept_dom.
IPR014827. Viral_protease.
[Graphical view ]
Pfami PF06478. Corona_RPol_N. 1 hit.
PF01661. Macro. 1 hit.
PF09401. NSP10. 1 hit.
PF06471. NSP11. 1 hit.
PF06460. NSP13. 1 hit.
PF08716. nsp7. 1 hit.
PF08717. nsp8. 1 hit.
PF08710. nsp9. 1 hit.
PF05409. Peptidase_C30. 1 hit.
PF00680. RdRP_1. 1 hit.
PF11633. SUD-M. 1 hit.
PF08715. Viral_protease. 1 hit.
[Graphical view ]
SMARTi SM00506. A1pp. 1 hit.
[Graphical view ]
SUPFAMi SSF101816. SSF101816. 1 hit.
SSF144246. SSF144246. 1 hit.
SSF50494. SSF50494. 1 hit.
SSF52540. SSF52540. 1 hit.
SSF53335. SSF53335. 1 hit.
PROSITEi PS51653. CV_MBD. 1 hit.
PS51442. M_PRO. 1 hit.
PS51154. MACRO. 1 hit.
PS51124. PEPTIDASE_C16. 1 hit.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

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

Entry informationi

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

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