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P0C6X8

- R1AB_CVM2

UniProt

P0C6X8 - R1AB_CVM2

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Protein

Replicase polyprotein 1ab

Gene

rep

Organism
Murine coronavirus (strain 2) (MHV-2) (Murine hepatitis virus)
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
Sitei247 – 2482Cleavage; by PL1-PROBy similarity
Sitei832 – 8332Cleavage; by PL1-PROBy similarity
Active sitei1068 – 10681For PL1-PRO activityPROSITE-ProRule annotation
Active sitei1219 – 12191For PL1-PRO activityPROSITE-ProRule annotation
Active sitei1663 – 16631For PL2-PRO activityPROSITE-ProRule annotation
Active sitei1820 – 18201For PL2-PRO activityPROSITE-ProRule annotation
Sitei2783 – 27842Cleavage; by PL2-PROBy similarity
Sitei3279 – 32802Cleavage; by 3CL-PROBy similarity
Active sitei3320 – 33201For 3CL-PRO activityPROSITE-ProRule annotation
Active sitei3424 – 34241For 3CL-PRO activityPROSITE-ProRule annotation
Sitei3582 – 35832Cleavage; by 3CL-PROBy similarity
Sitei3869 – 38702Cleavage; by 3CL-PROBy similarity
Sitei3961 – 39622Cleavage; by 3CL-PROBy similarity
Sitei4155 – 41562Cleavage; by 3CL-PROBy similarity
Sitei4265 – 42662Cleavage; by 3CL-PROBy similarity
Sitei4402 – 44032Cleavage; by 3CL-PROBy similarity
Sitei5330 – 53312Cleavage; by 3CL-PROBy similarity
Sitei5930 – 59312Cleavage; by 3CL-PROBy similarity
Sitei6451 – 64522Cleavage; by 3CL-PROBy similarity
Sitei6825 – 68262Cleavage; by 3CL-PROBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1145 – 117329C4-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri1741 – 177737C4-type 2PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri4339 – 435517By similarityAdd
BLAST
Zinc fingeri4381 – 439414By similarityAdd
BLAST
Nucleotide bindingi5611 – 56188ATPBy 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):
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
OrganismiMurine coronavirus (strain 2) (MHV-2) (Murine hepatitis virus)
Taxonomic identifieri76344 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageNidoviralesCoronaviridaeCoronavirinaeBetacoronavirus
Virus hostiMus musculus (Mouse) [TaxID: 10090]

Subcellular locationi

Chain Non-structural protein 7 : Host cytoplasmhost perinuclear region By similarity
Note: nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes (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
Transmembranei2232 – 225221HelicalSequence AnalysisAdd
BLAST
Transmembranei2260 – 228021HelicalSequence AnalysisAdd
BLAST
Transmembranei2346 – 236621HelicalSequence AnalysisAdd
BLAST
Transmembranei2388 – 240821HelicalSequence AnalysisAdd
BLAST
Transmembranei2789 – 280921HelicalSequence AnalysisAdd
BLAST
Transmembranei2869 – 288921HelicalSequence AnalysisAdd
BLAST
Transmembranei3042 – 306221HelicalSequence AnalysisAdd
BLAST
Transmembranei3064 – 308421HelicalSequence AnalysisAdd
BLAST
Transmembranei3096 – 311621HelicalSequence AnalysisAdd
BLAST
Transmembranei3123 – 314321HelicalSequence AnalysisAdd
BLAST
Transmembranei3148 – 316821HelicalSequence AnalysisAdd
BLAST
Transmembranei3591 – 361121HelicalSequence AnalysisAdd
BLAST
Transmembranei3621 – 364121HelicalSequence AnalysisAdd
BLAST
Transmembranei3647 – 366721HelicalSequence AnalysisAdd
BLAST
Transmembranei3690 – 371021HelicalSequence AnalysisAdd
BLAST
Transmembranei3717 – 373721HelicalSequence AnalysisAdd
BLAST
Transmembranei3744 – 376421HelicalSequence AnalysisAdd
BLAST
Transmembranei3788 – 380821HelicalSequence 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 – 247247Host translation inhibitor nsp1By similarityPRO_0000037323Add
BLAST
Chaini248 – 832585Non-structural protein 2By similarityPRO_0000037324Add
BLAST
Chaini833 – 27831951Papain-like proteinaseBy similarityPRO_0000037325Add
BLAST
Chaini2784 – 3279496Non-structural protein 4By similarityPRO_0000037326Add
BLAST
Chaini3280 – 35823033C-like proteinaseBy similarityPRO_0000037327Add
BLAST
Chaini3583 – 3869287Non-structural protein 6By similarityPRO_0000037328Add
BLAST
Chaini3870 – 396192Non-structural protein 7By similarityPRO_0000037329Add
BLAST
Chaini3962 – 4155194Non-structural protein 8By similarityPRO_0000037330Add
BLAST
Chaini4156 – 4265110Non-structural protein 9By similarityPRO_0000037331Add
BLAST
Chaini4266 – 4402137Non-structural protein 10By similarityPRO_0000037332Add
BLAST
Chaini4403 – 5330928RNA-directed RNA polymeraseBy similarityPRO_0000037333Add
BLAST
Chaini5331 – 5930600HelicaseBy similarityPRO_0000037334Add
BLAST
Chaini5931 – 6451521Guanine-N7 methyltransferaseBy similarityPRO_0000037335Add
BLAST
Chaini6452 – 6825374Uridylate-specific endoribonucleaseBy similarityPRO_0000037336Add
BLAST
Chaini6826 – 71242992'-O-methyltransferaseBy similarityPRO_0000037337Add
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

ProteinModelPortaliP0C6X8.
SMRiP0C6X8. Positions 3997-4147, 4271-4395, 6452-6820.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1031 – 1268238Peptidase C16 1PROSITE-ProRule annotationAdd
BLAST
Domaini1269 – 1429161MacroPROSITE-ProRule annotationAdd
BLAST
Domaini1625 – 1884260Peptidase C16 2PROSITE-ProRule annotationAdd
BLAST
Domaini3280 – 3582303Peptidase C30PROSITE-ProRule annotationAdd
BLAST
Domaini5010 – 5172163RdRp catalyticPROSITE-ProRule annotationAdd
BLAST
Domaini5331 – 541484CV MBDAdd
BLAST
Domaini5586 – 5767182(+)RNA virus helicase ATP-bindingAdd
BLAST
Domaini5768 – 5937170(+)RNA virus helicase C-terminalAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni2232 – 2408177HD1Add
BLAST
Regioni2789 – 3168380HD2Add
BLAST
Regioni3525 – 3808284HD3Add
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.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1145 – 117329C4-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri1741 – 177737C4-type 2PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri4339 – 435517By similarityAdd
BLAST
Zinc fingeri4381 – 439414By 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.
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.
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. 2 hits.
PROSITEiPS51653. CV_MBD. 1 hit.
PS51442. M_PRO. 1 hit.
PS51154. MACRO. 1 hit.
PS51124. PEPTIDASE_C16. 2 hits.
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: P0C6X8-1) [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
MAKMGKYGLG FKWAPEFPWM LPNASEKLGS PERSEEDGFC PSAAQEPKTK
60 70 80 90 100
GKTLINHVRV DCSRLPALEC CVQSAIIRDI FVDEDPLNVE ASTMMALQFG
110 120 130 140 150
SAVLVKPSKR LSIQAWAKLG VLPKTPAMGL FKRFCLCNTR ECVCDAHVAF
160 170 180 190 200
QLFTVQPDGV CLGNGRFIGW FVPVTAIPAY AKQWLQPWSI LLRKGGNKGS
210 220 230 240 250
VTSGHFRRAV TMPVYDFNVE DACEEVHLNP KGKYSRKAYA LLKGYRGVKS
260 270 280 290 300
ILFLDQYGCD YTGRLAKGLE DYGDCTLEEM KELFPVWCDS LDNEVVVAWH
310 320 330 340 350
VDRDPRAVMR LQTLATIRSI GYVGQPTEDL VDGDVVVREP AHLLAANAIV
360 370 380 390 400
KRLPRLVETM LYTDSSVTEF CYKTKLCDCG FITQFGYVDC CGDACDFRGW
410 420 430 440 450
VPGNMMDGFL CPGCSKSYMP WELEAQSSGV IPKGGVLFTQ STDTVNRESF
460 470 480 490 500
KLYGHAVVPF GSAVYWSPYP GMWLPVIWSS VKSYADLTYT GVVGCKAIVQ
510 520 530 540 550
ETDAICRSLY MDYVQHKCGN LEQRAILGLD DVYHRQLLVN RGDYSLLLEN
560 570 580 590 600
VDLFVKRRAE FACKFATCGD GLVPLLLDGL VPRSYYLIKS GQAFTSMMVN
610 620 630 640 650
FSHEVTDMCM DMALLFMHDV KVATKYVKKV TGKLAVRFKA LGVAVVRKIT
660 670 680 690 700
EWFDLAVDTA ASAAGWLCYQ LVNGLFAVAN GGITFLSDVP ELVKNFVDKF
710 720 730 740 750
KVFFKVLIDS MSVSVLSGLT VVKTASNRVC LAGCKVYEVV QKRLSAYVMP
760 770 780 790 800
VGCNEATCLV GEIEPAVVED DVVDVVKAPL TYQGCCKPPT SFEKICVVDK
810 820 830 840 850
LYMAKCGDQF YPVVVDNDTI GVLDQCWRFP CAGKKVEFND KPKVKEIPST
860 870 880 890 900
RKIKINFALD ATFDSVLSKA CSEFEVDKDV TLDELLDVVL DAVESTLSPC
910 920 930 940 950
KEHDVIGTKV CALLNRLAED YVYLFDEGGE EVIAPKMYCS FSAPDDEDCV
960 970 980 990 1000
AADVVDADEN QGDDADDSAA LVTDTQEEDG VAKGQVGVAE SDARLDQVEA
1010 1020 1030 1040 1050
FDIEKVEDPI LNELSAELNA PADKTYEDVL AFDAIYSEAL SAFYAVPGDE
1060 1070 1080 1090 1100
THFKVCGFYS PAIERTNCWL RSTLIVMQSL PLEFKDLEMQ KLWLSYKSSY
1110 1120 1130 1140 1150
NKEFVDKLVK SVPKSIILPQ GGYVADFAYF FLSQCSFKAY ANWRCLKCDM
1160 1170 1180 1190 1200
DLKLQGLDAM FFYGDVVSHV CKCGTGMTLL SADIPYTLHF GLRDDKFCAF
1210 1220 1230 1240 1250
YTPRKVFRAA CVVDVNDCHS MAVVDGKQID GKVVTKFNGD KYDFMVGHGM
1260 1270 1280 1290 1300
AFSMSAFEIA QLYGSCITPN VCFVKGDVIK VLRRVGAEVI VNPANGRMAH
1310 1320 1330 1340 1350
GAGVAGAIAK AAGKSFIKET ADMVKNQGVC QVGECYESTG GNLCKTVLNI
1360 1370 1380 1390 1400
VGPDARGHGK QCYSFLERAY QHINKCDDVV TTLISAGIFS VPTDVSLTYL
1410 1420 1430 1440 1450
IGVVTKNVIL VSNNKDDFDV IEKCQVTSIA GTKALSLQLA KNLCRDVKFE
1460 1470 1480 1490 1500
TNACDSLFSD SCFVSSYDVL QEVELLRHDI QLDDDARVFV QAHMDNLPAD
1510 1520 1530 1540 1550
WRLVNKFDSV DGVRTVKYFE CPGEIFVSSQ GKKFGYVQNG SFKVASVSQI
1560 1570 1580 1590 1600
RALLANKVDV LCTVDGVNFR SCCVAEGEVF GKTLGSVFCD GINVTKVRCS
1610 1620 1630 1640 1650
AIHKGKVFFQ YSGLSAADLV AVTDAFGFDE PQLLKYYNML GMCKWPVVVC
1660 1670 1680 1690 1700
GNYFAFKQSN NNCYINVACL MLQHLSLKFH KWQWQEAWNE FRSGKPLRFV
1710 1720 1730 1740 1750
SLVLAKGSFK FNEPSDSTDF MRVVLREADL SGATCDFEFV CKCGVKQEQR
1760 1770 1780 1790 1800
KGVDAVMHFG TLDKGDLAKG YTIACTCGNK LVHCTQLNVP FLICSNKPEG
1810 1820 1830 1840 1850
KKLPDDVVAA NIFTGGSLGH YTHVKCKPKY QLYDACNVSK VSEAKGNFTD
1860 1870 1880 1890 1900
CLYLKNLKQT FSSKLTTFYL DDVKCVEYNP DLSQYYCESG KYYTKPIIKA
1910 1920 1930 1940 1950
QFRTFEKVEG VYTNFKLVGH SIAEKFNAKL GFDCNSPFTE YKITEWPTAT
1960 1970 1980 1990 2000
GDVVLASDDL YVSRYSGGCV TFGKPVIWLG HEEASLKSLT YFNRPSVVCE
2010 2020 2030 2040 2050
NKFNVLPVDV SEPTDKGPVP AAVLVTGALS GAATAPGTAK EQKVCASDSV
2060 2070 2080 2090 2100
VDQVVSGFLS DLSGATVDVK EVKLNGVKKP IKVEDSVVVN DPTSETKVVK
2110 2120 2130 2140 2150
SLSIVDVYDM FLTGCRYVVW MANELSRLVN SPTVREYVKW GMTKIVIPAK
2160 2170 2180 2190 2200
LVLLRDEKQE FVAPKVVKAK VIACYSAVKW FFLYCFSWIK FNTDNKVIYT
2210 2220 2230 2240 2250
TEVASKLTFN LCCLAFKNAL QTFNWNVVSR GFFLVATVFL LWFNFLYANV
2260 2270 2280 2290 2300
ILSDFYLPNI GFFPTFVGQI VAWVKTTFGI FTLCDLYQVS DVGYRSSFCN
2310 2320 2330 2340 2350
GSMVCELCFS GFDMLDNYDA INVVQHVVDR RVSFDYISLF KLVVELVIGY
2360 2370 2380 2390 2400
SLYTVCFYPL FGLIGMQLLT TWLPEFFMLE TMHWSARFFV FVANMLPAFT
2410 2420 2430 2440 2450
LLRFYIVVTA MYKIFCLCRH VMYGCSRPGC LFCYKRNRSV RVKCSTVVGG
2460 2470 2480 2490 2500
TLRYYDVMAN GGTGFCAKHQ WNCLNCSAFG PGNTFITHEA AADLSKELKR
2510 2520 2530 2540 2550
PVNPTDSAYY LVTEVKQVGC SMRLFYERDG QRVYDDVSAS LFVDMNGLLH
2560 2570 2580 2590 2600
SKVKGVPETH VVVVENEADK AGFLNAAVFY AQSLYRPMLL VEKKLITTAN
2610 2620 2630 2640 2650
TGLSVSQTMF DLYVDSLLGV LDVDRKSLTS FVNAAHNSLK EGVQLEQVMD
2660 2670 2680 2690 2700
TFIGCARRKC AIDSDVETKS ITKSIMSAVN AGVDFTDESC NNLVPTYVKS
2710 2720 2730 2740 2750
DTIVAADLGV LIQNNAKHVQ ANVAKAANVA CIWSVDAFNQ LSADLQHRLR
2760 2770 2780 2790 2800
KACSKTGLKI KLTYNKQEAN VPILTTPFSL KGGAVFSKVL QWLFVVNLIC
2810 2820 2830 2840 2850
FIVLWALMPT YAVHKSDMQL PLYASFKVID NGVLRDVTVT DACFANKFIQ
2860 2870 2880 2890 2900
FDQWYESTFG LVYYRNSRAC PVVVAVIDQD IGYTLFNVPT KVLRYGFHVL
2910 2920 2930 2940 2950
HFITHAFATD SVQCYTPHMQ IPYDNFYASG CVLSSLCTML AHADGTPHPY
2960 2970 2980 2990 3000
CYTEGIMHNA SLYDSLAPHV RYNLANSNGY IRFPEVVSEG IVRIVRTRSM
3010 3020 3030 3040 3050
TYCRVGLCED AEEGVCFNFN SSWVLNNPYY RAMPGTFCGR NAFDLIHQVL
3060 3070 3080 3090 3100
GGLVRPIDFF ALTASSVAGA ILAIIVVLAF YYLIKLKRAF GDYTSVVVIN
3110 3120 3130 3140 3150
VIVWCINFLM LFVFQVYPTL SCLYACFYFY TTLYFPSEIS VVMHLQWLVM
3160 3170 3180 3190 3200
YGAIMPLWFC IIYVAVVVSN HALWLFSYCR KLGTEVRSDG TFEEMSLTTF
3210 3220 3230 3240 3250
MITKESYCKL KNSVSDVAFN RYLSLYNKYR YFSGKMDTAA YREAACSQLA
3260 3270 3280 3290 3300
KAMETFNHNN GNDVLYQPPT ASVTTSFLQS GIVKMVFPTS KVEPCVVSVT
3310 3320 3330 3340 3350
YGNMTLNGLW LDDKVYCPRH VICSSADMTD PDYSNLLCRV ISSDFCVMSG
3360 3370 3380 3390 3400
RMSLTVMSYQ MQGSLLVLTV TLQNPNTPKY SFGVVKPGET FTVLAAYNGK
3410 3420 3430 3440 3450
SQGAFHVTMR SSYTIKGSFL CGSCGSVGYV LTGDSVRFVY MHQLELSTGC
3460 3470 3480 3490 3500
HTGTDFSGNF YGPYRDAQVV QLPVQDYTQT VNVVAWLYAA ILNRCNWFVQ
3510 3520 3530 3540 3550
SDSCSLEEFN VWAMTNGFSS IKADLVLDAL ASMTGVTVEQ ILAAIKRLYS
3560 3570 3580 3590 3600
GFQGKQILGS CVLEDELTPS DVYQQLAGVK LQSKRTRVVK GTCCWILAST
3610 3620 3630 3640 3650
LLFCSIISAF VKWTMFMYVT THMLGVTLCA LCFVSFAMLL VKHKHLYLTM
3660 3670 3680 3690 3700
FIMPVLCTLF YTNYLVVYKQ SFRGLAYAWL SHFVPAVDYT YMDEVLYGVV
3710 3720 3730 3740 3750
LLVAMVFVTM RSINHDVFSV MFLVGRLVSL VSMWYFGANL EEEVLLFLTS
3760 3770 3780 3790 3800
LFGTYTWTTM LSLATAKVIA KWLAVNVLYF TDVPQVKLVL LSYLCIGYVC
3810 3820 3830 3840 3850
CCYWGVLSLL NSIFRMPLGV YNYKISVQEL RYMNANGLRP PRNSFEALVL
3860 3870 3880 3890 3900
NFKLLGIGGV PVIEVSQIQS RLTDVKCVNV VLLNCLQHLH IASSSKLWQY
3910 3920 3930 3940 3950
CSTLHNEILA TSDLSVAFDK LAQLLVVLFA NPAAVDSKCL ASIEEVSDDY
3960 3970 3980 3990 4000
VRDSTVLQAL QSEFVNMASF VEYELAKKNL DEAKASGSAN QQQIKQLEKA
4010 4020 4030 4040 4050
CNIAKSAYER DRAVARKLER MADLALTNMY KEARINDKKS KVVSALQTML
4060 4070 4080 4090 4100
FSMIRKLDNQ ALNSILDNAV KGCVPLNAIP SLTSNTLTII VPDKQVFDQV
4110 4120 4130 4140 4150
VDNVYVTYAG NVWHIQSIQD ADGAVKQLNE IDVNITWPLV IAANRHNEVS
4160 4170 4180 4190 4200
SVVLQNNELM PQKLRTQVVN SGSDMNCNTP TQCYYNTTGM GKIVYAILSD
4210 4220 4230 4240 4250
CDGLKYTKIV KEDGNCVVLE LDPPCKFSVQ DVKGLKIKYL YFVKGCNTLA
4260 4270 4280 4290 4300
RGWVVGTLSS TVRLQAGTAT EYASNSAIRS LCAFSVDPKK TYLDYIQQGG
4310 4320 4330 4340 4350
APVTNCVKML CDHAGTGMAI TIKPEATTNQ DSYGGASVCI YCRSRVEHPD
4360 4370 4380 4390 4400
VDGLCKLRGK FVQVPLGIKD PVSYVLTHDV CQVCGFWRDG SCSCVGTGSQ
4410 4420 4430 4440 4450
FQSKDTNFLN RVRGTSVNAR LVPCASGLDT DVQLRAFDIC NANRAGIGLY
4460 4470 4480 4490 4500
YKVNCCRFQR ADEDGNTLDK FFVIKRTNLE VYNKEKECYE LTKECGVVAE
4510 4520 4530 4540 4550
HEFFTFDVEG SRVPHIVRKD LSKYTMLDLC YALRHFDRND CSTLKEILLT
4560 4570 4580 4590 4600
YAECDESYFQ KKDWYDFVEN SDIINVYKKL GPIFNRALLN TAKFADTLVE
4610 4620 4630 4640 4650
AGLVGVLTLD NQDLYGQWYD FGDFVKTVPG CGVAVADSYY SYMMPMLTMC
4660 4670 4680 4690 4700
HALDSELFIN GTYREFDLVQ YDFTDFKLEL FNKYFKYWSM TYHPNTCECE
4710 4720 4730 4740 4750
DDRCIIHCAN FNILFSMVLP KTCFGPLVRQ IFVDGVPFVV SIGYHYKELG
4760 4770 4780 4790 4800
VVMNMDVDTH RYRLSLKDLL LYAADPALHV ASASALLDLR TCCFSVAAIT
4810 4820 4830 4840 4850
SGVKFQTVKP GNFNQDFYEF ILSKGLLKEG SSVDLKHFFF TQDGNAAITD
4860 4870 4880 4890 4900
YNYYKYNLPT MVDIKQLLFV LEVVNKYFEI YDGGCIPATQ VIVNNYDKSA
4910 4920 4930 4940 4950
GYPFNKFGKA RLYYEALSFE EQDEVYAYTK RNVLPTLTQM NLKYAISAKN
4960 4970 4980 4990 5000
RARTVAGVSI LSTMTGRMFH QKCLKSIAAT RGVPVVIGTT KFYGGWDDML
5010 5020 5030 5040 5050
RRLIKDVDSP VLMGWDYPKC DRAMPNILRI ISSLVLARKH DSCCSHTDRF
5060 5070 5080 5090 5100
YRLANECAQV LSEIVMCGGC YYVKPGGTSS GDATTAFANS VFNICQAVSA
5110 5120 5130 5140 5150
NVCSLMACNG HKIEDLSIRE LQKRLYSNVY RADHVDPAFV NEYYEFLNKH
5160 5170 5180 5190 5200
FSMMILSDDG VVCYNSEFAS KGYIANISAF QQVLYYQNNV FMSEAKCWVE
5210 5220 5230 5240 5250
TDIEKGPHEF CSQHTMLVKM DGDEVYLPYP DPSRILGAGC FVDDLLKTDS
5260 5270 5280 5290 5300
VLLIERFVSL AIDAYPLVYH ENPEYQNVFR VYLEYIKKLY NDLGNQILDS
5310 5320 5330 5340 5350
YSVILSTCDG QKFTDETFYK NMYLRSAVMQ SVGACVVCSS QTSLRCGSCI
5360 5370 5380 5390 5400
RKPLLCCKCA YDHVMSTDHK YVLSVSPYVC NSPGCDVNDV TKLYLGGMSY
5410 5420 5430 5440 5450
YCEDHKPQYS FKLVMNGMVF GLYKQSCTGS PYIEDFNKIA SCKWTEVDDY
5460 5470 5480 5490 5500
VLANECTERL KLFAAETQKA TEESFKQCYA SATIREIVSD RELILSWEIG
5510 5520 5530 5540 5550
KVRPPLNKNY VFTGYHFTSN GKTVLGEYVF DKSELTNGVY YRATTTYKLS
5560 5570 5580 5590 5600
VGDVFILTSH AVSSLSAPTL VPQENYTSIR FASVYSVPET FQNNVPNYQH
5610 5620 5630 5640 5650
IGMKRYCTVQ GPPGTGKSHL AIGLAVYYCT ARVVYTAASH AAVDALCEKA
5660 5670 5680 5690 5700
YKFLNINDCT RIVPAKVRVD CYDKFKVNDT TRKYVFTTIN ALPELVTDII
5710 5720 5730 5740 5750
VVDEVSMLTN YELSVINSRV RAKHYVYIGD PAQLPAPRVL LNKGTLEPRY
5760 5770 5780 5790 5800
FNSVTKLMCC LGPDIFLGTC YRCPKEIVDT VSALVYHNKL KAKNDNSSMC
5810 5820 5830 5840 5850
FKVYYKGQTT HESSSAVNMQ QIYLISKFLK ANPSWSNAVF ISPYNSQNYV
5860 5870 5880 5890 5900
AKRVLGLQTQ TVDSAQGSEY DFVIYSQTAE TAHSVNVNRF NVAITRAKKG
5910 5920 5930 5940 5950
ILCVMSSMQL FESLNFSTLT LDKINNPRLQ CTTNLFKDCS RSYAGYHPAH
5960 5970 5980 5990 6000
APSFLAVDDK YKVGGDLAVC LNVADSAVTY SRLISLMGFK LDLTLDGYCK
6010 6020 6030 6040 6050
LFITRDEAIR RVRAWVGFDA EGAHATRDSI GTNFPLQLGF STGIDFVVEA
6060 6070 6080 6090 6100
TGMFAERDGY VFKKAVARAP PGEQFKHLVP LMSRGQKWDV VRIRIVQMLS
6110 6120 6130 6140 6150
DHLVDLADSV VLVTWAASFE LTCLRYFAKV GKEVVCSVCN KRATCFNSRT
6160 6170 6180 6190 6200
GYYGCWRHSY SCDYLYNPLI VDIQQWGYTG SLTSNHDLIC SVHKGAHVAS
6210 6220 6230 6240 6250
SDAIMTRCLA VHDCFCKSVN WSLEYPIISN EVSVNTSCRL LQRVMFRAAM
6260 6270 6280 6290 6300
LCNRYDVCYD IGNPKGLACV KGYDFKFYDA SPVVKSVKQF VYKYEAHKDQ
6310 6320 6330 6340 6350
FLDGLCMFWN CNVDKYPANA VVCRFDTRVL NKLNLPGCNG GSLYVNKHAF
6360 6370 6380 6390 6400
HTSPFTRAAF ENLKPMPFFY YSDTPCVYME GMESKQVDYV PLRSATCITR
6410 6420 6430 6440 6450
CNLGGAVCLK HAEDYREYLE SYNTATTAGF TFWVYKTFDF YNLWNTFTRL
6460 6470 6480 6490 6500
QSLENVVYNL VNAGHFDGRA GELPCAVIGE KVIAKIQNED VVVFKNNTPF
6510 6520 6530 6540 6550
PTNVAVELFA KRSIRPHPEL KLFRNLNIDV CWSHVLWDYA KDSVFCSSTY
6560 6570 6580 6590 6600
KVCKYTDLQC IESLNVLFDG RDNGALEAFK KCRDGVYINT TKIKSLSMIK
6610 6620 6630 6640 6650
GPQRADLNGV VVEKVGDSDV EFWFAMRRDG DDVIFSRTGS LEPSHYRSPQ
6660 6670 6680 6690 6700
GNPGGNRVGD LSGNEALARG TIFTQSRFLS SFAPRSEMEK DFMDLDEDVF
6710 6720 6730 6740 6750
IAKYSLQDYA FEHVVYGSFN QKIIGGLHLL IGLARRQQKS NLVIQEFVPY
6760 6770 6780 6790 6800
DSSIHSYFIT DENSGSSKSV CTVIDLLLDD FVDIVKSLNL NCVSKVVNVN
6810 6820 6830 6840 6850
VDFKDFQFML WCNEEKVMTF YPRLQAAADW KPGYVMPVLY KYLESPLERV
6860 6870 6880 6890 6900
NLWNYGKPIT LPTGCLMNVA KYTQLCQYLN TTTLAVPANM RVLHLGAGSD
6910 6920 6930 6940 6950
KDVAPGSAVL RQWLPAGSIL VDNDINPFVS DSVASYYGNC ITLPIACQWD
6960 6970 6980 6990 7000
LIISDMYDPL TKNIGEYNVS KDGFFTYLCH LIRDKLALGG SVAIKITEFS
7010 7020 7030 7040 7050
WNAELYSLMG KFAFWTIFCT NVNASSSEGF LIGINWLNRT RTEIDGKTMH
7060 7070 7080 7090 7100
ANYLFWRNST MWNGGAYSLF DMSKFPLKVA GTAVVSLKPD QINDLVLSLI
7110 7120
EKGKLLVRDT RKEVFVGDSL VNVK

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

Length:7,124
Mass (Da):797,625
Last modified:June 10, 2008 - v1
Checksum:iC120EF6972F622AF
GO
Isoform Replicase polyprotein 1a (identifier: P0C6U9-1) [UniParc]FASTAAdd to Basket

Also known as: pp1a, ORF1a polyprotein

The sequence of this isoform can be found in the external entry P0C6U9.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Note: Produced by conventional translation.

Length:4,416
Mass (Da):491,187
GO

Sequence cautioni

The sequence AAF19383.1 differs from that shown. Reason: Erroneous gene model prediction. Curated
The sequence AAF19384.1 differs from that shown. Reason: Erroneous gene model prediction. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF201929 Genomic RNA. Translation: AAF19383.1. Sequence problems.
AF201929 Genomic RNA. Translation: AAF19384.1. Sequence problems.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF201929 Genomic RNA. Translation: AAF19383.1 . Sequence problems.
AF201929 Genomic RNA. Translation: AAF19384.1 . Sequence problems.

3D structure databases

ProteinModelPortali P0C6X8.
SMRi P0C6X8. Positions 3997-4147, 4271-4395, 6452-6820.
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.
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.
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. 2 hits.
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.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Pathogenesis and sequence analysis of mouse hepatitis virus type 2: an experimental model system of acute meningitis and hepatitis in mice."
    Das Sarma J., Hingley S.T., Lai M.M.C., Weiss S.R., Lavi E.
    Submitted (NOV-1999) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  2. "Mouse hepatitis virus strain A59 RNA polymerase gene ORF 1a: heterogeneity among MHV strains."
    Bonilla P.J., Gorbalenya A.E., Weiss S.R.
    Virology 198:736-740(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: PARTIAL NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Entry informationi

Entry nameiR1AB_CVM2
AccessioniPrimary (citable) accession number: P0C6X8
Secondary accession number(s): Q9PYA2, Q9PYA3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: June 10, 2008
Last modified: October 29, 2014
This is version 55 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

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