rep

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

3C-like proteinase:

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).

PROSITE-ProRule annotationBy similarity

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 a 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 a 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:

Plays a role in viral transcription/replication and prevents the simultaneous activation of host cell dsRNA sensors, such as MDA5/IFIH1, OAS, and PKR (By similarity).

Acts by degrading the 5'-polyuridines generated during replication of the poly(A) region of viral genomic and subgenomic RNAs. Catalyzes a two-step reaction in which a 2'3'-cyclic phosphate (2'3'-cP) is first generated by 2'-O transesterification, which is then hydrolyzed to a 3'-phosphate (3'-P) (By similarity).

If not degraded, poly(U) RNA would hybridize with poly(A) RNA tails and activate host dsRNA sensors (By similarity).

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

Papain-like proteinase:
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). EC:3.4.19.12

Cofactorⁱ

Uridylate-specific endoribonuclease:

Mn²⁺By similarityNote: Likely affects Nsp15 binding to RNA.By similarity

Sites

Feature key	Position(s)	DescriptionActions	Length
Active siteⁱ	1068	For PL1-PRO activityPROSITE-ProRule annotation	1
Active siteⁱ	1219	For PL1-PRO activityPROSITE-ProRule annotation	1
Active siteⁱ	1663	For PL2-PRO activityPROSITE-ProRule annotation	1
Active siteⁱ	1820	For PL2-PRO activityPROSITE-ProRule annotation	1
Active siteⁱ	3320	For 3CL-PRO activityPROSITE-ProRule annotation	1
Active siteⁱ	3424	For 3CL-PRO activityPROSITE-ProRule annotation	1
Metal bindingⁱ	4339	Zinc 1PROSITE-ProRule annotation	1
Metal bindingⁱ	4342	Zinc 1PROSITE-ProRule annotation	1
Metal bindingⁱ	4348	Zinc 1PROSITE-ProRule annotation	1
Metal bindingⁱ	4355	Zinc 1PROSITE-ProRule annotation	1
Metal bindingⁱ	4381	Zinc 2PROSITE-ProRule annotation	1
Metal bindingⁱ	4384	Zinc 2PROSITE-ProRule annotation	1
Metal bindingⁱ	4392	Zinc 2PROSITE-ProRule annotation	1
Metal bindingⁱ	4394	Zinc 2PROSITE-ProRule annotation	1
Active siteⁱ	5157	PROSITE-ProRule annotation	1
Active siteⁱ	5158	PROSITE-ProRule annotation	1
Active siteⁱ	5159	PROSITE-ProRule annotation	1
Metal bindingⁱ	5335	Zinc 3PROSITE-ProRule annotation	1
Metal bindingⁱ	5338	Zinc 3PROSITE-ProRule annotation	1
Metal bindingⁱ	5346	Zinc 4PROSITE-ProRule annotation	1
Metal bindingⁱ	5349	Zinc 3PROSITE-ProRule annotation	1
Metal bindingⁱ	5356	Zinc 3PROSITE-ProRule annotation	1
Metal bindingⁱ	5359	Zinc 4PROSITE-ProRule annotation	1
Metal bindingⁱ	5363	Zinc 4PROSITE-ProRule annotation	1
Metal bindingⁱ	5369	Zinc 4PROSITE-ProRule annotation	1
Metal bindingⁱ	5380	Zinc 5PROSITE-ProRule annotation	1
Metal bindingⁱ	5385	Zinc 5PROSITE-ProRule annotation	1
Metal bindingⁱ	5402	Zinc 5PROSITE-ProRule annotation	1
Metal bindingⁱ	5405	Zinc 5PROSITE-ProRule annotation	1
Active siteⁱ	6019	PROSITE-ProRule annotation	1
Active siteⁱ	6021	PROSITE-ProRule annotation	1
Active siteⁱ	6120	PROSITE-ProRule annotation	1
Metal bindingⁱ	6136	Zinc 6PROSITE-ProRule annotation	1
Metal bindingⁱ	6139	Zinc 6PROSITE-ProRule annotation	1
Metal bindingⁱ	6155	Zinc 6PROSITE-ProRule annotation	1
Metal bindingⁱ	6158	Zinc 6PROSITE-ProRule annotation	1
Metal bindingⁱ	6186	Zinc 7PROSITE-ProRule annotation	1
Metal bindingⁱ	6190	Zinc 7PROSITE-ProRule annotation	1
Metal bindingⁱ	6193	Zinc 7PROSITE-ProRule annotation	1
Active siteⁱ	6197	PROSITE-ProRule annotation	1
Active siteⁱ	6202	PROSITE-ProRule annotation	1
Metal bindingⁱ	6208	Zinc 7PROSITE-ProRule annotation	1
Metal bindingⁱ	6376	Zinc 8PROSITE-ProRule annotation	1
Metal bindingⁱ	6397	Zinc 8PROSITE-ProRule annotation	1
Metal bindingⁱ	6408	Zinc 8PROSITE-ProRule annotation	1
Metal bindingⁱ	6411	Zinc 8PROSITE-ProRule annotation	1
Active siteⁱ	6713	PROSITE-ProRule annotation	1
Active siteⁱ	6728	PROSITE-ProRule annotation	1
Active siteⁱ	6768	PROSITE-ProRule annotation	1
Active siteⁱ	6871	PROSITE-ProRule annotation	1
Active siteⁱ	6955	PROSITE-ProRule annotation	1
Active siteⁱ	6995	PROSITE-ProRule annotation	1
Active siteⁱ	7028	PROSITE-ProRule annotation	1

Regions

Feature key	Position(s)	DescriptionActions	Length
Zinc fingerⁱ	1145 – 1173	C4-type 1PROSITE-ProRule annotationAdd BLAST	29
Zinc fingerⁱ	1741 – 1777	C4-type 2PROSITE-ProRule annotationAdd BLAST	37
Zinc fingerⁱ	4339 – 4355	By similarityAdd BLAST	17
Zinc fingerⁱ	4381 – 4394	By similarityAdd BLAST	14
Nucleotide bindingⁱ	5611 – 5618	ATPBy similarity	8

GO - Molecular functionⁱ

ATP binding Source: UniProtKB-KW
ATP hydrolysis activity Source: RHEA
cysteine-type endopeptidase activity Source: InterPro
DNA helicase activity Source: UniProtKB-EC
endonuclease activity Source: UniProtKB-KW
exoribonuclease activity Source: InterPro
lyase activity Source: UniProtKB-KW
methyltransferase activity Source: UniProtKB-KW
RNA-directed 5'-3' RNA polymerase activity Source: UniProtKB-KW
RNA helicase activity Source: UniProtKB-EC
single-stranded RNA binding Source: InterPro
thiol-dependent deubiquitinase Source: UniProtKB-EC
zinc ion binding Source: InterPro

Complete GO annotation on QuickGO ...

GO - Biological processⁱ

induction by virus of catabolism of host mRNA Source: UniProtKB-KW
induction by virus of host autophagy Source: UniProtKB-KW
methylation Source: UniProtKB-KW
modulation by virus of host protein ubiquitination Source: UniProtKB-KW
suppression by virus of host gene expression Source: UniProtKB-KW
suppression by virus of host ISG15-protein conjugation Source: UniProtKB-KW
suppression by virus of host NF-kappaB cascade Source: UniProtKB-KW
suppression by virus of host type I interferon-mediated signaling pathway Source: UniProtKB-KW
transcription, DNA-templated Source: InterPro
viral protein processing Source: InterPro
viral RNA genome replication Source: InterPro

Complete GO annotation on QuickGO ...

Keywordsⁱ

Molecular function	Endonuclease, Exonuclease, Helicase, Hydrolase, Lyase, Methyltransferase, Nuclease, Nucleotidyltransferase, Protease, RNA-binding, RNA-directed RNA polymerase, Thiol protease, Transferase
Biological process	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
Ligand	ATP-binding, Metal-binding, Nucleotide-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: Host translation inhibitor nsp1 Short name: nsp1 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.-) 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 Guanine-N7 methyltransferase (EC:2.1.1.-, EC:3.1.13.-) Short name: ExoN Alternative name(s): nsp14 Uridylate-specific endoribonuclease (EC:4.6.1.-) Alternative name(s): NendoU nsp15 p35 2'-O-methyltransferase (EC:2.1.1.57) Alternative name(s): nsp16
Gene namesⁱ	Name:rep ORF Names:1a-1b
Organismⁱ	Murine coronavirus (strain 2) (MHV-2) (Murine hepatitis virus)
Taxonomic identifierⁱ	76344 [NCBI]
Taxonomic lineageⁱ	Viruses › Riboviria › Orthornavirae › Pisuviricota › Pisoniviricetes › Nidovirales › Cornidovirineae › Coronaviridae › Orthocoronavirinae › Betacoronavirus › Embecovirus › Murine coronavirus › Murine hepatitis virus
Virus hostⁱ	Mus musculus (Mouse) [TaxID: 10090]
Proteomesⁱ	UP000139707 Componentⁱ: Genome

Subcellular locationⁱ

Papain-like proteinase:

Host membrane Curated; Multi-pass membrane protein Curated

Non-structural protein 4:

Host membrane Curated; Multi-pass membrane protein Curated

Non-structural protein 6:

Host membrane Curated; Multi-pass membrane protein Curated

Non-structural protein 7:

host 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

Non-structural protein 8:

host 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

Non-structural protein 9:

host 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

Non-structural protein 10:

host 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

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

Uridylate-specific endoribonuclease:

host perinuclear region By similarity

Topology

Feature key	Position(s)	DescriptionActions	Length
Transmembraneⁱ	2232 – 2252	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	2260 – 2280	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	2346 – 2366	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	2388 – 2408	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	2789 – 2809	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	2869 – 2889	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3042 – 3062	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3064 – 3084	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3096 – 3116	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3123 – 3143	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3148 – 3168	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3591 – 3611	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3621 – 3641	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3647 – 3667	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3690 – 3710	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3717 – 3737	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3744 – 3764	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3788 – 3808	HelicalSequence analysisAdd BLAST	21

Keywords - Cellular componentⁱ

Host cytoplasm, Host membrane, Membrane

PTM / Processingⁱ

Molecule processing

Feature key	Position(s)	DescriptionActions	Length
ChainⁱPRO_0000037323	1 – 247	Host translation inhibitor nsp1By similarityAdd BLAST	247
ChainⁱPRO_0000037324	248 – 832	Non-structural protein 2By similarityAdd BLAST	585
ChainⁱPRO_0000037325	833 – 2783	Papain-like proteinaseBy similarityAdd BLAST	1951
ChainⁱPRO_0000037326	2784 – 3279	Non-structural protein 4By similarityAdd BLAST	496
ChainⁱPRO_0000037327	3280 – 3582	3C-like proteinaseBy similarityAdd BLAST	303
ChainⁱPRO_0000037328	3583 – 3869	Non-structural protein 6By similarityAdd BLAST	287
ChainⁱPRO_0000037329	3870 – 3961	Non-structural protein 7By similarityAdd BLAST	92
ChainⁱPRO_0000037330	3962 – 4155	Non-structural protein 8By similarityAdd BLAST	194
ChainⁱPRO_0000037331	4156 – 4265	Non-structural protein 9By similarityAdd BLAST	110
ChainⁱPRO_0000037332	4266 – 4402	Non-structural protein 10By similarityAdd BLAST	137
ChainⁱPRO_0000037333	4403 – 5330	RNA-directed RNA polymeraseBy similarityAdd BLAST	928
ChainⁱPRO_0000037334	5331 – 5930	HelicaseBy similarityAdd BLAST	600
ChainⁱPRO_0000037335	5931 – 6451	Guanine-N7 methyltransferaseBy similarityAdd BLAST	521
ChainⁱPRO_0000037336	6452 – 6825	Uridylate-specific endoribonucleaseBy similarityAdd BLAST	374
ChainⁱPRO_0000037337	6826 – 7124	2'-O-methyltransferaseBy similarityAdd BLAST	299

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

Sites

Feature key	Position(s)	DescriptionActions	Length
Siteⁱ	247 – 248	Cleavage; by PL1-PROBy similarity	2
Siteⁱ	832 – 833	Cleavage; by PL1-PROBy similarity	2
Siteⁱ	2783 – 2784	Cleavage; by PL2-PROBy similarity	2
Siteⁱ	3279 – 3280	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	3582 – 3583	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	3869 – 3870	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	3961 – 3962	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	4155 – 4156	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	4265 – 4266	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	4402 – 4403	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	5330 – 5331	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	5930 – 5931	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	6451 – 6452	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	6825 – 6826	Cleavage; by 3CL-PROBy similarity	2

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

SMRⁱ	P0C6X8
ModBaseⁱ	Search...

Family & Domainsⁱ

Domains and Repeats

Feature key	Position(s)	DescriptionActions	Length
Domainⁱ	54 – 196	CoV Nsp1 globularPROSITE-ProRule annotationAdd BLAST	143
Domainⁱ	217 – 247	BetaCoV Nsp1 C-terminalPROSITE-ProRule annotationAdd BLAST	31
Domainⁱ	833 – 946	Ubiquitin-like 1PROSITE-ProRule annotationAdd BLAST	114
Domainⁱ	1031 – 1268	Peptidase C16 1PROSITE-ProRule annotationAdd BLAST	238
Domainⁱ	1269 – 1429	MacroPROSITE-ProRule annotationAdd BLAST	161
Domainⁱ	1484 – 1556	DPUPPROSITE-ProRule annotationAdd BLAST	73
Domainⁱ	1555 – 1610	Ubiquitin-like 2PROSITE-ProRule annotationAdd BLAST	56
Domainⁱ	1625 – 1884	Peptidase C16 2PROSITE-ProRule annotationAdd BLAST	260
Domainⁱ	1898 – 1999	Nucleic acid-bindingPROSITE-ProRule annotationAdd BLAST	102
Domainⁱ	3182 – 3279	Nsp4CPROSITE-ProRule annotationAdd BLAST	98
Domainⁱ	3280 – 3582	Peptidase C30PROSITE-ProRule annotationAdd BLAST	303
Domainⁱ	3870 – 3958	RdRp Nsp7 cofactorPROSITE-ProRule annotationAdd BLAST	89
Domainⁱ	3959 – 4155	RdRp Nsp8 cofactorPROSITE-ProRule annotationAdd BLAST	197
Domainⁱ	4156 – 4265	Nsp9 ssRNA-bindingPROSITE-ProRule annotationAdd BLAST	110
Domainⁱ	4266 – 4403	ExoN/MTase coactivatorPROSITE-ProRule annotationAdd BLAST	138
Domainⁱ	4408 – 4663	NiRANPROSITE-ProRule annotationAdd BLAST	256
Domainⁱ	4763 – 5330	Nsp12 RNA-dependent RNA polymerasePROSITE-ProRule annotationAdd BLAST	568
Domainⁱ	5010 – 5172	RdRp catalyticPROSITE-ProRule annotationAdd BLAST	163
Domainⁱ	5331 – 5414	CV ZBDPROSITE-ProRule annotationAdd BLAST	84
Domainⁱ	5586 – 5767	(+)RNA virus helicase ATP-bindingAdd BLAST	182
Domainⁱ	5768 – 5937	(+)RNA virus helicase C-terminalAdd BLAST	170
Domainⁱ	6001 – 6216	ExoNPROSITE-ProRule annotationAdd BLAST	216
Domainⁱ	6225 – 6451	N7-MTasePROSITE-ProRule annotationAdd BLAST	227
Domainⁱ	6452 – 6512	Nsp15 N-terminal oligomerizationPROSITE-ProRule annotationAdd BLAST	61
Domainⁱ	6513 – 6633	AV-Nsp11N/CoV-Nsp15MPROSITE-ProRule annotationAdd BLAST	121
Domainⁱ	6683 – 6822	NendoUPROSITE-ProRule annotationAdd BLAST	140
Domainⁱ	6827 – 7121	Nidovirus-type SAM-dependent 2'-O-MTasePROSITE-ProRule annotationAdd BLAST	295

Region

Feature key	Position(s)	DescriptionActions	Length
Regionⁱ	25 – 45	DisorderedSequence analysisAdd BLAST	21
Regionⁱ	2232 – 2408	HD1Add BLAST	177
Regionⁱ	2789 – 3168	HD2Add BLAST	380
Regionⁱ	3525 – 3808	HD3Add BLAST	284
Regionⁱ	6260 – 6266	SAM-bindingPROSITE-ProRule annotation	7
Regionⁱ	6338 – 6352	GpppA-bindingPROSITE-ProRule annotationAdd BLAST	15

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

Belongs to the coronaviruses polyprotein 1ab family.Curated

Zinc finger

Feature key	Position(s)	DescriptionActions	Length
Zinc fingerⁱ	1145 – 1173	C4-type 1PROSITE-ProRule annotationAdd BLAST	29
Zinc fingerⁱ	1741 – 1777	C4-type 2PROSITE-ProRule annotationAdd BLAST	37
Zinc fingerⁱ	4339 – 4355	By similarityAdd BLAST	17
Zinc fingerⁱ	4381 – 4394	By similarityAdd BLAST	14

Keywords - Domainⁱ

Repeat, Transmembrane, Transmembrane helix, Zinc-finger

Family and domain databases

Conserved Domains Database More...CDDⁱ	cd21409, 1B_cv_Nsp13-like, 1 hit cd21560, betaCoV-Nsp6, 1 hit cd21659, betaCoV_Nsp14, 1 hit cd21666, betaCoV_Nsp5_Mpro, 1 hit cd20762, capping_2-OMTase_Nidovirales, 1 hit cd21519, cv_beta_Nsp2_MHV-like, 1 hit cd21473, cv_Nsp4_TM, 1 hit cd21524, DPUP_MHV_Nsp3, 1 hit cd21593, HCoV_HKU1-like_RdRp, 1 hit cd21167, M_alpha_beta_cv_Nsp15-like, 1 hit cd21161, NendoU_cv_Nsp15-like, 1 hit cd21171, NTD_alpha_beta_cv_Nsp15-like, 1 hit cd21467, Ubl1_cv_Nsp3_N-like, 1 hit cd21466, Ubl2_cv_PLpro_N_Nsp3-like, 1 hit cd21401, ZBD_cv_Nsp13-like, 1 hit
Gene3Dⁱ	1.10.150.420, 1 hit 1.10.1840.10, 1 hit 1.10.8.1190, 2 hits 1.10.8.370, 1 hit 2.40.10.10, 2 hits 2.40.10.250, 1 hit 2.60.120.1680, 1 hit 3.10.20.350, 1 hit 3.10.20.540, 1 hit 3.30.160.820, 1 hit 3.30.70.3540, 1 hit 3.40.220.10, 1 hit 3.40.50.11020, 1 hit 3.40.50.11580, 1 hit 3.40.50.300, 2 hits
InterProⁱ	View protein in InterPro IPR027351, (+)RNA_virus_helicase_core_dom IPR022570, B-CoV_A_NSP1 IPR043608, CoV_NSP15_M IPR043606, CoV_NSP15_N IPR043613, CoV_NSP2_C IPR043611, CoV_NSP3_C IPR043612, CoV_NSP4_N IPR043502, DNA/RNA_pol_sf IPR041679, DNA2/NAM7-like_C IPR022733, DPUP_SUD_C_bCoV IPR037227, EndoU-like IPR002589, Macro_dom IPR043472, Macro_dom-like IPR042570, NAR_sf IPR043609, NendoU_nidovirus IPR044863, NIRAN IPR036333, NSP10_sf_CoV IPR044343, NSP13_1B_dom_CoV IPR027352, NSP13_ZBD_CoV-like IPR044315, NSP14_betaCoV IPR009466, NSP14_CoV IPR044330, NSP15_alpha_betaCoV_N IPR044322, NSP15_M_alpha_beta_CoV IPR043174, NSP15_middle_sf IPR042515, NSP15_N_CoV IPR044401, NSP15_NendoU_CoV IPR009461, NSP16_CoV-like IPR044384, NSP2_MHV-like IPR044381, NSP3_DPUP_MHV IPR032592, NSP3_NAB_bCoV IPR044357, NSP3_Ubl1_dom_CoV IPR044353, Nsp3_Ubl2_dom_CoV IPR038083, NSP3A-like IPR032505, NSP4_C_CoV IPR038123, NSP4_C_sf_CoV IPR044367, NSP6_betaCoV IPR043610, NSP6_CoV IPR014828, NSP7_CoV IPR037204, NSP7_sf_CoV IPR014829, NSP8_CoV-like IPR037230, NSP8_sf_CoV IPR014822, NSP9_CoV IPR036499, NSP9_sf_CoV IPR027417, P-loop_NTPase IPR002705, Pept_C30/C16_B_coronavir IPR013016, Peptidase_C16_CoV IPR008740, Peptidase_C30_CoV IPR043477, Peptidase_C30_dom3_CoV IPR009003, Peptidase_S1_PA IPR043504, Peptidase_S1_PA_chymotrypsin IPR043177, PLpro_N_sf_CoV IPR043503, PLpro_palm_finger_dom_CoV IPR043178, PLpro_thumb_sf_CoV IPR044347, RdRp_HCoV_HKU1-like IPR001205, RNA-dir_pol_C IPR007094, RNA-dir_pol_PSvirus IPR009469, RNA_pol_N_coronovir IPR018995, RNA_synth_NSP10_CoV IPR029063, SAM-dependent_MTases
Pfam protein domain database More...Pfamⁱ	View protein in Pfam PF13087, AAA_12, 1 hit PF16251, bCoV_NAR, 1 hit PF06471, CoV_ExoN, 1 hit PF06460, CoV_Methyltr_2, 1 hit PF09401, CoV_NSP10, 1 hit PF19215, CoV_NSP15_C, 1 hit PF19216, CoV_NSP15_M, 1 hit PF19219, CoV_NSP15_N, 1 hit PF19212, CoV_NSP2_C, 1 hit PF19218, CoV_NSP3_C, 1 hit PF16348, CoV_NSP4_C, 1 hit PF19217, CoV_NSP4_N, 1 hit PF19213, CoV_NSP6, 1 hit PF08716, CoV_NSP7, 1 hit PF08717, CoV_NSP8, 1 hit PF08710, CoV_NSP9, 1 hit PF08715, CoV_peptidase, 1 hit PF06478, CoV_RPol_N, 1 hit PF11963, DUF3477, 1 hit PF01661, Macro, 1 hit PF01831, Peptidase_C16, 1 hit PF05409, Peptidase_C30, 1 hit PF00680, RdRP_1, 1 hit
SMARTⁱ	View protein in SMART SM00506, A1pp, 1 hit
SUPFAMⁱ	SSF101816, SSF101816, 1 hit SSF140367, SSF140367, 1 hit SSF142877, SSF142877, 1 hit SSF143076, SSF143076, 1 hit SSF144246, SSF144246, 1 hit SSF159936, SSF159936, 1 hit SSF50494, SSF50494, 1 hit SSF52540, SSF52540, 1 hit SSF52949, SSF52949, 1 hit SSF53335, SSF53335, 2 hits SSF56672, SSF56672, 1 hit
PROSITEⁱ	View protein in PROSITE PS51961, AV_NSP11N_COV_NSP15M, 1 hit PS51963, BCOV_NSP1_C, 1 hit PS51942, BCOV_NSP3C_C, 1 hit PS51945, BCOV_NSP3E_NAB, 1 hit PS51952, COV_EXON_MTASE_COACT, 1 hit PS51954, COV_N7_MTASE, 1 hit PS51962, COV_NSP1, 1 hit PS51948, COV_NSP12_RDRP, 1 hit PS51960, COV_NSP15_NTD, 1 hit PS51943, COV_NSP3A_UBL, 1 hit PS51944, COV_NSP3D_UBL, 1 hit PS51946, COV_NSP4C, 1 hit PS51949, COV_NSP7, 1 hit PS51950, COV_NSP8, 1 hit PS51951, COV_NSP9_SSRNA_BD, 1 hit PS51653, CV_ZBD, 1 hit PS51442, M_PRO, 1 hit PS51154, MACRO, 1 hit PS51958, NENDOU, 1 hit PS51947, NIRAN, 1 hit PS51955, NIV_2_O_MTASE, 1 hit PS51953, NIV_EXON, 1 hit PS51124, PEPTIDASE_C16, 2 hits PS51657, PSRV_HELICASE, 1 hit PS50507, RDRP_SSRNA_POS, 1 hit

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 Add to basket

Isoform Replicase polyprotein 1ab (identifier: P0C6X8-1) [UniParc]FASTA Add to basket

Also known as: pp1ab

This isoform has been chosen as the canonicalⁱ 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]FASTA Add 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.

Length:4,416

Mass (Da):491,187

GO

Sequence cautionⁱ

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

The sequence AAF19384 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.

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

Similar proteinsⁱ

50% Identity

Protein	Similar proteins		Species	Score	Length	Source
P0C6X8	Replicase polyprotein 1ab	)	CVHOC		7095	UniRef50_P0C6X6
Replicase polyprotein 1ab		CVBM		7094
Replicase polyprotein 1ab		CVBEN		7094
Replicase polyprotein 1ab		CVBLU		7094
Replicase polyprotein 1ab		CVBQ		7059
+1230

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.

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

SMRⁱ	P0C6X8
ModBaseⁱ	Search...

Family and domain databases

CDDⁱ	cd21409, 1B_cv_Nsp13-like, 1 hit cd21560, betaCoV-Nsp6, 1 hit cd21659, betaCoV_Nsp14, 1 hit cd21666, betaCoV_Nsp5_Mpro, 1 hit cd20762, capping_2-OMTase_Nidovirales, 1 hit cd21519, cv_beta_Nsp2_MHV-like, 1 hit cd21473, cv_Nsp4_TM, 1 hit cd21524, DPUP_MHV_Nsp3, 1 hit cd21593, HCoV_HKU1-like_RdRp, 1 hit cd21167, M_alpha_beta_cv_Nsp15-like, 1 hit cd21161, NendoU_cv_Nsp15-like, 1 hit cd21171, NTD_alpha_beta_cv_Nsp15-like, 1 hit cd21467, Ubl1_cv_Nsp3_N-like, 1 hit cd21466, Ubl2_cv_PLpro_N_Nsp3-like, 1 hit cd21401, ZBD_cv_Nsp13-like, 1 hit
Gene3Dⁱ	1.10.150.420, 1 hit 1.10.1840.10, 1 hit 1.10.8.1190, 2 hits 1.10.8.370, 1 hit 2.40.10.10, 2 hits 2.40.10.250, 1 hit 2.60.120.1680, 1 hit 3.10.20.350, 1 hit 3.10.20.540, 1 hit 3.30.160.820, 1 hit 3.30.70.3540, 1 hit 3.40.220.10, 1 hit 3.40.50.11020, 1 hit 3.40.50.11580, 1 hit 3.40.50.300, 2 hits
InterProⁱ	View protein in InterPro IPR027351, (+)RNA_virus_helicase_core_dom IPR022570, B-CoV_A_NSP1 IPR043608, CoV_NSP15_M IPR043606, CoV_NSP15_N IPR043613, CoV_NSP2_C IPR043611, CoV_NSP3_C IPR043612, CoV_NSP4_N IPR043502, DNA/RNA_pol_sf IPR041679, DNA2/NAM7-like_C IPR022733, DPUP_SUD_C_bCoV IPR037227, EndoU-like IPR002589, Macro_dom IPR043472, Macro_dom-like IPR042570, NAR_sf IPR043609, NendoU_nidovirus IPR044863, NIRAN IPR036333, NSP10_sf_CoV IPR044343, NSP13_1B_dom_CoV IPR027352, NSP13_ZBD_CoV-like IPR044315, NSP14_betaCoV IPR009466, NSP14_CoV IPR044330, NSP15_alpha_betaCoV_N IPR044322, NSP15_M_alpha_beta_CoV IPR043174, NSP15_middle_sf IPR042515, NSP15_N_CoV IPR044401, NSP15_NendoU_CoV IPR009461, NSP16_CoV-like IPR044384, NSP2_MHV-like IPR044381, NSP3_DPUP_MHV IPR032592, NSP3_NAB_bCoV IPR044357, NSP3_Ubl1_dom_CoV IPR044353, Nsp3_Ubl2_dom_CoV IPR038083, NSP3A-like IPR032505, NSP4_C_CoV IPR038123, NSP4_C_sf_CoV IPR044367, NSP6_betaCoV IPR043610, NSP6_CoV IPR014828, NSP7_CoV IPR037204, NSP7_sf_CoV IPR014829, NSP8_CoV-like IPR037230, NSP8_sf_CoV IPR014822, NSP9_CoV IPR036499, NSP9_sf_CoV IPR027417, P-loop_NTPase IPR002705, Pept_C30/C16_B_coronavir IPR013016, Peptidase_C16_CoV IPR008740, Peptidase_C30_CoV IPR043477, Peptidase_C30_dom3_CoV IPR009003, Peptidase_S1_PA IPR043504, Peptidase_S1_PA_chymotrypsin IPR043177, PLpro_N_sf_CoV IPR043503, PLpro_palm_finger_dom_CoV IPR043178, PLpro_thumb_sf_CoV IPR044347, RdRp_HCoV_HKU1-like IPR001205, RNA-dir_pol_C IPR007094, RNA-dir_pol_PSvirus IPR009469, RNA_pol_N_coronovir IPR018995, RNA_synth_NSP10_CoV IPR029063, SAM-dependent_MTases
Pfamⁱ	View protein in Pfam PF13087, AAA_12, 1 hit PF16251, bCoV_NAR, 1 hit PF06471, CoV_ExoN, 1 hit PF06460, CoV_Methyltr_2, 1 hit PF09401, CoV_NSP10, 1 hit PF19215, CoV_NSP15_C, 1 hit PF19216, CoV_NSP15_M, 1 hit PF19219, CoV_NSP15_N, 1 hit PF19212, CoV_NSP2_C, 1 hit PF19218, CoV_NSP3_C, 1 hit PF16348, CoV_NSP4_C, 1 hit PF19217, CoV_NSP4_N, 1 hit PF19213, CoV_NSP6, 1 hit PF08716, CoV_NSP7, 1 hit PF08717, CoV_NSP8, 1 hit PF08710, CoV_NSP9, 1 hit PF08715, CoV_peptidase, 1 hit PF06478, CoV_RPol_N, 1 hit PF11963, DUF3477, 1 hit PF01661, Macro, 1 hit PF01831, Peptidase_C16, 1 hit PF05409, Peptidase_C30, 1 hit PF00680, RdRP_1, 1 hit
SMARTⁱ	View protein in SMART SM00506, A1pp, 1 hit
SUPFAMⁱ	SSF101816, SSF101816, 1 hit SSF140367, SSF140367, 1 hit SSF142877, SSF142877, 1 hit SSF143076, SSF143076, 1 hit SSF144246, SSF144246, 1 hit SSF159936, SSF159936, 1 hit SSF50494, SSF50494, 1 hit SSF52540, SSF52540, 1 hit SSF52949, SSF52949, 1 hit SSF53335, SSF53335, 2 hits SSF56672, SSF56672, 1 hit
PROSITEⁱ	View protein in PROSITE PS51961, AV_NSP11N_COV_NSP15M, 1 hit PS51963, BCOV_NSP1_C, 1 hit PS51942, BCOV_NSP3C_C, 1 hit PS51945, BCOV_NSP3E_NAB, 1 hit PS51952, COV_EXON_MTASE_COACT, 1 hit PS51954, COV_N7_MTASE, 1 hit PS51962, COV_NSP1, 1 hit PS51948, COV_NSP12_RDRP, 1 hit PS51960, COV_NSP15_NTD, 1 hit PS51943, COV_NSP3A_UBL, 1 hit PS51944, COV_NSP3D_UBL, 1 hit PS51946, COV_NSP4C, 1 hit PS51949, COV_NSP7, 1 hit PS51950, COV_NSP8, 1 hit PS51951, COV_NSP9_SSRNA_BD, 1 hit PS51653, CV_ZBD, 1 hit PS51442, M_PRO, 1 hit PS51154, MACRO, 1 hit PS51958, NENDOU, 1 hit PS51947, NIRAN, 1 hit PS51955, NIV_2_O_MTASE, 1 hit PS51953, NIV_EXON, 1 hit PS51124, PEPTIDASE_C16, 2 hits PS51657, PSRV_HELICASE, 1 hit PS50507, RDRP_SSRNA_POS, 1 hit
MobiDBⁱ	Search...

Entry informationⁱ

Entry nameⁱ	R1AB_CVM2
Accessionⁱ	P0C6X8Primary (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:	February 23, 2022
	This is version 91 of the entry and version 1 of the sequence. See complete history.
Entry statusⁱ	Reviewed (UniProtKB/Swiss-Prot)
Annotation program	Viral Protein Annotation Program

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UniProtKB - P0C6X8 (R1AB_CVM2)

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Replicase polyprotein 1ab

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<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

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<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Topology

Keywords - Cellular componenti

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Sites

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Region

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Zinc finger

Keywords - Domaini

Family and domain databases

<p>This subsection of the 'Sequence' section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

Sequence databases

Keywords - Coding sequence diversityi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

3D structure databases

Family and domain databases

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

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Functionⁱ

Catalytic activityⁱ

GO - Molecular functionⁱ

GO - Biological processⁱ

Names & Taxonomyⁱ

Subcellular locationⁱ

Keywords - Cellular componentⁱ

PTM / Processingⁱ

Interactionⁱ

Structureⁱ

Family & Domainsⁱ

Sequence similaritiesⁱ

Keywords - Domainⁱ

Sequence cautionⁱ

Keywords - Coding sequence diversityⁱ

Cross-referencesⁱ

Entry informationⁱ

Miscellaneousⁱ

Keywords - Technical termⁱ