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

Miscellaneous

Isolate N1 belongs to genotype A.

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	1161	For PL1-PRO activityPROSITE-ProRule annotation	1
Active siteⁱ	1312	For PL1-PRO activityPROSITE-ProRule annotation	1
Active siteⁱ	1757	For PL2-PRO activityPROSITE-ProRule annotation	1
Active siteⁱ	1914	For PL2-PRO activityPROSITE-ProRule annotation	1
Active siteⁱ	3375	For 3CL-PRO activityPROSITE-ProRule annotation	1
Active siteⁱ	3479	For 3CL-PRO activityPROSITE-ProRule annotation	1
Metal bindingⁱ	4394	Zinc 1PROSITE-ProRule annotation	1
Metal bindingⁱ	4397	Zinc 1PROSITE-ProRule annotation	1
Metal bindingⁱ	4403	Zinc 1PROSITE-ProRule annotation	1
Metal bindingⁱ	4410	Zinc 1PROSITE-ProRule annotation	1
Metal bindingⁱ	4436	Zinc 2PROSITE-ProRule annotation	1
Metal bindingⁱ	4439	Zinc 2PROSITE-ProRule annotation	1
Metal bindingⁱ	4447	Zinc 2PROSITE-ProRule annotation	1
Metal bindingⁱ	4449	Zinc 2PROSITE-ProRule annotation	1
Active siteⁱ	5212	PROSITE-ProRule annotation	1
Active siteⁱ	5213	PROSITE-ProRule annotation	1
Active siteⁱ	5214	PROSITE-ProRule annotation	1
Metal bindingⁱ	5390	Zinc 3PROSITE-ProRule annotation	1
Metal bindingⁱ	5393	Zinc 3PROSITE-ProRule annotation	1
Metal bindingⁱ	5401	Zinc 4PROSITE-ProRule annotation	1
Metal bindingⁱ	5404	Zinc 3PROSITE-ProRule annotation	1
Metal bindingⁱ	5411	Zinc 3PROSITE-ProRule annotation	1
Metal bindingⁱ	5414	Zinc 4PROSITE-ProRule annotation	1
Metal bindingⁱ	5418	Zinc 4PROSITE-ProRule annotation	1
Metal bindingⁱ	5424	Zinc 4PROSITE-ProRule annotation	1
Metal bindingⁱ	5435	Zinc 5PROSITE-ProRule annotation	1
Metal bindingⁱ	5440	Zinc 5PROSITE-ProRule annotation	1
Metal bindingⁱ	5457	Zinc 5PROSITE-ProRule annotation	1
Metal bindingⁱ	5460	Zinc 5PROSITE-ProRule annotation	1
Active siteⁱ	6077	PROSITE-ProRule annotation	1
Active siteⁱ	6079	PROSITE-ProRule annotation	1
Active siteⁱ	6178	PROSITE-ProRule annotation	1
Metal bindingⁱ	6194	Zinc 6PROSITE-ProRule annotation	1
Metal bindingⁱ	6197	Zinc 6PROSITE-ProRule annotation	1
Metal bindingⁱ	6213	Zinc 6PROSITE-ProRule annotation	1
Metal bindingⁱ	6216	Zinc 6PROSITE-ProRule annotation	1
Metal bindingⁱ	6244	Zinc 7PROSITE-ProRule annotation	1
Metal bindingⁱ	6248	Zinc 7PROSITE-ProRule annotation	1
Metal bindingⁱ	6251	Zinc 7PROSITE-ProRule annotation	1
Active siteⁱ	6255	PROSITE-ProRule annotation	1
Active siteⁱ	6260	PROSITE-ProRule annotation	1
Metal bindingⁱ	6266	Zinc 7PROSITE-ProRule annotation	1
Metal bindingⁱ	6434	Zinc 8PROSITE-ProRule annotation	1
Metal bindingⁱ	6455	Zinc 8PROSITE-ProRule annotation	1
Metal bindingⁱ	6466	Zinc 8PROSITE-ProRule annotation	1
Metal bindingⁱ	6469	Zinc 8PROSITE-ProRule annotation	1
Active siteⁱ	6771	PROSITE-ProRule annotation	1
Active siteⁱ	6786	PROSITE-ProRule annotation	1
Active siteⁱ	6826	PROSITE-ProRule annotation	1
Active siteⁱ	6929	PROSITE-ProRule annotation	1
Active siteⁱ	7013	PROSITE-ProRule annotation	1
Active siteⁱ	7053	PROSITE-ProRule annotation	1
Active siteⁱ	7086	PROSITE-ProRule annotation	1

Regions

Feature key	Position(s)	DescriptionActions	Length
Zinc fingerⁱ	1238 – 1266	C4-type 1PROSITE-ProRule annotationAdd BLAST	29
Zinc fingerⁱ	1835 – 1871	C4-type 2PROSITE-ProRule annotationAdd BLAST	37
Zinc fingerⁱ	4394 – 4410	By similarityAdd BLAST	17
Zinc fingerⁱ	4436 – 4449	By similarityAdd BLAST	14
Nucleotide bindingⁱ	5666 – 5673	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 genome replication Source: InterPro
viral protein processing 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

Enzyme and pathway databases

SABIO-RKⁱ	P0C6X2

SABIO-RKⁱ

P0C6X2

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	Human coronavirus HKU1 (isolate N1) (HCoV-HKU1)
Taxonomic identifierⁱ	443239 [NCBI]
Taxonomic lineageⁱ	Viruses › Riboviria › Orthornavirae › Pisuviricota › Pisoniviricetes › Nidovirales › Cornidovirineae › Coronaviridae › Orthocoronavirinae › Betacoronavirus › Embecovirus › Human coronavirus HKU1
Virus hostⁱ	Homo sapiens (Human) [TaxID: 9606]
Proteomesⁱ	UP000008170 Componentⁱ: Genome

Subcellular locationⁱ

Papain-like proteinase:

Non-structural protein 4:

Host membrane ; Multi-pass membrane protein
Host cytoplasm

Note:

Localizes in virally-induced cytoplasmic double-membrane vesicles.By similarity

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.

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.

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.

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.

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.

Uridylate-specific endoribonuclease:

host perinuclear region By similarity

Topology

Feature key	Position(s)	DescriptionActions	Length
Transmembraneⁱ	2226 – 2246	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	2287 – 2307	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	2318 – 2338	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	2401 – 2421	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	2443 – 2463	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	2844 – 2864	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3119 – 3139	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3151 – 3171	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3178 – 3198	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3203 – 3223	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3651 – 3671	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3676 – 3696	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3701 – 3721	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3744 – 3764	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3772 – 3792	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3800 – 3820	HelicalSequence analysisAdd BLAST	21
Transmembraneⁱ	3843 – 3863	HelicalSequence analysisAdd BLAST	21

Keywords - Cellular componentⁱ

Host cytoplasm, Host membrane, Membrane

PTM / Processingⁱ

Molecule processing

Feature key	Position(s)	DescriptionActions	Length
ChainⁱPRO_5000093333	1 – 222	Host translation inhibitor nsp1By similarityAdd BLAST	222
ChainⁱPRO_5000093334	223 – 809	Non-structural protein 2By similarityAdd BLAST	587
ChainⁱPRO_5000093335	810 – 2838	Papain-like proteinaseBy similarityAdd BLAST	2029
ChainⁱPRO_5000093336	2839 – 3334	Non-structural protein 4By similarityAdd BLAST	496
ChainⁱPRO_5000093337	3335 – 3637	3C-like proteinaseBy similarityAdd BLAST	303
ChainⁱPRO_5000093338	3638 – 3924	Non-structural protein 6By similarityAdd BLAST	287
ChainⁱPRO_5000093339	3925 – 4016	Non-structural protein 7By similarityAdd BLAST	92
ChainⁱPRO_5000093340	4017 – 4210	Non-structural protein 8By similarityAdd BLAST	194
ChainⁱPRO_5000093341	4211 – 4320	Non-structural protein 9By similarityAdd BLAST	110
ChainⁱPRO_5000093342	4321 – 4457	Non-structural protein 10By similarityAdd BLAST	137
ChainⁱPRO_5000093343	4458 – 5385	RNA-directed RNA polymeraseBy similarityAdd BLAST	928
ChainⁱPRO_5000093344	5386 – 5988	HelicaseBy similarityAdd BLAST	603
ChainⁱPRO_5000093345	5989 – 6509	Guanine-N7 methyltransferaseBy similarityAdd BLAST	521
ChainⁱPRO_5000093346	6510 – 6883	Uridylate-specific endoribonucleaseBy similarityAdd BLAST	374
ChainⁱPRO_5000093347	6884 – 7182	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	222 – 223	Cleavage; by PL1-PROBy similarity	2
Siteⁱ	809 – 810	Cleavage; by PL1-PROBy similarity	2
Siteⁱ	2838 – 2839	Cleavage; by PL2-PROBy similarity	2
Siteⁱ	3334 – 3335	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	3637 – 3638	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	3924 – 3925	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	4016 – 4017	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	4210 – 4211	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	4320 – 4321	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	4457 – 4458	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	5385 – 5386	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	6509 – 6510	Cleavage; by 3CL-PROBy similarity	2
Siteⁱ	6883 – 6884	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	P0C6X2
ModBaseⁱ	Search...

Family & Domainsⁱ

Domains and Repeats

Feature key	Position(s)	DescriptionActions	Length
Domainⁱ	54 – 179	CoV Nsp1 globularPROSITE-ProRule annotationAdd BLAST	126
Domainⁱ	192 – 222	BetaCoV Nsp1 C-terminalPROSITE-ProRule annotationAdd BLAST	31
Domainⁱ	810 – 923	Ubiquitin-like 1PROSITE-ProRule annotationAdd BLAST	114
Repeatⁱ	945 – 954	1	10
Repeatⁱ	955 – 964	2	10
Repeatⁱ	965 – 974	3	10
Repeatⁱ	975 – 984	4	10
Repeatⁱ	985 – 994	5	10
Repeatⁱ	995 – 1004	6	10
Repeatⁱ	1005 – 1014	7	10
Repeatⁱ	1015 – 1024	8	10
Repeatⁱ	1025 – 1034	9	10
Repeatⁱ	1035 – 1044	10	10
Repeatⁱ	1045 – 1054	11	10
Repeatⁱ	1055 – 1064	12	10
Repeatⁱ	1065 – 1074	13	10
Repeatⁱ	1075 – 1084	14	10
Domainⁱ	1123 – 1373	Peptidase C16 1PROSITE-ProRule annotationAdd BLAST	251
Domainⁱ	1351 – 1522	MacroPROSITE-ProRule annotationAdd BLAST	172
Domainⁱ	1578 – 1649	DPUPPROSITE-ProRule annotationAdd BLAST	72
Domainⁱ	1649 – 1704	Ubiquitin-like 2PROSITE-ProRule annotationAdd BLAST	56
Domainⁱ	1718 – 1978	Peptidase C16 2PROSITE-ProRule annotationAdd BLAST	261
Domainⁱ	1992 – 2093	Nucleic acid-bindingPROSITE-ProRule annotationAdd BLAST	102
Domainⁱ	3237 – 3334	Nsp4CPROSITE-ProRule annotationAdd BLAST	98
Domainⁱ	3335 – 3637	Peptidase C30PROSITE-ProRule annotationAdd BLAST	303
Domainⁱ	3925 – 4013	RdRp Nsp7 cofactorPROSITE-ProRule annotationAdd BLAST	89
Domainⁱ	4014 – 4210	RdRp Nsp8 cofactorPROSITE-ProRule annotationAdd BLAST	197
Domainⁱ	4211 – 4320	Nsp9 ssRNA-bindingPROSITE-ProRule annotationAdd BLAST	110
Domainⁱ	4321 – 4458	ExoN/MTase coactivatorPROSITE-ProRule annotationAdd BLAST	138
Domainⁱ	4463 – 4718	NiRANPROSITE-ProRule annotationAdd BLAST	256
Domainⁱ	4818 – 5385	Nsp12 RNA-dependent RNA polymerasePROSITE-ProRule annotationAdd BLAST	568
Domainⁱ	5065 – 5227	RdRp catalyticAdd BLAST	163
Domainⁱ	5386 – 5469	CV ZBDPROSITE-ProRule annotationAdd BLAST	84
Domainⁱ	5641 – 5822	(+)RNA virus helicase ATP-bindingAdd BLAST	182
Domainⁱ	5823 – 5992	(+)RNA virus helicase C-terminalAdd BLAST	170
Domainⁱ	6059 – 6274	ExoNPROSITE-ProRule annotationAdd BLAST	216
Domainⁱ	6283 – 6509	N7-MTasePROSITE-ProRule annotationAdd BLAST	227
Domainⁱ	6510 – 6570	Nsp15 N-terminal oligomerizationPROSITE-ProRule annotationAdd BLAST	61
Domainⁱ	6571 – 6691	AV-Nsp11N/CoV-Nsp15MPROSITE-ProRule annotationAdd BLAST	121
Domainⁱ	6741 – 6880	NendoUPROSITE-ProRule annotationAdd BLAST	140
Domainⁱ	6885 – 7179	Nidovirus-type SAM-dependent 2'-O-MTasePROSITE-ProRule annotationAdd BLAST	295

Region

Feature key	Position(s)	DescriptionActions	Length
Regionⁱ	945 – 1084	14 X 10 AA tandem repeat of N-[DN]-D-E-D-V-V-T-G-DAdd BLAST	140
Regionⁱ	946 – 1064	DisorderedSequence analysisAdd BLAST	119
Regionⁱ	2226 – 2463	HD1By similarityAdd BLAST	238
Regionⁱ	2844 – 3223	HD2By similarityAdd BLAST	380
Regionⁱ	3651 – 3863	HD3By similarityAdd BLAST	213
Regionⁱ	6318 – 6324	SAM-bindingPROSITE-ProRule annotation	7
Regionⁱ	6396 – 6410	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	1238 – 1266	C4-type 1PROSITE-ProRule annotationAdd BLAST	29
Zinc fingerⁱ	1835 – 1871	C4-type 2PROSITE-ProRule annotationAdd BLAST	37
Zinc fingerⁱ	4394 – 4410	By similarityAdd BLAST	17
Zinc fingerⁱ	4436 – 4449	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 cd21593, HCoV_HKU1-like_RdRp, 1 hit cd21167, M_alpha_beta_cv_Nsp15-like, 1 hit cd21557, Macro_X_Nsp3-like, 1 hit cd21161, NendoU_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 IPR044371, Macro_X_NSP3-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 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 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 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, 1 hit 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

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: P0C6X2-1) [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
MIKTSKYGLG FKWAPEFRWL LPDAAEELAS PMKSDEGGLC PSTGQAMESV 
        60         70         80         90        100
GFVYDNHVKI DCRCILGQEW HVQSNLIRDI FVHEDLHVVE VLTKTAVKSG 
       110        120        130        140        150
TAILIKSPLH SLGGFPKGYV MGLFRSYKTK RYVVHHLSMT TSTTNFGEDF 
       160        170        180        190        200
LGWIVPFGFM PSYVHKWFQF CRLYIEESDL IISNFKFDDY DFSVEDAYAE 
       210        220        230        240        250
VHAEPKGKYS QKAYALLRQY RGIKPVLFVD QYGCDYSGKL ADCLQAYGHY 
       260        270        280        290        300
SLQDMRQKQS VWLANCDFDI VVAWHVVRDS RFVMRLQTIA TICGIKYVAQ 
       310        320        330        340        350
PTEDVVDGDV VIREPVHLLS ADAIVLKLPS LMKVMTHMDD FSIKSIYNVD 
       360        370        380        390        400
LCDCGFVMQY GYVDCFNDNC DFYGWVSGNM MDGFSCPLCC TVYDSSEVKA 
       410        420        430        440        450
QSSGVIPENP VLFTNSTDTV NHDSFNLYGY SVTPFGSCIY WSPRPGLWIP 
       460        470        480        490        500
IIKSSVKSYD DLVYSGVVGC KSIVKETALI THALYLDYVQ CKCGNLEQNH 
       510        520        530        540        550
ILGVNNSWCR QLLLNRGDYN MLLKNIDLFV KRRADFACKF AVCGDGFVPF 
       560        570        580        590        600
LLDGLIPRSY YLIQSGIFFT SLMSQFSQEV SDMCLKMCIL FMDRVSVATF 
       610        620        630        640        650
YIEHYVNRLV TQFKLLGTTL VNKMVNWFNT MLDASAPATG WLLYQLLNGL 
       660        670        680        690        700
FVVSQANFNF VALIPDYAKI LVNKFYTFFK LLLECVTVDV LKDMPVLKTI 
       710        720        730        740        750
NGLVCIVGNK FYNVSTGLIP GFVLPCNAQE QQIYFFEGVA ESVIVEDDVI 
       760        770        780        790        800
ENVKSSLSSY EYCQPPKSVE KICIIDNMYM GKCGDKFFPI VMNDKNICLL 
       810        820        830        840        850
DQAWRFPCAG RKVNFNEKPV VMEIPSLMTV KVMFDLDSTF DDILGKVCSE 
       860        870        880        890        900
FEVEKGVTVD DFVAVVCDAI ENALNSCKEH PVVGYQVRAF LNKLNENVVY 
       910        920        930        940        950
LFDEAGDEAM ASRMYCTFAI EDVEDVISSE AVEDTIDGVV EDTINDDEDV 
       960        970        980        990       1000
VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV 
      1010       1020       1030       1040       1050
VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV 
      1060       1070       1080       1090       1100
VTGDNDDEDV VTGDNDDEDV VTGDNDDEDV VTGDNNDEEI VTGDNDDQIV 
      1110       1120       1130       1140       1150
VTGDDVDDIE SIYDFDTYKA LLVFNDVYND ALFVSYGSSV ETETYFKVNG 
      1160       1170       1180       1190       1200
LWSPTITHTN CWLRSVLLVM QKLPFKFKDL AIENMWLSYK VGYNQSFVDY 
      1210       1220       1230       1240       1250
LLTTIPKAIV LPQGGFVADF AYWFLNQFDI NAYANWCCLK CGFSFDLNGL 
      1260       1270       1280       1290       1300
DALFFYGDIV SHVCKCGHNM TLIAADLPCT LHFSLFDDNF CAFCTPKKIF 
      1310       1320       1330       1340       1350
IAACAVDVNV CHSVAVIGDE QIDGKFVTKF SGDKFDFIVG YGMSFSMSSF 
      1360       1370       1380       1390       1400
ELPQLYGLCI TPNVCFVKGD IINVARLVKA DVIVNPANGH MLHGGGVAKA 
      1410       1420       1430       1440       1450
IAVAAGKKFS KETAAMVKSK GVCQVGDCYV STGGKLCKTI LNIVGPDARQ 
      1460       1470       1480       1490       1500
DGRQSYVLLA RAYKHLNNYD CCLSTLISAG IFSVPADVSL TYLLGVVDKQ 
      1510       1520       1530       1540       1550
VILVSNNKED FDIIQKCQIT SVVGTKALAV RLTANVGRVI KFETDAYKLF 
      1560       1570       1580       1590       1600
LSGDDCFVSN SSVIQEVLLL RHDIQLNNDV RDYLLSKMTS LPKDWRLINK 
      1610       1620       1630       1640       1650
FDVINGVKTV KYFECPNSIY ICSQGKDFGY VCDGSFYKAT VNQVCVLLAK 
      1660       1670       1680       1690       1700
KIDVLLTVDG VNFKSISLTV GEVFGKILGN VFCDGIDVTK LKCSDFYADK 
      1710       1720       1730       1740       1750
ILYQYENLSL ADISAVQSSF GFDQQQLLAY YNFLTVCKWS VVVNGPFFSF 
      1760       1770       1780       1790       1800
EQSHNNCYVN VACLMLQHIN LKFNKWQWQE AWYEFRAGRP HRLVALVLAK 
      1810       1820       1830       1840       1850
GHFKFDEPSD ATDFIRVVLK QADLSGAICE LELICDCGIK QESRVGVDAV 
      1860       1870       1880       1890       1900
MHFGTLAKTD LFNGYKIGCN CAGRIVHCTK LNVPFLICSN TPLSKDLPDD 
      1910       1920       1930       1940       1950
VVAANMFMGV GVGHYTHLKC GSPYQHYDAC SVKKYTGVSG CLTDCLYLKN 
      1960       1970       1980       1990       2000
LTQTFTSMLT NYFLDDVEMV AYNPDLSQYY CDNGKYYTKP IIKAQFKPFA 
      2010       2020       2030       2040       2050
KVDGVYTNFK LVGHDICAQL NDKLGFNVDL PFVEYKVTVW PVATGDVVLA 
      2060       2070       2080       2090       2100
SDDLYVKRYF KGCETFGKPV IWFCHDEASL NSLTYFNKPS FKSENRYSVL 
      2110       2120       2130       2140       2150
SVDSVSEESQ GNVVTSVMES QISTKEVKLK GVRKTVKIED AIIVNDENSS 
      2160       2170       2180       2190       2200
IKVVKSLSLV DVWDMYLTGC DYVVWVANEL SRLVKSPTVR EYIRYGIKPI 
      2210       2220       2230       2240       2250
TIPIDLLCLR DDNQTLLVPK IFKARAIEFY GFLKWLFIYV FSLLHFTNDK 
      2260       2270       2280       2290       2300
TIFYTTEIAS KFTFNLFCLA LKNAFQTFRW SIFIKGFLVV ATVFLFWFNF 
      2310       2320       2330       2340       2350
LYINVIFSDF YLPNISVFPI FVGRIVMWIK ATFGLVTICD FYSKLGVGFT 
      2360       2370       2380       2390       2400
SHFCNGSFIC ELCHSGFDML DTYAAIDFVQ YEVDRRVLFD YVSLVKLIVE 
      2410       2420       2430       2440       2450
LVIGYSLYTV WFYPLFCLIG LQLFTTWLPD LFMLETMHWL IRFIVFVANM 
      2460       2470       2480       2490       2500
LPAFVLLRFY IVVTAMYKVV GFIRHIVYGC NKAGCLFCYK RNCSVRVKCS 
      2510       2520       2530       2540       2550
TIVGGVIRYY DITANGGTGF CVKHQWNCFN CHSFKPGNTF ITVEAAIELS 
      2560       2570       2580       2590       2600
KELKRPVNPT DASHYVVTDI KQVGCMMRLF YDRDGQRVYD DVDASLFVDI 
      2610       2620       2630       2640       2650
NNLLHSKVKV VPNLYVVVVE SDADRANFLN AVVFYAQSLY RPILLVDKKL 
      2660       2670       2680       2690       2700
ITTACNGISV TQTMFDVYVD TFMSHFDVDR KSFNNFVNIA HASLREGVQL 
      2710       2720       2730       2740       2750
EKVLDTFVGC VRKCCSIDSD VETRFITKSM ISAVAAGLEF TDENYNNLVP 
      2760       2770       2780       2790       2800
TYLKSDNIVA ADLGVLIQNG AKHVQGNVAK AANISCIWFI DAFNQLTADL 
      2810       2820       2830       2840       2850
QHKLKKACVK TGLKLKLTFN KQEASVPILT TPFSLKGGVV LSNLLYILFF 
      2860       2870       2880       2890       2900
VSLICFILLW ALLPTYSVYK SDIHLPAYAS FKVIDNGVVR DISVNDLCFA 
      2910       2920       2930       2940       2950
NKFFQFDQWY ESTFGSVYYH NSMDCPIVVA VMDEDIGSTM FNVPTKVLRH 
      2960       2970       2980       2990       3000
GFHVLHFLTY AFASDSVQCY TPHIQISYND FYASGCVLSS LCTMFKRGDG 
      3010       3020       3030       3040       3050
TPHPYCYSDG VMKNASLYTS LVPHTRYSLA NSNGFIRFPD VISEGIVRIV 
      3060       3070       3080       3090       3100
RTRSMTYCRV GACEYAEEGI CFNFNSSWVL NNDYYRSMPG TFCGRDLFDL 
      3110       3120       3130       3140       3150
FYQFFSSLIR PIDFFSLTAS SIFGAILAIV VVLVFYYLIK LKRAFGDYTS 
      3160       3170       3180       3190       3200
VVVINVVVWC INFLMLFVFQ VYPICACVYA CFYFYVTLYF PSEISVIMHL 
      3210       3220       3230       3240       3250
QWIVMYGAIM PFWFCVTYVA MVIANHVLWL FSYCRKIGVN VCSDSTFEET 
      3260       3270       3280       3290       3300
SLTTFMITKD SYCRLKNSVS DVAYNRYLSL YNKYRYYSGK MDTAAYREAA 
      3310       3320       3330       3340       3350
CSQLAKAMET FNHNNGNDVL YQPPTASVST SFLQSGIVKM VSPTSKIEPC 
      3360       3370       3380       3390       3400
IVSVTYGSMT LNGLWLDDKV YCPRHVICSS SNMNEPDYSA LLCRVTLGDF 
      3410       3420       3430       3440       3450
TIMSGRMSLT VVSYQMQGCQ LVLTVSLQNP YTPKYTFGNV KPGETFTVLA 
      3460       3470       3480       3490       3500
AYNGRPQGAF HVTMRSSYTI KGSFLCGSCG SVGYVLTGDS VKFVYMHQLE 
      3510       3520       3530       3540       3550
LSTGCHTGTD FTGNFYGPYR DAQVVQLPVK DYVQTVNVIA WLYAAILNNC 
      3560       3570       3580       3590       3600
AWFVQNDVCS TEDFNVWAMA NGFSQVKADL VLDALASMTG VSIETLLAAI 
      3610       3620       3630       3640       3650
KRLYMGFQGR QILGSCTFED ELAPSDVYQQ LAGVKLQSKT KRFIKETIYW 
      3660       3670       3680       3690       3700
ILISTFLFSC IISAFVKWTI FMYINTHMIG VTLCVLCFVS FMMLLVKHKH 
      3710       3720       3730       3740       3750
FYLTMYIIPV LCTLFYVNYL VVYKEGFRGF TYVWLSYFVP AVNFTYVYEV 
      3760       3770       3780       3790       3800
FYGCILCVFA IFITMHSINH DIFSLMFLVG RIVTLISMWY FGSNLEEDVL 
      3810       3820       3830       3840       3850
LFITAFLGTY TWTTILSLAI AKIVANWLSV NIFYFTDVPY IKLILLSYLF 
      3860       3870       3880       3890       3900
IGYILSCYWG FFSLLNSVFR MPMGVYNYKI SVQELRYMNA NGLRPPRNSF 
      3910       3920       3930       3940       3950
EAILLNLKLL GIGGVPVIEV SQIQSKLTDV KCANVVLLNC LQHLHVASNS 
      3960       3970       3980       3990       4000
KLWQYCSVLH NEILSTSDLS VAFDKLAQLL IVLFANPAAV DTKCLASIDE 
      4010       4020       4030       4040       4050
VSDDYVQDST VLQALQSEFV NMASFVEYEV AKKNLADAKN SGSVNQQQIK 
      4060       4070       4080       4090       4100
QLEKACNIAK SVYERDKAVA RKLERMADLA LTNMYKEARI NDKKSKVVSA 
      4110       4120       4130       4140       4150
LQTMLFSMVR KLDNQALNSI LDNAVKGCVP LSAIPALAAN TLTIVIPDKQ 
      4160       4170       4180       4190       4200
VFDKVVDNVY VTYAGSVWHI QTVQDADGIN KQLTDISVDS NWPLVIIANR 
      4210       4220       4230       4240       4250
YNEVANAVMQ NNELMPHKLK IQVVNSGSDM NCNIPTQCYY NNGSSGRIVY 
      4260       4270       4280       4290       4300
AVLSDVDGLK YTKIMKDDGN CVVLELDPPC KFSIQDVKGL KIKYLYFIKG 
      4310       4320       4330       4340       4350
CNTLARGWVV GTLSSTIRLQ AGVATEYAAN SSILSLCAFS VDPKKTYLDY 
      4360       4370       4380       4390       4400
IQQGGVPIIN CVKMLCDHAG TGMAITIKPE ATINQDSYGG ASVCIYCRAR 
      4410       4420       4430       4440       4450
VEHPDVDGIC KLRGKFVQVP LGIKDPILYV LTHDVCQVCG FWRDGSCSCV 
      4460       4470       4480       4490       4500
GSSVAVQSKD LNFLNRVRGT SVNARLVPCA SGLSTDVQLR AFDICNTNRA 
      4510       4520       4530       4540       4550
GIGLYYKVNC CRFQRIDDDG NKLDKFFVVK RTNLEVYNKE KTYYELTKSC 
      4560       4570       4580       4590       4600
GVVAEHDFFT FDIDGSRVPH IVRRNLSKYT MLDLCYALRH FDRNDCSILC 
      4610       4620       4630       4640       4650
EILCEYADCK ESYFSKKDWY DFVENPDIIN IYKKLGPIFN RALLNTVIFA 
      4660       4670       4680       4690       4700
DTLVEVGLVG VLTLDNQDLY GQWYDFGDFI QTAPGFGVAV ADSYYSYMMP 
      4710       4720       4730       4740       4750
MLTMCHVLDC ELFVNDSYRQ FDLVQYDFTD YKLELFNKYF KYWGMKYHPN 
      4760       4770       4780       4790       4800
TVDCDNDRCI IHCANFNILF SMVLPNTCFG PLVRQIFVDG VPFVVSIGYH 
      4810       4820       4830       4840       4850
YKELGVVMNL DVDTHRYRLS LKDLLLYAAD PAMHVASASA LLDLRTCCFS 
      4860       4870       4880       4890       4900
VAAITSGIKF QTVKPGNFNQ DFYEFVKSKG LFKEGSTVDL KHFFFTQDGN 
      4910       4920       4930       4940       4950
AAITDYNYYK YNLPTMVDIK QLLFVLEVVY KYFEIYDGGC IPASQVIVNN 
      4960       4970       4980       4990       5000
YDKSAGYPFN KFGKARLYYE ALSFEEQNEI YAYTKRNVLP TLTQMNLKYA 
      5010       5020       5030       5040       5050
ISAKNRARTV AGVSILSTMT GRMFHQKCLK SIAATRGVPV VIGTTKFYGG 
      5060       5070       5080       5090       5100
WDDMLRHLIK DVDNPVLMGW DYPKCDRAMP NILRIVSSLV LARKHEFCCS 
      5110       5120       5130       5140       5150
HGDRFYRLAN ECAQVLSEIV MCGGCYYVKP GGTSSGDATT AFANSVFNIC 
      5160       5170       5180       5190       5200
QAVTANVCSL MACNGHKIED LSIRNLQKRL YSNVYRTDYV DYTFVNEYYE 
      5210       5220       5230       5240       5250
FLCKHFSMMI LSDDGVVCYN SDYASKGYIA NISVFQQVLY YQNNVFMSES 
      5260       5270       5280       5290       5300
KCWVENDITN GPHEFCSQHT MLVKIDGDYV YLPYPDPSRI LGAGCFVDDL 
      5310       5320       5330       5340       5350
LKTDSVLLIE RFVSLAIDAY PLVHHENEEY QKVFRVYLEY IKKLYNDLGT 
      5360       5370       5380       5390       5400
QILDSYSVIL STCDGLKFTE ESFYKNMYLK SAVMQSVGAC VVCSSQTSLR 
      5410       5420       5430       5440       5450
CGSCIRKPLL CCKCCYDHVM ATNHKYVLSV SPYVCNAPNC DVSDVTKLYL 
      5460       5470       5480       5490       5500
GGMSYYCENH KPHYSFKLVM NGMVFGLYKQ SCTGSPYIDD FNKIASCKWT 
      5510       5520       5530       5540       5550
EVDDYVLANE CIERLKLFAA ETQKATEEAF KQSYASATIQ EIVSDREVIL 
      5560       5570       5580       5590       5600
CWETGKVKPP LNKNYVFTGY HFTSTGKTVL GEYVFDKSEL TNGVYYRATT 
      5610       5620       5630       5640       5650
TYKLSIGDVF VLTSHSVASL SAPTLVPQEN YASIRFSSVY SVPLVFQNNV 
      5660       5670       5680       5690       5700
ANYQHIGMKR YCTVQGPPGT GKSHLAIGLA VYYYTARVVY TAASHAAVDA 
      5710       5720       5730       5740       5750
LCEKAYKFLN INDCTRIIPA KVRVDCYDKF KINDTTCKYV FTTINALPEL 
      5760       5770       5780       5790       5800
VTDIVVVDEV SMLTNYELSV INARIKAKHY VYIGDPAQLP APRVLLSKGS 
      5810       5820       5830       5840       5850
LEPRHFNSIT KIMCCLGPDI FLGNCYRCPK EIVETVSALV YDNKLKAKND 
      5860       5870       5880       5890       5900
NSSLCFKVYF KGQTTHESSS AVNIQQIYLI SKFLKANPVW NSAVFISPYN 
      5910       5920       5930       5940       5950
SQNYVAKRVL GVQTQTVDSA QGSEYDYVIY SQTAETAHSV NVNRFNVAIT 
      5960       5970       5980       5990       6000
RAKKGIFCVM SNMQLFESLN FITLPLDKIQ NQTLPRLHCT TNLFKDCSKS 
      6010       6020       6030       6040       6050
CLGYHPAHAP SFLAVDDKYK VNENLAVNLN ICEPVLTYSR LISLMGFKLD 
      6060       6070       6080       6090       6100
LTLDGYSKLF ITKDEAIKRV RGWVGFDVEG AHATRENIGT NFPLQIGFST 
      6110       6120       6130       6140       6150
GVDFVVEATG LFAERDCYTF KKTVAKAPPG EKFKHLIPLM SKGQKWDIVR 
      6160       6170       6180       6190       6200
IRIVQMLSDY LLDLSDSVVF ITWSASFELT CLRYFAKLGR ELNCNVCSNR 
      6210       6220       6230       6240       6250
ATCYNSRTGY YGCWRHSYTC DYVYNPLIVD IQQWGYTGSL TSNHDIICNV 
      6260       6270       6280       6290       6300
HKGAHVASAD AIMTRCLAIY DCFCKSVNWN LEYPIISNEV SINTSCRLLQ 
      6310       6320       6330       6340       6350
RVMLKAAMLC NRYNLCYDIG NPKGLACVKD YEFKFYDAFP VAKSVKQLFY 
      6360       6370       6380       6390       6400
VYDVHKDNFK DGLCMFWNCN VDKYPSNSIV CRFDTRVLNK LNLPGCNGGS 
      6410       6420       6430       6440       6450
LYVNKHAFHT NPFTRTVFEN LKPMPFFYYS DTPCVYVDGL ESKQVDYVPL 
      6460       6470       6480       6490       6500
RSATCITRCN LGGAVCSKHA EEYCNYLESY NIVTTAGFTF WVYKNFDFYN 
      6510       6520       6530       6540       6550
LWNTFTTLQS LENVIYNLVN VGHYDGRTGE LPCAIMNDKV VVKINNVDTV 
      6560       6570       6580       6590       6600
IFKNNTSFPT NIAVELFTKR SIRHHPELKI LRNLNIDICW KHVLWDYVKD 
      6610       6620       6630       6640       6650
SLFCSSTYGV CKYTDLKFIE NLNILFDGRD TGALEAFRKA RNGVFISTEK 
      6660       6670       6680       6690       6700
LSRLSMIKGP QRADLNGVIV DKVGELKVEF WFAMRKDGDD VIFSRTDSLC 
      6710       6720       6730       6740       6750
SSHYWSPQGN LGGNCAGNVI GNDALTRFTI FTQSRVLSSF EPRSDLERDF 
      6760       6770       6780       6790       6800
IDMDDNLFIA KYGLEDYAFD HIVYGSFNHK VIGGLHLLIG LFRRKKKSNL 
      6810       6820       6830       6840       6850
LIQEFLQYDS SIHSYFITDQ ECGSSKSVCT VIDLLLDDFV SIVKSLNLSC 
      6860       6870       6880       6890       6900
VSKVVNINVD FKDFQFMLWC NDNKIMTFYP KMQATNDWKP GYSMPVLYKY 
      6910       6920       6930       6940       6950
LNVPLERVSL WNYGKPINLP TGCMMNVAKY TQLCQYLNTT TLAVPVNMRV 
      6960       6970       6980       6990       7000
LHLGAGSDKE VAPGSAVLRQ WLPSGSILVD NDLNPFVSDS LVTYFGDCMT 
      7010       7020       7030       7040       7050
LPFDCHWDLI ISDMYDPLTK NIGDYNVSKD GFFTYICHLI RDKLSLGGSV 
      7060       7070       7080       7090       7100
AIKITEFSWN ADLYKLMSCF AFWTVFCTNV NASSSEGFLI GINYLGKSSF 
      7110       7120       7130       7140       7150
EIDGNVMHAN YLFWRNSTTW NGGAYSLFDM TKFSLKLAGT AVVNLRPDQL 
      7160       7170       7180 
NDLVYSLIER GKLLVRDTRK EIFVGDSLVN TC

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

Length:7,182

Mass (Da):810,941

Last modified:June 10, 2008 - v1

Checksum:ⁱ663B34161D6248BC

GO

Isoform Replicase polyprotein 1a (identifier: P0C6U3-1) [UniParc]FASTA Add to basket

Also known as: pp1a, ORF1a polyprotein

The sequence of this isoform can be found in the external entry P0C6U3.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Length:4,471

Mass (Da):502,589

GO

Sequence databases

Select the link destinations: EMBLⁱ GenBankⁱ DDBJⁱ Links Updated	AY597011 Genomic RNA Translation: AAT98578.1
NCBI Reference Sequences More...RefSeqⁱ	YP_173236.1, NC_006577.2

Genome annotation databases

GeneIDⁱ	3200429
KEGGⁱ	vg:3200429

Keywords - Coding sequence diversityⁱ

Ribosomal frameshifting

Protein	Similar proteins		Species	Score	Length	Source
P0C6X2	ORF1ab polyprotein		CVHK1		7197	UniRef90_P0C6X2
ORF1ab polyprotein (Fragment)		unidentified human coronavirus		798
ORF1ab polyprotein		CVHK1		7197
ORF1ab polyprotein		CVHK1		7191
ORF1ab polyprotein		CVHK1		7191
+22

Protein	Similar proteins		Species	Score	Length	Source
P0C6X2	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	AY597011 Genomic RNA Translation: AAT98578.1
RefSeqⁱ	YP_173236.1, NC_006577.2

3D structure databases

SMRⁱ	P0C6X2
ModBaseⁱ	Search...

Protocols and materials databases

The DNASU plasmid repository More...DNASUⁱ	3200429

DNASUⁱ

3200429

Genome annotation databases

GeneIDⁱ	3200429
KEGGⁱ	vg:3200429

Enzyme and pathway databases

SABIO-RKⁱ	P0C6X2

SABIO-RKⁱ

P0C6X2

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 cd21593, HCoV_HKU1-like_RdRp, 1 hit cd21167, M_alpha_beta_cv_Nsp15-like, 1 hit cd21557, Macro_X_Nsp3-like, 1 hit cd21161, NendoU_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 IPR044371, Macro_X_NSP3-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 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 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 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, 1 hit 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
MobiDBⁱ	Search...

Entry informationⁱ

Entry nameⁱ	R1AB_CVHN1
Accessionⁱ	P0C6X2Primary (citable) accession number: P0C6X2 Secondary accession number(s): Q5MQD2
Entry historyⁱ	Integrated into UniProtKB/Swiss-Prot:	June 10, 2008
	Last sequence update:	June 10, 2008
	Last modified:	February 23, 2022
	This is version 108 of the entry and version 1 of the sequence. See complete history.
Entry statusⁱ	Reviewed (UniProtKB/Swiss-Prot)
Annotation program	Viral Protein Annotation Program

Miscellaneousⁱ

Documents

SIMILARITY comments
Index of protein domains and families

UniProtKB

UniParc

Help

UniRef

Proteomes

Annotation systems

Supporting data

UniProtKB - P0C6X2 (R1AB_CVHN1)

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Replicase polyprotein 1ab

Select a section on the left to see content.

<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

Miscellaneous

<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

Sites

Regions

<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

Enzyme and pathway databases

<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

Sequence databases

Genome annotation 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

Protocols and materials databases

Genome annotation databases

Enzyme and pathway 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

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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

Keywords - Coding sequence diversityⁱ

Cross-referencesⁱ

Entry informationⁱ

Miscellaneousⁱ