P0C6X6 (R1AB_CVHOC) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Replicase polyprotein 1ab
Short name=pp1ab

Alternative name(s):
ORF1ab polyprotein

Cleaved into the following 15 chains:

1. Non-structural protein 1
   Short name=nsp1
   Alternative name(s):
   p28
2. Non-structural protein 2
   Short name=nsp2
   Alternative name(s):
   p65
3. Non-structural protein 3
   Short name=nsp3
   EC=3.4.19.12
   EC=3.4.22.69
   Alternative name(s):
   PL1-PRO/PL2-PRO
   PL1/PL2
   Papain-like proteinases 1/2
   p210
4. Non-structural protein 4
   Short name=nsp4
   Alternative name(s):
   Peptide HD2
   p44
5. 3C-like proteinase
   Short name=3CL-PRO
   Short name=3CLp
   EC=3.4.22.-
   Alternative name(s):
   M-PRO
   nsp5
   p27
6. Non-structural protein 6
   Short name=nsp6
7. Non-structural protein 7
   Short name=nsp7
   Alternative name(s):
   p10
8. Non-structural protein 8
   Short name=nsp8
   Alternative name(s):
   p22
9. Non-structural protein 9
   Short name=nsp9
   Alternative name(s):
   p12
10. Non-structural protein 10
    Short name=nsp10
    Alternative name(s):
    Growth factor-like peptide
    Short name=GFL
    p15
11. RNA-directed RNA polymerase
    Short name=Pol
    Short name=RdRp
    EC=2.7.7.48
    Alternative name(s):
    nsp12
    p100
12. Helicase
    Short name=Hel
    EC=3.6.4.12
    EC=3.6.4.13
    Alternative name(s):
    nsp13
    p67
13. Exoribonuclease
    Short name=ExoN
    EC=3.1.13.-
    Alternative name(s):
    nsp14
14. Uridylate-specific endoribonuclease
    EC=3.1.-.-
    Alternative name(s):
    NendoU
    nsp15
    p35
15. Putative 2'-O-methyl transferase
    EC=2.1.1.-
    Alternative name(s):
    nsp16

Gene names

Name:	rep
ORF Names:	1a-1b

Organism

Human coronavirus OC43 (HCoV-OC43) [Complete proteome]

Taxonomic identifier

31631 [NCBI]

Taxonomic lineage

Viruses › ssRNA viruses › ssRNA positive-strand viruses, no DNA stage › Nidovirales › Coronaviridae › Coronavirinae › Betacoronavirus › Betacoronavirus 1

Virus host

Homo sapiens (Human) [TaxID: 9606]

Protein attributes

Sequence length	7095 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Inferred from homology

General annotation (Comments)

Function	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. The papain-like proteinase 1 (PL1-PRO) and papain-like proteinase 2 (PL2-PRO) are responsible for the cleavages located at the N-terminus of the replicase polyprotein. In addition, PLP2 possesses a deubiquitinating/deISGylating activity and processes both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains from cellular substrates. Antagonizes innate immune induction of type I interferon by blocking the phosphorylation, dimerization and subsequent nuclear translocation of host IRF-3 By similarity. The main proteinase 3CL-PRO is responsible for the majority of cleavages as it cleaves the C-terminus of replicase polyprotein at 11 sites. Recognizes substrates containing the core sequence [ILMVF]-Q-|-[SGACN]. Inhibited by the substrate-analog Cbz-Val-Asn-Ser-Thr-Leu-Gln-CMK. Also contains an ADP-ribose-1''-phosphate (ADRP)-binding function By similarity. The helicase which contains a zinc finger structure displays RNA and DNA duplex-unwinding activities with 5' to 3' polarity. ATPase activity is strongly stimulated by poly(U), poly(dT), poly(C), poly(dA), but not by poly(G) By similarity. The exoribonuclease acts on both ssRNA and dsRNA in a 3' to 5' direction By similarity. Nsp7-nsp8 hexadecamer may possibly confer processivity to the polymerase, maybe by binding to dsRNA or by producing primers utilized by the latter By similarity. Nsp9 is a ssRNA-binding protein By similarity. NendoU is a Mn2+-dependent, uridylate-specific enzyme, which leaves 2'-3'-cyclic phosphates 5' to the cleaved bond By similarity.
Catalytic activity	Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). ATP + H2O = ADP + phosphate. TSAVLQ-|-SGFRK-NH2 and SGVTFQ-|-GKFKK the two peptides corresponding to the two self-cleavage sites of the SARS 3C-like proteinase are the two most reactive peptide substrates. The enzyme exhibits a strong preference for substrates containing Gln at P1 position and Leu at P2 position. Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).
Subunit structure	3CL-PRO exists as monomer and homodimer. Eight copies of nsp7 and eight copies of nsp8 assemble to form a heterohexadecamer. Nsp9 is a dimer. Nsp10 forms a dodecamer By similarity.
Subcellular location	Non-structural protein 3: Host membrane; Multi-pass membrane protein Potential. Non-structural protein 4: Host membrane; Multi-pass membrane protein Potential. Non-structural protein 6: Host membrane; Multi-pass membrane protein Potential. Non-structural protein 7: Host cytoplasm › 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. Non-structural protein 8: Host cytoplasm › 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. Non-structural protein 9: Host cytoplasm › 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. Non-structural protein 10: Host cytoplasm › 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. Helicase: Host endoplasmic reticulum-Golgi intermediate compartment Potential. 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 cytoplasm › host perinuclear region By similarity.
Domain	The hydrophobic domains (HD) could mediate the membrane association of the replication complex and thereby alter the architecture of the host cell membrane.
Post-translational modification	Specific enzymatic cleavages in vivo by its own proteases yield mature proteins. 3CL-PRO and PL-PRO proteinases are autocatalytically processed By similarity.
Miscellaneous	The sequence shown is that of isolate 19572 Belgium 2004.
Sequence similarities	Belongs to the coronaviruses polyprotein 1ab family. Contains 1 (+)RNA virus helicase ATP-binding domain. Contains 1 (+)RNA virus helicase C-terminal domain. Contains 1 CV MBD (coronavirus metal-binding) domain. Contains 1 Macro domain. Contains 2 peptidase C16 domains. Contains 1 peptidase C30 domain. Contains 1 RdRp catalytic domain.

Ontologies

Keywords
Biological process	Activation of host autophagy by virus Host-virus interaction Inhibition of host ISG15 by virus Inhibition of host innate immune response by virus Inhibition of host interferon signaling pathway by virus Modulation of host ubiquitin pathway by viral deubiquitinase Modulation of host ubiquitin pathway by virus Ubl conjugation pathway Viral RNA replication Viral immunoevasion
Cellular component	Host cytoplasm Host membrane Membrane
Coding sequence diversity	Ribosomal frameshifting
Domain	Repeat Transmembrane Transmembrane helix Zinc-finger
Ligand	ATP-binding Metal-binding Nucleotide-binding RNA-binding Zinc
Molecular function	Endonuclease Exonuclease Helicase Hydrolase Nuclease Nucleotidyltransferase Protease RNA-directed RNA polymerase Thiol protease Transferase
Technical term	Complete proteome
Gene Ontology (GO)
Biological_process	induction by virus of host autophagy Inferred from electronic annotation. Source: UniProtKB-KW methylation Inferred from electronic annotation. Source: GOC modulation by virus of host protein ubiquitination Inferred from electronic annotation. Source: UniProtKB-KW nucleic acid phosphodiester bond hydrolysis Inferred from electronic annotation. Source: GOC proteolysis Inferred from electronic annotation. Source: UniProtKB-KW regulation of Rho protein signal transduction Inferred from electronic annotation. Source: InterPro suppression by virus of host ISG15 activity Inferred from electronic annotation. Source: UniProtKB-KW suppression by virus of host type I interferon-mediated signaling pathway Inferred from electronic annotation. Source: UniProtKB-KW transcription, DNA-dependent Inferred from electronic annotation. Source: InterPro viral genome replication Inferred from electronic annotation. Source: InterPro viral protein processing Inferred from electronic annotation. Source: InterPro
Cellular_component	host cell endoplasmic reticulum-Golgi intermediate compartment Inferred from electronic annotation. Source: UniProtKB-SubCell host cell membrane Inferred from electronic annotation. Source: UniProtKB-SubCell host cell perinuclear region of cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell integral to membrane Inferred from electronic annotation. Source: UniProtKB-KW viral replication complex Inferred from electronic annotation. Source: InterPro
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW RNA binding Inferred from electronic annotation. Source: UniProtKB-KW RNA-directed RNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW Rho guanyl-nucleotide exchange factor activity Inferred from electronic annotation. Source: InterPro cysteine-type endopeptidase activity Inferred from electronic annotation. Source: InterPro endonuclease activity Inferred from electronic annotation. Source: UniProtKB-KW exoribonuclease activity, producing 5'-phosphomonoesters Inferred from electronic annotation. Source: InterPro helicase activity Inferred from electronic annotation. Source: UniProtKB-KW methyltransferase activity Inferred from electronic annotation. Source: InterPro omega peptidase activity Inferred from electronic annotation. Source: InterPro zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by ribosomal frameshifting. [Align] [Select]

Isoform Replicase polyprotein 1ab (identifier: P0C6X6-1)

Also known as: pp1ab;

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

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

Isoform Replicase polyprotein 1a (identifier: P0C6U7-1)

Also known as: pp1a; ORF1a polyprotein;

The sequence of this isoform can be found in the external entry P0C6U7.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Note: Produced by conventional translation.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 246	246	Non-structural protein 1 By similarity		PRO_0000283826
	Chain	247 – 851	605	Non-structural protein 2 By similarity		PRO_0000283827
	Chain	852 – 2750	1899	Non-structural protein 3 By similarity		PRO_0000283828
	Chain	2751 – 3246	496	Non-structural protein 4 By similarity		PRO_0000283829
	Chain	3247 – 3549	303	3C-like proteinase By similarity		PRO_0000283830
	Chain	3550 – 3836	287	Non-structural protein 6 By similarity		PRO_0000283831
	Chain	3837 – 3925	89	Non-structural protein 7 By similarity		PRO_0000283832
	Chain	3926 – 4122	197	Non-structural protein 8 By similarity		PRO_0000283833
	Chain	4123 – 4232	110	Non-structural protein 9 By similarity		PRO_0000283834
	Chain	4233 – 4369	137	Non-structural protein 10 By similarity		PRO_0000283835
	Chain	4370 – 5297	928	RNA-directed RNA polymerase By similarity		PRO_0000037308
	Chain	5298 – 5900	603	Helicase By similarity		PRO_0000283836
	Chain	5901 – 6421	521	Exoribonuclease By similarity		PRO_0000283837
	Chain	6422 – 6796	375	Uridylate-specific endoribonuclease By similarity		PRO_0000283838
	Chain	6797 – 7095	299	Putative 2'-O-methyl transferase By similarity		PRO_0000283839
Regions
	Transmembrane	2138 – 2158	21	Helical; Potential
	Transmembrane	2199 – 2219	21	Helical; Potential
	Transmembrane	2221 – 2241	21	Helical; Potential
	Transmembrane	2313 – 2333	21	Helical; Potential
	Transmembrane	2343 – 2363	21	Helical; Potential
	Transmembrane	2365 – 2385	21	Helical; Potential
	Transmembrane	2752 – 2772	21	Helical; Potential
	Transmembrane	2824 – 2844	21	Helical; Potential
	Transmembrane	3009 – 3029	21	Helical; Potential
	Transmembrane	3031 – 3051	21	Helical; Potential
	Transmembrane	3063 – 3083	21	Helical; Potential
	Transmembrane	3090 – 3110	21	Helical; Potential
	Transmembrane	3115 – 3135	21	Helical; Potential
	Transmembrane	3558 – 3578	21	Helical; Potential
	Transmembrane	3588 – 3608	21	Helical; Potential
	Transmembrane	3615 – 3635	21	Helical; Potential
	Transmembrane	3657 – 3677	21	Helical; Potential
	Transmembrane	3684 – 3704	21	Helical; Potential
	Transmembrane	3711 – 3731	21	Helical; Potential
	Transmembrane	3755 – 3775	21	Helical; Potential
	Domain	1036 – 1274	239	Peptidase C16 1
	Domain	1275 – 1435	161	Macro
	Domain	1631 – 1892	262	Peptidase C16 2
	Domain	3247 – 3549	303	Peptidase C30
	Domain	4977 – 5139	163	RdRp catalytic
	Domain	5298 – 5381	84	CV MBD
	Domain	5553 – 5734	182	(+)RNA virus helicase ATP-binding
	Domain	5735 – 5904	170	(+)RNA virus helicase C-terminal
	Zinc finger	1151 – 1179	29	C4-type 1 By similarity
	Zinc finger	1749 – 1785	37	C4-type 2 By similarity
	Zinc finger	4306 – 4322	17	By similarity
	Zinc finger	4348 – 4361	14	By similarity
	Nucleotide binding	5578 – 5585	8	ATP By similarity
	Region	2138 – 2385	248	HD1 By similarity
	Region	2752 – 3135	384	HD2 By similarity
	Region	3319 – 3775	457	HD3 By similarity
Sites
	Active site	1074	1	For PL1-PRO activity By similarity
	Active site	1225	1	For PL1-PRO activity By similarity
	Active site	1671	1	For PL2-PRO activity By similarity
	Active site	1828	1	For PL2-PRO activity By similarity
	Active site	3287	1	For 3CL-PRO activity By similarity
	Active site	3391	1	For 3CL-PRO activity By similarity
	Site	246 – 247	2	Cleavage; by PL1-PRO By similarity
	Site	851 – 852	2	Cleavage; by PL1-PRO By similarity
	Site	2750 – 2751	2	Cleavage; by PL2-PRO By similarity
	Site	3246 – 3247	2	Cleavage; by 3CL-PRO By similarity
	Site	3549 – 3550	2	Cleavage; by 3CL-PRO By similarity
	Site	3836 – 3837	2	Cleavage; by 3CL-PRO By similarity
	Site	3925 – 3926	2	Cleavage; by 3CL-PRO By similarity
	Site	4122 – 4123	2	Cleavage; by 3CL-PRO By similarity
	Site	4232 – 4233	2	Cleavage; by 3CL-PRO By similarity
	Site	4369 – 4370	2	Cleavage; by 3CL-PRO By similarity
	Site	5297 – 5298	2	Cleavage; by 3CL-PRO By similarity
	Site	5900 – 5901	2	Cleavage; by 3CL-PRO By similarity
	Site	6421 – 6422	2	Cleavage; by 3CL-PRO By similarity
	Site	6796 – 6797	2	Cleavage; by 3CL-PRO By similarity
Natural variations
	Natural variant	88	1	H → D in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	207	1	C → R in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	291	1	P → L in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	317	1	C → R in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	356	1	F → V in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	545	1	I → L in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	762	1	D → N in strain: Isolate 87309 Belgium 2003.
	Natural variant	953	1	F → L in strain: ATCC VR-759, Isolate clinical OC43-Paris and Isolate 87309 Belgium 2003.
	Natural variant	989	1	I → V in strain: ATCC VR-759, Isolate clinical OC43-Paris and Isolate 87309 Belgium 2003.
	Natural variant	1305	1	V → A in strain: ATCC VR-759, Isolate clinical OC43-Paris and Isolate 87309 Belgium 2003.
	Natural variant	1328	1	N → D in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	1379	1	F → L in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	1504	1	L → V in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	1740	1	G → E in strain: Isolate 87309 Belgium 2003.
	Natural variant	1825	1	N → K in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	1936	1	S → A in strain: ATCC VR-759, Isolate clinical OC43-Paris and Isolate 87309 Belgium 2003.
	Natural variant	1965	1	N → T in strain: ATCC VR-759, Isolate clinical OC43-Paris.
	Natural variant	2004	1	L → S in strain: ATCC VR-759, Isolate clinical OC43-Paris and Isolate 87309 Belgium 2003.
	Natural variant	2022	1	S → G in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	2138 – 2140	3	TSA → ISV in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	2256	1	I → M in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	2257	1	Q → H in strain: Isolate 87309 Belgium 2003.
	Natural variant	2386	1	K → R in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	2500	1	I → T in strain: ATCC VR-759, Isolate clinical OC43-Paris and Isolate 87309 Belgium 2003.
	Natural variant	2921	1	D → E in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	2961	1	V → I in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	3086	1	T → I in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	3440	1	P → L in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	3451	1	L → V in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	3466	1	I → V in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	4067	1	I → V in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	4071	1	I → V in strain: ATCC VR-759, Isolate clinical OC43-Paris and Isolate 87309 Belgium 2003.
	Natural variant	4382	1	A → T in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	4994	1	I → L in strain: ATCC VR-759, Isolate clinical OC43-Paris and Isolate Tulsa 1999 and Isolate 87309 Belgium 2003.
	Natural variant	5014 – 5015	2	SD → RT in strain: Isolate Tulsa 1999.
	Natural variant	5765	1	L → S in strain: ATCC VR-759, Isolate clinical OC43-Paris and Isolate 87309 Belgium 2003.
	Natural variant	5997	1	L → R in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	6236	1	G → A in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	6454	1	T → A in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
	Natural variant	6546	1	F → L in strain: ATCC VR-759, Isolate clinical OC43-Paris and Isolate 87309 Belgium 2003.
	Natural variant	6636	1	D → E in strain: Isolate 87309 Belgium 2003.
	Natural variant	6665	1	A → T in strain: Isolate 87309 Belgium 2003.
	Natural variant	6754	1	T → A in strain: ATCC VR-759 and Isolate clinical OC43-Paris.
Experimental info
	Sequence conflict	426	1	I → M in AAT84359. Ref.3
	Sequence conflict	426	1	I → M in AAT84351. Ref.3
	Sequence conflict	813	1	D → A in AAT84359. Ref.3
	Sequence conflict	813	1	D → A in AAT84351. Ref.3
	Sequence conflict	4376 – 4377	2	LN → FK in AAR01012. Ref.2

Sequences

	Sequence		Length	Mass (Da)
	Isoform Replicase polyprotein 1ab (pp1ab) [UniParc]. Last modified June 10, 2008. Version 1. Checksum: 157CDEBD4CE45D4A	FASTA	7,095	797,914
	10 20 30 40 50 60 MSKINKYGLE LHWAPEFPWM FEDAEEKLDN PSSSEVDMIC STTAQKLETD GICPENHVMV 70 80 90 100 110 120 DCRRLLKQEC CVQSSLIREI VMNASPYHLE VLLQDALQSR EAVLVTTPLG MSLEACYVRG 130 140 150 160 170 180 CNPKGWTMGL FRRRSVCNTG RCTVNKHVAY QLYMIDPAGV CLGAGQFVGW VIPLAFMPVQ 190 200 210 220 230 240 SRKFIVPWVM YLRKRGEKGA YNKDHGCGGF GHVYDFKVED AYDQVHDEPK GKFSKKAYAL 250 260 270 280 290 300 IRGYRGVKPL LYVDQYGCDY TGSLADGLEA YADKTLQEMK ALFPTWSQEL PFDVIVAWHV 310 320 330 340 350 360 VRDPRYVMRL QSAATICSVA YVANPTEDLC DGSVVIKEPV HVYADDSIIL RQYNLFDIMS 370 380 390 400 410 420 HFYMEADTVV NAFYGVALKD CGFVMQFGYI DCEQDSCDFK GWIPGNMIDG FACTTCGHVY 430 440 450 460 470 480 EVGDLIAQSS GVLPVNPVLH TKSAAGYGGF GCKDSFTLYG QTVVYFGGCV YWSPARNIWI 490 500 510 520 530 540 PILKSSVKSY DSLVYTGVLG CKAIVKETNL ICKALYLDYV QHKCGNLHQR ELLGVSDVWH 550 560 570 580 590 600 KQLLINRGVY KPLLENIDYF NMRRAKFSLE TFTVCADGFM PFLLDDLVPR AYYLAVSGQA 610 620 630 640 650 660 FCDYADKLCH AVVSKSKELL DVSLDSLGAA IHYLNSKIVD LAQHFSDFGT SFVSKIVHFF 670 680 690 700 710 720 KTFTTSTALA FAWVLFHVLH GAYIVVESDI YFVKNIPRYA SAVAQAFQSV AKVVLDSLRV 730 740 750 760 770 780 TFIDGLSCFK IGRRRICLSG RKIYEVERGL LHSSQLPLDV YDLTMPSQVQ KAKQKPIYLK 790 800 810 820 830 840 GSGSDFSLAD SVVEVVTTSL TPCGYSEPPK VADKICIVDN VYMAKAGDKY YPVVVDDHVG 850 860 870 880 890 900 LLDQAWRVPC AGRRVTFKEQ PTVKEIISMP KIIKVFYELD NDFNTILNTA CGVFEVDDTV 910 920 930 940 950 960 DMEEFYAVVI DAIEEKLSPC KELEGVGAKV SAFLQKLEDN PLFLFDEAGE EVFAPKLYCA 970 980 990 1000 1010 1020 FTAPEDDDFL EESDVEEDDV EGEETDLTIT SAGQPCVASE QEESSEVLED TLDDGPSVET 1030 1040 1050 1060 1070 1080 SDSQVEEDVE MSDFVDLESV IQDYENVCFE FYTTEPEFVK VLGLYVPKAT RNNCWLRSVL 1090 1100 1110 1120 1130 1140 AVMQKLPCQF KDKNLQDLWV LYKQQYSQLF VDTLVNKIPA NIVLPQGGYV ADFAYWFLTL 1150 1160 1170 1180 1190 1200 CDWQCVAYWK CIKCDLALKL KGLDAMFFYG DVVSHICKCG ESMVLIDVDV PFTAHFALKD 1210 1220 1230 1240 1250 1260 KLFCAFITKR IVYKAACVVD VNDSHSMAVV DGKQIDDHRI TSITSDKFDF IIGHGMSFSM 1270 1280 1290 1300 1310 1320 TTFEIAQLYG SCITPNVCFV KGDIIKVSKL VKAEVVVNPA NGHMVHGGGV AKAIAVAAGQ 1330 1340 1350 1360 1370 1380 QFVKETTNMV KSKGVCATGD CYVSTGGKLC KTVLNVVGPD ARTQGKQSYV LLERVYKHFN 1390 1400 1410 1420 1430 1440 NYDCVVTTLI SAGIFSVPSD VSLTYLLGTA KKQVVLVSNN QEDFDLISKC QITAVEGTKK 1450 1460 1470 1480 1490 1500 LAARLSFNVG RSIVYETDAN KLILINDVAF VSTFNVLQDV LSLRHDIALD DDARTFVQSN 1510 1520 1530 1540 1550 1560 VDVLPEGWRV VNKFYQINGV RTVKYFECTG GIDICSQDKV FGYVQQGIFN KATVAQIKAL 1570 1580 1590 1600 1610 1620 FLDKVDILLT VDGVNFTNRF VPVGESFGKS LGNVFCDGVN VTKHKCDINY KGKVFFQFDN 1630 1640 1650 1660 1670 1680 LSSEDLKAVR SSFNFDQKEL LAYYNMLVNC FKWQVVVNGK YFTFKQANNN CFVNVSCLML 1690 1700 1710 1720 1730 1740 QSLHLTFKIV QWQEAWLEFR SGRPARFVAL VLAKGGFKFG DPADSRDFLR VVFSQVDLTG 1750 1760 1770 1780 1790 1800 AICDFEIACK CGVKQEQRTG LDAVMHFGTL SREDLEIGYT VDCSCGKKLI HCVRFDVPFL 1810 1820 1830 1840 1850 1860 ICSNTPASVK LPKGVGSANI FIGDNVGHYV HVKCEQSYQL YDASNVKKVT DVTGKLSDCL 1870 1880 1890 1900 1910 1920 YLKNLKQTFK SVLTTYYLDD VKKIEYKPDL SQYYCDGGKY YTQRIIKAQF KTFEKVDGVY 1930 1940 1950 1960 1970 1980 TNFKLIGHTV CDSLNSKLGF DSSKEFVEYK ITEWPTATGD VVLANDDLYV KRYERGCITF 1990 2000 2010 2020 2030 2040 GKPVIWLSHE KASLNSLTYF NRPLLVDDNK FDVLKVDDVD DSGDSSESGA KETKEINIIK 2050 2060 2070 2080 2090 2100 LSGVKKPFKV EDSVIVNDDT SETKYVKSLS IVDVYDMWLT GCKYVVRTAN ALSRAVNVPT 2110 2120 2130 2140 2150 2160 IRKFIKFGMT LVSIPIDLLN LREIKPAVNV VKAVRNKTSA CFNFIKWLFV LLFGWIKISA 2170 2180 2190 2200 2210 2220 DNKVIYTTEI ASKLTCKLVA LAFKNAFLTF KWSMVARGAC IIATIFLLWF NFIYANVIFS 2230 2240 2250 2260 2270 2280 DFYLPKIGFL PTFVGKIAQW IKNTFSLVTI CDLYSIQDVG FKNQYCNGSI ACQFCLAGFD 2290 2300 2310 2320 2330 2340 MLDNYKAIDV VQYEADRRAF VDYTGVLKIV IELIVSYALY TAWFYPLFAL ISIQILTTWL 2350 2360 2370 2380 2390 2400 PELFMLSTLH WSFRLLVALA NMLPAHVFMR FYIIIASFIK LFSLFKHVAY GCSKSGCLFC 2410 2420 2430 2440 2450 2460 YKRNRSLRVK CSTIVGGMIR YYDVMANGGT GFCSKHQWNC IDCDSYKPGN TFITVEAALD 2470 2480 2490 2500 2510 2520 LSKELKRPIQ PTDVAYHTVT DVKQVGCSMR LFYDRDGQRI YDDVNASLFV DYSNLLHSKV 2530 2540 2550 2560 2570 2580 KSVPNMHVVV VENDADKANF LNAAVFYAQS LFRPILMVDK NLITTANTGT SVTETMFDVY 2590 2600 2610 2620 2630 2640 VDTFLSMFDV DKKSLNALIA TAHSSIKQGT QIYKVLDTFL SCARKSCSID SDVDTKCLAD 2650 2660 2670 2680 2690 2700 SVMSAVSAGL ELTDESCNNL VPTYLKSDNI VAADLGVLIQ NSAKHVQGNV AKIAGVSCIW 2710 2720 2730 2740 2750 2760 SVDAFNQFSS DFQHKLKKAC CKTGLKLKLT YNKQMANVSV LTTPFSLKGG AVFSYFVYVC 2770 2780 2790 2800 2810 2820 FVLSLVCFIG LWCLMPTYTV HKSDFQLPVY ASYKVLDNGV IRDVSVEDVC FANKFEQFDQ 2830 2840 2850 2860 2870 2880 WYESTFGLSY YSNSMACPIV VAVIDQDFGS TVFNVPTKVL RYGYHVLHFI THALSADGVQ 2890 2900 2910 2920 2930 2940 CYTPHSQISY SNFYASGCVL SSACTMFTMA DGSPQPYCYT DGLMQNASLY SSLVPHVRYN 2950 2960 2970 2980 2990 3000 LANAKGFIRF PEVLREGLVR VVRTRSMSYC RVGLCEEADE GICFNFNGSW VLNNDYYRSL 3010 3020 3030 3040 3050 3060 PGTFCGRDVF DLIYQLFKGL AQPVDFLALT ASSIAGAILA VIVVLVFYYL IKLKRAFGDY 3070 3080 3090 3100 3110 3120 TSVVFVNVIV WCVNFMMLFV FQVYPTLSCV YAICYFYATL YFPSEISVIM HLQWLVMYGT 3130 3140 3150 3160 3170 3180 IMPLWFCLLY IAVVVSNHAF WVFSYCRKLG TSVRSDGTFE EMALTTFMIT KDSYCKLKNS 3190 3200 3210 3220 3230 3240 LSDVAFNRYL SLYNKYRYYS GKMDTAAYRE AACSQLAKAM DTFTNNNGSD VLYQPPTASV 3250 3260 3270 3280 3290 3300 STSFLQSGIV KMVNPTSKVE PCVVSVTYGN MTLNGLWLDD KVYCPRHVIC SASDMTNPDY 3310 3320 3330 3340 3350 3360 TNLLCRVTSS DFTVLFDRLS LTVMSYQMRG CMLVLTVTLQ NSRTPKYTFG VVKPGETFTV 3370 3380 3390 3400 3410 3420 LAAYNGKPQG AFHVTMRSSY TIKGSFLCGS CGSVGYVIMG DCVKFVYMHQ LELSTGCHTG 3430 3440 3450 3460 3470 3480 TDFNGDFYGP YKDAQVVQLP IQDYIQSVNF LAWLYAAILN NCNWFIQSDK CSVEDFNVWA 3490 3500 3510 3520 3530 3540 LSNGFSQVKS DLVIDALASM TGVSLETLLA AIKRLKNGFQ GRQIMGSCSF EDELTPSDVY 3550 3560 3570 3580 3590 3600 QQLAGIKLQS KRTRLFKGTV CWIMASTFLF SCIITAFVKW TMFMYVTTNM FSITFCALCV 3610 3620 3630 3640 3650 3660 ISLAMLLVKH KHLYLTMYIT PVLFTLLYNN YLVVYKHTFR GYVYAWLSYY VPSVEYTYTD 3670 3680 3690 3700 3710 3720 EVIYGMLLLV GMVFVTLRSI NHDLFSFIMF VGRLISVFSL WYKGSNLEEE ILLMLASLFG 3730 3740 3750 3760 3770 3780 TYTWTTVLSM AVAKVIAKWV AVNVLYFTDI PQIKIVLLCY LFIGYIISCY WGLFSLMNSL 3790 3800 3810 3820 3830 3840 FRMPLGVYNY KISVQELRYM NANGLRPPKN SFEALMLNFK LLGIGGVPII EVSQFQSKLT 3850 3860 3870 3880 3890 3900 DVKCANVVLL NCLQHLHVAS NSKLWHYCST LHNEILATSD LSVAFEKLAQ LLIVLFANPA 3910 3920 3930 3940 3950 3960 AVDSKCLTSI EEVCDDYAKD NTVLQALQSE FVNMASFVEY EVAKKNLDEA RFSGSANQQQ 3970 3980 3990 4000 4010 4020 LKQLEKACNI AKSAYERDRA VAKKLERMAD LALTNMYKEA RINDKKSKVV SALQTMLFSM 4030 4040 4050 4060 4070 4080 VRKLDNQALN SILDNAVKGC VPLNAIPSLA ANTLNIIVPD KSVYDQIVDN IYVTYAGNVW 4090 4100 4110 4120 4130 4140 QIQTIQDSDG TNKQLNEISD DCNWPLVIIA NRYNEVSATV LQNNELMPAK LKIQVVNSGP 4150 4160 4170 4180 4190 4200 DQTCNTPTQC YYNNSNNGKI VYAILSDVDG LKYTKILKDD GNFVVLELDP PCKFTVQDAK 4210 4220 4230 4240 4250 4260 GLKIKYLYFV KGCNTLARGW VVGTISSTVR LQAGTATEYA SNSSILSLCA FSVDPKKTYL 4270 4280 4290 4300 4310 4320 DFIQQGGTPI ANCVKMLCDH AGTGMAITVK PDATTSQDSY GGASVCIYCR ARVEHPDVDG 4330 4340 4350 4360 4370 4380 LCKLRGKFVQ VPVGIKDPVS YVLTHDVCRV CGFWRDGSCS CVSTDTTVQS KDTNFLNRVR 4390 4400 4410 4420 4430 4440 GASVDARLVP CASGLSTDVQ LRAFDIYNAS VAGIGLHLKV NCCRFQRVDE NGDKLDQFFV 4450 4460 4470 4480 4490 4500 VKRTDLTIYN REMKCYERVK DCKFVAEHDF FTFDVEGSRV PHIVRKDLTK YTMLDLCYAL 4510 4520 4530 4540 4550 4560 RHFDRNDCML LCDILSIYAG CEQSYFTKKD WYDFVENPDI INVYKKLGPI FNRALVSATE 4570 4580 4590 4600 4610 4620 FADKLVEVGL VGVLTLDNQD LNGKWYDFGD YVIAAPGCGV AIADSYYSYI MPMLTMCHAL 4630 4640 4650 4660 4670 4680 DCELYVNNAY RLFDLVQYDF TDYKLELFNK YFKHWSMPYH PNTVDCQDDR CIIHCANFNI 4690 4700 4710 4720 4730 4740 LFSMVLPNTC FGPLVRQIFV DGVPFVVSIG YHYKELGIVM NMDVDTHRYR LSLKDLLLYA 4750 4760 4770 4780 4790 4800 ADPALHVASA SALYDLRTCC FSVAAITSGV KFQTVKPGNF NQDFYDFVLS KGLLKEGSSV 4810 4820 4830 4840 4850 4860 DLKHFFFTQD GNAAITDYNY YKYNLPTMVD IKQLLFVLEV VYKYFEIYDG GCIPASQVIV 4870 4880 4890 4900 4910 4920 NNYDKSAGYP FNKFGKARLY YEALSFEEQD EIYAYTKRNV LPTLTQMNLK YAISAKNRAR 4930 4940 4950 4960 4970 4980 TVAGVSILST MTGRMFHQKC LKSIAATRGV PVVIGTTKFY GGWDDMLRRL IKDVDNPVLM 4990 5000 5010 5020 5030 5040 GWDYPKCDRA MPNILRIVSS LVLARKHETC CSQSDRFYRL ANECAQVLSE IVMCGGCYYV 5050 5060 5070 5080 5090 5100 KPGGTSSGDA TTAFANSVFN ICQAVSANVC ALMSCNGNKI EDLSIRALQK RLYSHVYRSD 5110 5120 5130 5140 5150 5160 KVDSTFVTEY YEFLNKHFSM MILSDDGVVC YNSDYASKGY IANISAFQQV LYYQNNVFMS 5170 5180 5190 5200 5210 5220 ESKCWVEHDI NNGPHEFCSQ HTMLVKMDGD DVYLPYPNPS RILGAGCFVD DLLKTDSVLL 5230 5240 5250 5260 5270 5280 IERFVSLAID AYPLVYHENE EYQKVFRVYL AYIKKLYNDL GNQILDSYSV ILSTCDGQKF 5290 5300 5310 5320 5330 5340 TDESFYKNMY LRSAVMQSVG ACVVCSSQTS LRCGSCIRKP LLCCKCCYDH VMATDHKYVL 5350 5360 5370 5380 5390 5400 SVSPYVCNAP GCDVNDVTKL YLGGMSYYCE DHKPQYSFKL VMNGLVFGLY KQSCTGSPYI 5410 5420 5430 5440 5450 5460 DDFNRIASCK WTDVDDYILA NECTERLKLF AAETQKATEE AFKQSYASAT IQEIVSEREL 5470 5480 5490 5500 5510 5520 ILSWEIGKVK PPLNKNYVFT GYHFTKNGKT VLGEYVFDKS ELTNGVYYRA TTTYKLSVGD 5530 5540 5550 5560 5570 5580 VFVLTSHSVA NLSAPTLVPQ ENYSSIRFAS VYSVLETFQN NVVNYQHIGM KRYCTVQGPP 5590 5600 5610 5620 5630 5640 GTGKSHLAIG LAVFYCTARV VYTAASHAAV DALCEKAYKF LNINDCTRIV PAKVRVECYD 5650 5660 5670 5680 5690 5700 KFKINDTTRK YVFTTINALP EMVTDIVVVD EVSMLTNYEL SVINARIRAK HYVYIGDPAQ 5710 5720 5730 5740 5750 5760 LPAPRVLLSK GTLEPKYFNT VTKLMCCLGP DIFLGTCYRC PKEIVDTVSA LVYENKLKAK 5770 5780 5790 5800 5810 5820 NESSLLCFKV YYKGVTTHES SSAVNMQQIY LINKFLKANP LWHKAVFISP YNSQNFAAKR 5830 5840 5850 5860 5870 5880 VLGLQTQTVD SAQGSEYDYV IYSQTAETAH SVNVNRFNVA ITRAKKGILC VMSNMQLFEA 5890 5900 5910 5920 5930 5940 LQFTTLTLDK VPQAVETKVQ CSTNLFKDCS KSYSGYHPAH APSFLAVDDK YKATGDLAVC 5950 5960 5970 5980 5990 6000 LGIGDSAVTY SRLISLMGFK LDVTLDGYCK LFITKEEAVK RVRAWVGFDA EGAHATLDSI 6010 6020 6030 6040 6050 6060 GTNFPLQLGF STGIDFVVEA TGLFADRDGY SFKKAVAKAP PGEQFKHLIP LMTRGHRWDV 6070 6080 6090 6100 6110 6120 VRPRIVQMFA DHLIDLSDCV VLVTWAANFE LTCLRYFAKV GREISCNVCT KRATVYNSRT 6130 6140 6150 6160 6170 6180 GYYGCWRHSV TCDYLYNPLI VDIQQWGYIG SLSSNHDLYC SVHKGAHVAS SDAIMTRCLA 6190 6200 6210 6220 6230 6240 VYDCFCNNIN WNVEYPIISN ELSINTSCRV LQRVILKAAM LCNRYTLCYD IGNPKGIACV 6250 6260 6270 6280 6290 6300 KDFDFKFYDA QPIVKSVKTL LYSFEAHKDS FKDGLCMFWN CNVDKYPPNA VVCRFDTRVL 6310 6320 6330 6340 6350 6360 NNLNLPGCNG GSLYVNKHAF HTKPFARAAF EHLKPMPFFY YSDTPCVYMD GMDAKQVDYV 6370 6380 6390 6400 6410 6420 PLKSATCITR CNLGGAVCLK HAEEYREYLE SYNTATTAGF TFWVYKTFDF YNLWNTFTKL 6430 6440 6450 6460 6470 6480 QSLENVVYNL VKTGHYTGQA GEMPCAIIND KVVTKIDKED VVIFINNTTY PTNVAVELFA 6490 6500 6510 6520 6530 6540 KRSVRHHPEL KLFRNLNIDV CWKHVIWDYA RESIFCSNTY GVCMYTDLKF IDKLNVLFDG 6550 6560 6570 6580 6590 6600 RDNGAFEAFK RSNNGVYIST TKVKSLSMIR GPPRAELNGV VVDKVGDTDC VFYFAVRKEG 6610 6620 6630 6640 6650 6660 QDVIFSQFDS LGVSSNQSPQ GNLGSNGKPG NVGGNDALSI STIFTQSRVI SSFTCRTDME 6670 6680 6690 6700 6710 6720 KDFIALDQDV FIQKYGLEDY AFEHIVYGNF NQKIIGGLHL LIGLYRRQQT SNLVVQEFVS 6730 6740 6750 6760 6770 6780 YDSSIHSYFI TDEKSGGSKS VCTVIDILLD DFVTLVKSLN LNCVSKVVNV NVDFKDFQFM 6790 6800 6810 6820 6830 6840 LWCNDEKVMT FYPRLQAASD WKPGYSMPVL YKYLNSPMER VSLWNYGKPV TLPTGCMMNV 6850 6860 6870 6880 6890 6900 AKYTQLCQYL NTTTLAVPVN MRVLHLGAGS EKGVAPGSAV LRQWLPAGTI LVDNDLYPFV 6910 6920 6930 6940 6950 6960 SDSVATYFGD CITLPFDCQW DLIISDMYDP ITKNIGEYNV SKDGFFTYIC HMIRDKLALG 6970 6980 6990 7000 7010 7020 GSVAIKITEF SWNAELYKLM GYFAFWTVFC TNANASSSEG FLIGINYLCK PKVEIDGNVM 7030 7040 7050 7060 7070 7080 HANYLFWRNS TVWNGGAYSL FDMAKFPLKL AGTAVINLRA DQINDMVYSL LEKGKLLIRD 7090 TNKEVFVGDS LVNVI
	Isoform Replicase polyprotein 1a (pp1a) (ORF1a polyprotein) [UniParc]. See P0C6U7.		–	–

References

[1]	"Circulation of genetically distinct contemporary human coronavirus OC43 strains." Vijgen L., Keyaerts E., Lemey P., Moes E., Li S., Vandamme A.M., Van Ranst M. Virology 337:85-92(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate 19572 Belgium 2004 and Isolate 87309 Belgium 2003.
[2]	"Human respiratory coronavirus OC43: genetic stability and neuroinvasion." St Jean J.R., Jacomy H., Desforges M., Vabret A., Freymuth F., Talbot P.J. J. Virol. 78:8824-8834(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate ATCC VR-759 and Isolate clinical OC43-Paris.
[3]	"Complete genomic sequence of human coronavirus OC43: molecular clock analysis suggests a relatively recent zoonotic coronavirus transmission event." Vijgen L., Keyaerts E., Moes E., Thoelen I., Wollants E., Lemey P., Vandamme A.M., Van Ranst M. J. Virol. 79:1595-1604(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate ATCC VR-759.
[4]	"Phylogenetic analysis of a highly conserved region of the polymerase gene from 11 coronaviruses and development of a consensus polymerase chain reaction assay." Stephensen C.B., Casebolt D.B., Gangopadhyay N.N. Virus Res. 60:181-189(1999) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA] OF 4871-5177. Strain: Isolate Tulsa 1999.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AY903459 Genomic RNA. Translation: AAX85666.1. AY903460 Genomic RNA. Translation: AAX85675.1. AY585228 Genomic RNA. Translation: AAT84351.1. AY585229 Genomic RNA. Translation: AAT84359.1. AY391777 Genomic RNA. Translation: AAR01012.1. AF124989 Genomic RNA. Translation: AAD32993.1.
RefSeq	NP_937947.1. NC_005147.1.
3D structure databases
ProteinModelPortal	P0C6X6.
SMR	P0C6X6. Positions 3964-4114, 4238-4362, 6422-6791.
ModBase	Search...
Protein family/group databases
MEROPS	C30.001.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	2983739.
Family and domain databases
InterPro	IPR027351. (+)RNA_virus_helicase_core_dom. IPR002589. A1pp. IPR022570. Coronavirus_NSP1. IPR009461. Coronavirus_NSP13. IPR027352. CV_MBD_dom. IPR000219. DH-domain. IPR009466. NSP11. IPR014828. NSP7. IPR014829. NSP8. IPR014822. NSP9. IPR002705. Pept_C30/C16_sub. IPR008740. Peptidase_C30. IPR013016. Peptidase_C30/C16. IPR001205. RNA-dir_pol_C. IPR007094. RNA-dir_pol_PSvirus. IPR009469. RNA_pol_N_coronovir. IPR018995. RNA_synth_NSP10_coronavirus. IPR009003. Trypsin-like_Pept_dom. IPR014827. Viral_protease. [Graphical view]
Pfam	PF06478. Corona_RPol_N. 1 hit. PF11963. DUF3477. 1 hit. PF01661. Macro. 1 hit. PF09401. NSP10. 1 hit. PF06471. NSP11. 1 hit. PF06460. NSP13. 1 hit. PF08716. nsp7. 1 hit. PF08717. nsp8. 1 hit. PF08710. nsp9. 1 hit. PF01831. Peptidase_C16. 1 hit. PF05409. Peptidase_C30. 1 hit. PF00680. RdRP_1. 1 hit. PF08715. Viral_protease. 1 hit. [Graphical view]
SMART	SM00506. A1pp. 1 hit. [Graphical view]
SUPFAM	SSF48065. DH-domain. 1 hit. SSF101816. Nsp9. 1 hit. SSF50494. Pept_Ser_Cys. 1 hit. SSF144246. SSF144246. 1 hit.
PROSITE	PS51653. CV_MBD. 1 hit. PS51442. M_PRO. 1 hit. PS51154. MACRO. 1 hit. PS51124. PEPTIDASE_C16. 2 hits. PS51657. PSRV_HELICASE. 1 hit. PS50507. RDRP_SSRNA_POS. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

R1AB_CVHOC

Accession

Primary (citable) accession number: P0C6X6
Secondary accession number(s): Q4VID8 , Q4VIE7, Q696Q1, Q6TNG2, Q9WAC3

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 10, 2008
Last sequence update:	June 10, 2008
Last modified:	May 1, 2013
This is version 44 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program