P0C6X5 (R1AB_CVHNL) 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):
   p9
2. Non-structural protein 2
   Short name=nsp2
   Alternative name(s):
   p87
3. Non-structural protein 3
   Short name=nsp3
   EC=3.4.19.12
   EC=3.4.22.-
   Alternative name(s):
   PL1-PRO/PL2-PRO
   PLP1/PLP2
   Papain-like proteinases 1/2
   p195
4. Non-structural protein 4
   Short name=nsp4
   Alternative name(s):
   Peptide HD2
5. 3C-like proteinase
   Short name=3CL-PRO
   Short name=3CLp
   EC=3.4.22.-
   Alternative name(s):
   M-PRO
   nsp5
   p34
6. Non-structural protein 6
   Short name=nsp6
7. Non-structural protein 7
   Short name=nsp7
   Alternative name(s):
   p5
8. Non-structural protein 8
   Short name=nsp8
   Alternative name(s):
   p23
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
    p14
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
    p66
    p66-HEL
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
    p41
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 NL63 (HCoV-NL63) [Complete proteome]

Taxonomic identifier

277944 [NCBI]

Taxonomic lineage

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

Virus host

Homo sapiens (Human) [TaxID: 9606]

Protein attributes

Sequence length	6729 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. Ref.2 The papain-like proteinase 1 (PLP1) and papain-like proteinase 2 (PLP2) 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. PLP2 also antagonizes innate immune induction of type I interferon by blocking the nuclear translocation of host IRF-3 By similarity. Ref.2 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. Ref.2 The helicase which contains a zinc finger structure displays RNA and DNA duplex-unwinding activities with 5' to 3' polarity. Its ATPase activity is strongly stimulated by poly(U), poly(dT), poly(C), poly(dA), but not by poly(G). Ref.2 The exoribonuclease acts on both ssRNA and dsRNA in a 3' to 5' direction By similarity. Ref.2 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. Ref.2 Nsp9 is a ssRNA-binding protein By similarity. Ref.2 NendoU is a Mn2+-dependent, uridylate-specific enzyme, which leaves 2'-3'-cyclic phosphates 5' to the cleaved bond By similarity. Ref.2
Catalytic activity	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). Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). ATP + H2O = ADP + phosphate.
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.
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 IFN-mediated response initiation by virus Inhibition of host IRF3 by virus Inhibition of host innate immune response 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 suppression by virus of host IRF3 activity Inferred from electronic annotation. Source: UniProtKB-KW suppression by virus of host type I interferon production 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 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: P0C6X5-1)

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: P0C6U6-1)

Also known as: pp1a; ORF1a polyprotein;

The sequence of this isoform can be found in the external entry P0C6U6.
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 – 110	110	Non-structural protein 1 By similarity		PRO_0000283874
	Chain	111 – 898	788	Non-structural protein 2 By similarity		PRO_0000283875
	Chain	899 – 2462	1564	Non-structural protein 3 By similarity		PRO_0000283876
	Chain	2463 – 2939	477	Non-structural protein 4 By similarity		PRO_0000283877
	Chain	2940 – 3242	303	3C-like proteinase By similarity		PRO_0000283878
	Chain	3243 – 3521	279	Non-structural protein 6 By similarity		PRO_0000283879
	Chain	3522 – 3604	83	Non-structural protein 7 By similarity		PRO_0000283880
	Chain	3605 – 3799	195	Non-structural protein 8 By similarity		PRO_0000283881
	Chain	3800 – 3908	109	Non-structural protein 9 By similarity		PRO_0000283882
	Chain	3909 – 4043	135	Non-structural protein 10 By similarity		PRO_0000283883
	Chain	4044 – 4970	927	RNA-directed RNA polymerase By similarity		PRO_0000283884
	Chain	4971 – 5567	597	Helicase By similarity		PRO_0000283885
	Chain	5568 – 6085	518	Exoribonuclease By similarity		PRO_0000283886
	Chain	6086 – 6429	344	Uridylate-specific endoribonuclease By similarity		PRO_0000283887
	Chain	6430 – 6729	300	Putative 2'-O-methyl transferase By similarity		PRO_0000283888
Regions
	Transmembrane	1903 – 1923	21	Helical; Potential
	Transmembrane	1968 – 1988	21	Helical; Potential
	Transmembrane	2050 – 2070	21	Helical; Potential
	Transmembrane	2073 – 2093	21	Helical; Potential
	Transmembrane	2111 – 2131	21	Helical; Potential
	Transmembrane	2468 – 2488	21	Helical; Potential
	Transmembrane	2727 – 2747	21	Helical; Potential
	Transmembrane	2752 – 2769	18	Helical; Potential
	Transmembrane	2772 – 2792	21	Helical; Potential
	Transmembrane	2800 – 2820	21	Helical; Potential
	Transmembrane	3254 – 3274	21	Helical; Potential
	Transmembrane	3279 – 3299	21	Helical; Potential
	Transmembrane	3303 – 3323	21	Helical; Potential
	Transmembrane	3342 – 3362	21	Helical; Potential
	Transmembrane	3376 – 3396	21	Helical; Potential
	Transmembrane	3397 – 3417	21	Helical; Potential
	Transmembrane	3442 – 3462	21	Helical; Potential
	Domain	1021 – 1262	242	Peptidase C16 1
	Domain	1263 – 1421	159	Macro
	Domain	1640 – 1886	247	Peptidase C16 2
	Domain	2940 – 3242	303	Peptidase C30
	Domain	4650 – 4812	163	RdRp catalytic
	Domain	4971 – 5054	84	CV MBD
	Domain	5228 – 5409	182	(+)RNA virus helicase ATP-binding
	Domain	5410 – 5579	170	(+)RNA virus helicase C-terminal
	Zinc finger	1134 – 1165	32	C4-type 1 By similarity
	Zinc finger	1757 – 1788	32	C4-type 2; atypical By similarity
	Zinc finger	3982 – 3998	17	By similarity
	Zinc finger	4024 – 4037	14	By similarity
	Nucleotide binding	5253 – 5260	8	ATP By similarity
	Region	1903 – 2131	229	HD1 By similarity
	Region	2468 – 2820	353	HD2 By similarity
	Region	3254 – 3462	209	HD3 By similarity
	Compositional bias	625 – 628	4	Poly-Leu
	Compositional bias	1975 – 1978	4	Poly-Leu
Sites
	Active site	1062	1	For PL1-PRO activity By similarity
	Active site	1212	1	For PL1-PRO activity By similarity
	Active site	1678	1	For PL2-PRO activity By similarity
	Active site	1836	1	For PL2-PRO activity By similarity
	Active site	2980	1	For 3CL-PRO activity By similarity
	Active site	3083	1	For 3CL-PRO activity By similarity
	Site	110 – 111	2	Cleavage; by PL1-PRO By similarity
	Site	898 – 899	2	Cleavage; by PL1-PRO By similarity
	Site	2462 – 2463	2	Cleavage; by PL2-PRO By similarity
	Site	2939 – 2940	2	Cleavage; by 3CL-PRO By similarity
	Site	3242 – 3243	2	Cleavage; by 3CL-PRO By similarity
	Site	3521 – 3522	2	Cleavage; by 3CL-PRO By similarity
	Site	3604 – 3605	2	Cleavage; by 3CL-PRO By similarity
	Site	3799 – 3800	2	Cleavage; by 3CL-PRO By similarity
	Site	3908 – 3909	2	Cleavage; by 3CL-PRO By similarity
	Site	4043 – 4044	2	Cleavage; by 3CL-PRO By similarity
	Site	4970 – 4971	2	Cleavage; by 3CL-PRO By similarity
	Site	6085 – 6086	2	Cleavage; by 3CL-PRO By similarity
	Site	6429 – 6430	2	Cleavage; by 3CL-PRO By similarity

Sequences

	Sequence		Length	Mass (Da)
	Isoform Replicase polyprotein 1ab (pp1ab) [UniParc]. Last modified June 10, 2008. Version 1. Checksum: 86F9F04C687A65FA	FASTA	6,729	752,702
	10 20 30 40 50 60 MFYNQVTLAV ASDSEISGFG FAIPSVAVRT YSEAAAQGFQ ACRFVAFGLQ DCVTGINDDD 70 80 90 100 110 120 YVIALTGTNQ LCAKILPFSD RPLNLRGWLI FSNSNYVLQD FDVVFGHGAG SVVFVDKYMC 130 140 150 160 170 180 GFDGKPVLPK NMWEFRDYFN NNTDSIVIGG VTYQLAWDVI RKDLSYEQQN VLAIESIHYL 190 200 210 220 230 240 GTTGHTLKSG CKLTNAKPPK YSSKVVLSGE WNAVYRAFGS PFITNGMSLL DIIVKPVFFN 250 260 270 280 290 300 AFVKCNCGSE SWSVGAWDGY LSSCCGTPAK KLCVVPGNVV PGDVIITSTS AGCGVKYYAG 310 320 330 340 350 360 LVVKHITNIT GVSLWRVTAV HSDGMFVASS SYDALLHRNS LDPFCFDVNT LLSNQLRLAF 370 380 390 400 410 420 LGASVTEDVK FAASTGVIDI SAGMFGLYDD ILTNNKPWFV RKASGLFDAI WDAFVAAIKL 430 440 450 460 470 480 VPTTTGVLVR FVKSIASTVL TVSNGVIIMC ADVPDAFQSV YRTFTQAICA AFDFSLDVFK 490 500 510 520 530 540 IGDVKFKRLG DYVLTENALV RLTTEVVRGV RDARIKKAMF TKVVVGPTTE VKFSVIELAT 550 560 570 580 590 600 VNLRLVDCAP VVCPKGKIVV IAGQAFFYSG GFYRFMVDPT TVLNDPVFTG DLFYTIKFSG 610 620 630 640 650 660 FKLDGFNHQF VTASSATDAI IAVELLLLDF KTAVFVYTCV VDGCSVIVRR DATFATHVCF 670 680 690 700 710 720 KDCYNVWEQF CIDNCGEPWF LTDYNAILQS NNPQCAIVQA SESKVLLERF LPKCPEILLS 730 740 750 760 770 780 IDDGHLWNLF VEKFNFVTDW LKTLKLTLTS NGLLGNCAKR FRRVLVKLLD VYNGFLETVC 790 800 810 820 830 840 SVAYTAGVCI KYYAVNVPYV VISGFVSRVI RRERCDMTFP CVSCVTFFYE FLDTCFGVSK 850 860 870 880 890 900 PNAIDVEHLE LKETVFVEPK DGGQFFVSGD YLWYVVDDIY YPASCNGVLP VAFTKLAGGK 910 920 930 940 950 960 ISFSDDVIVH DVEPTHKVKL IFEFEDDVVT SLCKKSFGKS IIYTGDWEGL HEVLTSAMNV 970 980 990 1000 1010 1020 IGQHIKLPQF YIYDEEGGYD VSKPVMISQW PISNDSNGCV VEASTDFHQL ECIVDDSVRE 1030 1040 1050 1060 1070 1080 EVDIIEQPFE EVEHVLSIKQ PFSFSFRDEL GVRVLDQSDN NCWISTTLVQ LQLTKLLDDS 1090 1100 1110 1120 1130 1140 IEMQLFKVGK VDSIVQKCYE LSHLISGSLG DSGKLLSELL KEKYTCSITF EMSCDCGKKF 1150 1160 1170 1180 1190 1200 DDQVGCLFWI MPYTKLFQKG ECCICHKMQT YKLVSMKGTG VFVQDPAPID IDAFPVKPIC 1210 1220 1230 1240 1250 1260 SSVYLGVKGS GHYQTNLYSF NKAIDGFGVF DIKNSSVNTV CFVDVDFHSV EIEAGEVKPF 1270 1280 1290 1300 1310 1320 AVYKNVKFYL GDISHLVNCV SFDFVVNAAN ENLLHGGGVA RAIDILTEGQ LQSLSKDYIS 1330 1340 1350 1360 1370 1380 SNGPLKVGAG VMLECEKFNV FNVVGPRTGK HEHSLLVEAY NSILFENGIP LMPLLSCGIF 1390 1400 1410 1420 1430 1440 GVRIENSLKA LFSCDINKPL QVFVYSSNEE QAVLKFLDGL DLTPVIDDVD VVKPFRVEGN 1450 1460 1470 1480 1490 1500 FSFFDCGVNA LDGDIYLLFT NSILMLDKQG QLLDTKLNGI LQQAALDYLA TVKTVPAGNL 1510 1520 1530 1540 1550 1560 VKLFVESCTI YMCVVPSIND LSFDKNLGRC VRKLNRLKTC VIANVPAIDV LKKLLSSLTL 1570 1580 1590 1600 1610 1620 TVKFVVESNV MDVNDCFKND NVVLKITEDG INVKDVVVES SKSLGKQLGV VSDGVDSFEG 1630 1640 1650 1660 1670 1680 VLPINTDTVL SVAPEVDWVA FYGFEKAALF ASLDVKPYGY PNDFVGGFRV LGTTDNNCWV 1690 1700 1710 1720 1730 1740 NATCIILQYL KPTFKSKGLN VLWNKFVTGD VGPFVSFIYF ITMSSKGQKG DAEEALSKLS 1750 1760 1770 1780 1790 1800 EYLISDSIVT LEQYSTCDIC KSTVVEVKSA IVCASVLKDG CDVGFCPHRH KLRSRVKFVN 1810 1820 1830 1840 1850 1860 GRVVITNVGE PIISQPSKLL NGIAYTTFSG SFDNGHYVVY DAANNAVYDG ARLFSSDLST 1870 1880 1890 1900 1910 1920 LAVTAIVVVG GCVTSNVPTI VSEKISVMDK LDTGAQKFFQ FGDFVMNNIV LFLTWLLSMF 1930 1940 1950 1960 1970 1980 SLLRTSIMKH DIKVIAKAPK RTGVILTRSF KYNIRSALFV IKQKWCVIVT LFKFLLLLYA 1990 2000 2010 2020 2030 2040 IYALVFMIVQ FSPFNSLLCG DIVSGYEKST FNKDIYCGNS MVCKMCLFSY QEFNDLDHTS 2050 2060 2070 2080 2090 2100 LVWKHIRDPI LISLQPFVIL VILLIFGNMY LRFGLLYFVA QFISTFGSFL GFHQKQWFLH 2110 2120 2130 2140 2150 2160 FVPFDVLCNE FLATFIVCKI VLFVRHIIVG CNNADCVACS KSARLKRVPL QTIINGMHKS 2170 2180 2190 2200 2210 2220 FYVNANGGTC FCNKHNFFCV NCDSFGPGNT FINGDIAREL GNVVKTAVQP TAPAYVIIDK 2230 2240 2250 2260 2270 2280 VDFVNGFYRL YSGDTFWRYD FDITESKYSC KEVLKNCNVL ENFIVYNNSG SNITQIKNAC 2290 2300 2310 2320 2330 2340 VYFSQLLCEP IKLVNSELLS TLSVDFNGVL HKAYVDVLCN SFFKELTANM SMAECKATLG 2350 2360 2370 2380 2390 2400 LTVSDDDFVS AVANAHRYDV LLSDLSFNNF FISYAKPEDK LSVYDIACCM RAGSKVVNHN 2410 2420 2430 2440 2450 2460 VLIKESIPIV WGVKDFNTLS QEGKKYLVKT TKAKGLTFLL TFNDNQAITQ VPATSIVAKQ 2470 2480 2490 2500 2510 2520 GAGFKRTYNF LWYVCLFVVA LFIGVSFIDY TTTVTSFHGY DFKYIENGQL KVFEAPLHCV 2530 2540 2550 2560 2570 2580 RNVFDNFNQW HEAKFGVVTT NSDKCPIVVG VSERINVVPG VPTNVYLVGK TLVFTLQAAF 2590 2600 2610 2620 2630 2640 GNTGVCYDFD GVTTSDKCIF NSACTRLEGL GGDNVYCYNT DLIEGSKPYS TLQPNAYYKY 2650 2660 2670 2680 2690 2700 DAKNYVRFPE ILARGFGLRT IRTLATRYCR VGECRDSHKG VCFGFDKWYV NDGRVDDGYI 2710 2720 2730 2740 2750 2760 CGDGLIDLLV NVLSIFSSSF SVVAMSGHML FNFLFAAFIT FLCFLVTKFK RVFGDLSYGV 2770 2780 2790 2800 2810 2820 FTVVCATLIN NISYVVTQNL FFMLLYAILY FVFTRTVRYA WIWHIAYIVA YFLLIPWWLL 2830 2840 2850 2860 2870 2880 TWFSFAAFLE LLPNVFKLKI STQLFEGDKF IGTFESAAAG TFVLDMRSYE RLINTISPEK 2890 2900 2910 2920 2930 2940 LKNYAASYNK YKYYSGSASE ADYRCACYAH LAKAMLDYAK DHNDMLYSPP TISYNSTLQS 2950 2960 2970 2980 2990 3000 GLKKMAQPSG CVERCVVRVC YGSTVLNGVW LGDTVTCPRH VIAPSTTVLI DYDHAYSTMR 3010 3020 3030 3040 3050 3060 LHNFSVSHNG VFLGVVGVTM HGSVLRIKVS QSNVHTPKHV FKTLKPGDSF NILACYEGIA 3070 3080 3090 3100 3110 3120 SGVFGVNLRT NFTIKGSFIN GACGSPGYNV RNDGTVEFCY LHQIELGSGA HVGSDFTGSV 3130 3140 3150 3160 3170 3180 YGNFDDQPSL QVESANLMLS DNVVAFLYAA LLNGCRWWLC STRVNVDGFN EWAMANGYTS 3190 3200 3210 3220 3230 3240 VSSVECYSIL AAKTGVSVEQ LLASIQHLHE GFGGKNILGY SSLCDEFTLA EVVKQMYGVN 3250 3260 3270 3280 3290 3300 LQSGKVIFGL KTMFLFSVFF TMFWAELFIY TNTIWINPVI LTPIFCLLLF LSLVLTMFLK 3310 3320 3330 3340 3350 3360 HKFLFLQVFL LPTVIATALY NCVLDYYIVK FLADHFNYNV SVLQMDVQGL VNVLVCLFVV 3370 3380 3390 3400 3410 3420 FLHTWRFSKE RFTHWFTYVC SLIAVAYTYF YSGDFLSLLV MFLCAISSDW YIGAIVFRLS 3430 3440 3450 3460 3470 3480 RLIVFFSPES VFSVFGDVKL TLVVYLICGY LVCTYWGILY WFNRFFKCTM GVYDFKVSAA 3490 3500 3510 3520 3530 3540 EFKYMVANGL HAPHGPFDAL WLSFKLLGIG GDRCIKISTV QSKLTDLKCT NVVLLGCLSS 3550 3560 3570 3580 3590 3600 MNIAANSSEW AYCVDLHNKI NLCDDPEKAQ SMLLALLAFF LSKHSDFGLD GLIDSYFDNS 3610 3620 3630 3640 3650 3660 STLQSVASSF VSMPSYIAYE NARQAYEDAI ANGSSSQLIK QLKRAMNIAK SEFDHEISVQ 3670 3680 3690 3700 3710 3720 KKINRMAEQA ATQMYKEARS VNRKSKVISA MHSLLFGMLR RLDMSSVETV LNLARDGVVP 3730 3740 3750 3760 3770 3780 LSVIPATSAS KLTIVSPDLE SYSKIVCDGS VHYAGVVWTL NDVKDNDGRP VHVKEITKEN 3790 3800 3810 3820 3830 3840 VETLTWPLIL NCERVVKLQN NEIMPGKLKQ KPMKAEGDGG VLGDGNALYN TEGGKTFMYA 3850 3860 3870 3880 3890 3900 YISNKADLKF VKWEYEGGCN TIELDSPCRF MVETPNGPQV KYLYFVKNLN TLRRGAVLGF 3910 3920 3930 3940 3950 3960 IGATIRLQAG KQTELAVNSG LLTACAFSVD PATTYLEAVK HGAKPVSNCI KMLSNGAGNG 3970 3980 3990 4000 4010 4020 QAITTSVDAN TNQDSYGGAS ICLYCRAHVP HPSMDGYCKF KGKCVQVPIG CLDPIRFCLE 4030 4040 4050 4060 4070 4080 NNVCNVCGCW LGHGCACDRT TIQSVDISYL NRARGSSAAR LEPCNGTDID KCVRAFDIYN 4090 4100 4110 4120 4130 4140 KNVSFLGKCL KMNCVRFKNA DLKDGYFVIK RCTKSVMEHE QSMYNLLNFS GALAEHDFFT 4150 4160 4170 4180 4190 4200 WKDGRVIYGN VSRHNLTKYT MMDLVYAMRN FDEQNCDVLK EVLVLTGCCD NSYFDSKGWY 4210 4220 4230 4240 4250 4260 DPVENEDIHR VYASLGKIVA RAMLKCVALC DAMVAKGVVG VLTLDNQDLN GNFYDFGDFV 4270 4280 4290 4300 4310 4320 VSLPNMGVPC CTSYYSYMMP IMGLTNCLAS ECFVKSDIFG SDFKTFDLLK YDFTEHKENL 4330 4340 4350 4360 4370 4380 FNKYFKHWSF DYHPNCSDCY DDMCVIHCAN FNTLFATTIP GTAFGPLCRK VFIDGVPLVT 4390 4400 4410 4420 4430 4440 TAGYHFKQLG LVWNKDVNTH SVRLTITELL QFVTDPSLII ASSPALVDQR TICFSVAALS 4450 4460 4470 4480 4490 4500 TGLTNQVVKP GHFNEEFYNF LRLRGFFDEG SELTLKHFFF AQNGDAAVKD FDFYRYNKPT 4510 4520 4530 4540 4550 4560 ILDICQARVT YKIVSRYFDI YEGGCIKACE VVVTNLNKSA GWPLNKFGKA SLYYESISYE 4570 4580 4590 4600 4610 4620 EQDALFALTK RNVLPTMTQL NLKYAISGKE RARTVGGVSL LSTMTTRQYH QKHLKSIVNT 4630 4640 4650 4660 4670 4680 RNATVVIGTT KFYGGWNNML RTLIDGVENP MLMGWDYPKC DRALPNMIRM ISAMVLGSKH 4690 4700 4710 4720 4730 4740 VNCCTATDRF YRLGNELAQV LTEVVYSNGG FYFKPGGTTS GDASTAYANS IFNIFQAVSS 4750 4760 4770 4780 4790 4800 NINRLLSVPS DSCNNVNVRD LQRRLYDNCY RLTSVEESFI DDYYGYLRKH FSMMILSDDG 4810 4820 4830 4840 4850 4860 VVCYNKDYAE LGYIADISAF KATLYYQNNV FMSTSKCWVE EDLTKGPHEF CSQHTMQIVD 4870 4880 4890 4900 4910 4920 KDGTYYLPYP DPSRILSAGV FVDDVVKTDA VVLLERYVSL AIDAYPLSKH PNSEYRKVFY 4930 4940 4950 4960 4970 4980 VLLDWVKHLN KNLNEGVLES FSVTLLDNQE DKFWCEDFYA SMYENSTILQ AAGLCVVCGS 4990 5000 5010 5020 5030 5040 QTVLRCGDCL RKPMLCTKCA YDHVFGTDHK FILAITPYVC NASGCGVSDV KKLYLGGLNY 5050 5060 5070 5080 5090 5100 YCTNHKPQLS FPLCSAGNIF GLYKNSATGS LDVEVFNRLA TSDWTDVRDY KLANDVKDTL 5110 5120 5130 5140 5150 5160 RLFAAETIKA KEESVKSSYA FATLKEVVGP KELLLSWESG KVKPPLNRNS VFTCFQISKD 5170 5180 5190 5200 5210 5220 SKFQIGEFIF EKVEYGSDTV TYKSTVTTKL VPGMIFVLTS HNVQPLRAPT IANQEKYSSI 5230 5240 5250 5260 5270 5280 YKLHPAFNVS DAYANLVPYY QLIGKQKITT IQGPPGSGKS HCSIGLGLYY PGARIVFVAC 5290 5300 5310 5320 5330 5340 AHAAVDSLCA KAMTVYSIDK CTRIIPARAR VECYSGFKPN NTSAQYIFST VNALPECNAD 5350 5360 5370 5380 5390 5400 IVVVDEVSMC TNYDLSVINQ RLSYKHIVYV GDPQQLPAPR VMITKGVMEP VDYNVVTQRM 5410 5420 5430 5440 5450 5460 CAIGPDVFLH KCYRCPAEIV NTVSELVYEN KFVPVKPASK QCFKVFFKGN VQVDNGSSIN 5470 5480 5490 5500 5510 5520 RKQLEIVKLF LVKNPSWSKA VFISPYNSQN YVASRFLGLQ IQTVDSSQGS EYDYVIYAQT 5530 5540 5550 5560 5570 5580 SDTAHACNVN RFNVAITRAK KGIFCVMCDK TLFDSLKFFE IKHADLHSSQ VCGLFKNCTR 5590 5600 5610 5620 5630 5640 TPLNLPPTHA HTFLSLSDQF KTTGDLAVQI GSNNVCTYEH VISFMGFRFD ISIPGSHSLF 5650 5660 5670 5680 5690 5700 CTRDFAIRNV RGWLGMDVES AHVCGDNIGT NVPLQVGFSN GVNFVVQTEG CVSTNFGDVI 5710 5720 5730 5740 5750 5760 KPVCAKSPPG EQFRHLIPLL RKGQPWLIVR RRIVQMISDY LSNLSDILVF VLWAGSLELT 5770 5780 5790 5800 5810 5820 TMRYFVKIGP IKYCYCGNSA TCYNSVSNEY CCFKHALGCD YVYNPYAFDI QQWGYVGSLS 5830 5840 5850 5860 5870 5880 QNHHTFCNIH RNEHDASGDA VMTRCLAVHD CFVKNVDWTV TYPFIANEKF INGCGRNVQG 5890 5900 5910 5920 5930 5940 HVVRAALKLY KPSVIHDIGN PKGVRCAVTD AKWYCYDKQP VNSNVKLLDY DYATHGQLDG 5950 5960 5970 5980 5990 6000 LCLFWNCNVD MYPEFSIVCR FDTRTRSVFN LEGVNGGSLY VNKHAFHTPA YDKRAFVKLK 6010 6020 6030 6040 6050 6060 PMPFFYFDDS DCDVVQEQVN YVPLRASSCV TRCNIGGAVC SKHANLYQKY VEAYNTFTQA 6070 6080 6090 6100 6110 6120 GFNIWVPHSF DVYNLWQIFI ETNLQSLENI AFNVVKKGCF TGVDGELPVA VVNDKVFVRY 6130 6140 6150 6160 6170 6180 GDVDNLVFTN KTTLPTNVAF ELFAKRKMGL TPPLSILKNL GVVATYKFVL WDYEAERPFT 6190 6200 6210 6220 6230 6240 SYTKSVCKYT DFNEDVCVCF DNSIQGSYER FTLTTNAVLF STVVIKNLTP IKLNFGMLNG 6250 6260 6270 6280 6290 6300 MPVSSIKGDK GVEKLVNWYI YVRKNGQFQD HYDGFYTQGR NLSDFTPRSD MEYDFLNMDM 6310 6320 6330 6340 6350 6360 GVFINKYGLE DFNFEHVVYG DVSKTTLGGL HLLISQFRLS KMGVLKADDF VTASDTTLRC 6370 6380 6390 6400 6410 6420 CTVTYLNELS SKVVCTYMDL LLDDFVTILK SLDLGVISKV HEVIIDNKPY RWMLWCKDNH 6430 6440 6450 6460 6470 6480 LSTFYPQLQS AEWKCGYAMP QIYKLQRMCL EPCNLYNYGA GIKLPSGIML NVVKYTQLCQ 6490 6500 6510 6520 6530 6540 YLNSTTMCVP HNMRVLHYGA GSDKGVAPGT TVLKRWLPPD AIIIDNDIND YVSDADFSIT 6550 6560 6570 6580 6590 6600 GDCATVYLED KFDLLISDMY DGRIKFCDGE NVSKDGFFTY LNGVIREKLA IGGSVAIKIT 6610 6620 6630 6640 6650 6660 EYSWNKYLYE LIQRFAFWTL FCTSVNTSSS EAFLIGINYL GDFIQGPFIA GNTVHANYIF 6670 6680 6690 6700 6710 6720 WRNSTIMSLS YNSVLDLSKF ECKHKATVVV TLKDSDVNDM VLSLIKSGRL LLRNNGRFGG FSNHLVSTK
	Isoform Replicase polyprotein 1a (pp1a) (ORF1a polyprotein) [UniParc]. See P0C6U6.		–	–

References

[1]	"Identification of a new human coronavirus." Van Der Hoek L., Pyrc K., Jebbink M.F., Vermeulen-Oost W., Berkhout R.J., Wolthers K.C., Wertheim-Van Dillen P.M., Kaandorp J., Spaargaren J., Berkhout B. Nat. Med. 10:368-373(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA]. Strain: Isolate Amsterdam I.
[2]	"Deubiquitinating and interferon antagonism activities of coronavirus papain-like proteases." Clementz M.A., Chen Z., Banach B.S., Wang Y., Sun L., Ratia K., Baez-Santos Y.M., Wang J., Takayama J., Ghosh A.K., Li K., Mesecar A.D., Baker S.C. J. Virol. 84:4619-4629(2010) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AY567487 Genomic RNA. Translation: AAS58176.2.
RefSeq	YP_003766.2. NC_005831.2.
3D structure databases
ProteinModelPortal	P0C6X5.
SMR	P0C6X5. Positions 2940-3240, 3802-3907, 3915-4039.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	2943501.
Family and domain databases
InterPro	IPR027351. (+)RNA_virus_helicase_core_dom. IPR002589. A1pp. IPR009461. Coronavirus_NSP13. IPR027352. CV_MBD_dom. IPR009466. NSP11. IPR014828. NSP7. IPR014829. NSP8. IPR014822. NSP9. IPR011050. Pectin_lyase_fold/virulence. 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. PF01661. Macro. 1 hit. PF09401. NSP10. 1 hit. PF06471. NSP11. 1 hit. PF06460. NSP13. 1 hit. PF08716. nsp7. 1 hit. PF08717. nsp8. 1 hit. PF08710. nsp9. 1 hit. PF05409. Peptidase_C30. 1 hit. PF00680. RdRP_1. 1 hit. PF08715. Viral_protease. 2 hits. [Graphical view]
SMART	SM00506. A1pp. 1 hit. [Graphical view]
SUPFAM	SSF101816. Nsp9. 1 hit. SSF51126. Pectin_lyas_like. 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_CVHNL

Accession

Primary (citable) accession number: P0C6X5
Secondary accession number(s): Q6Q1S3

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 10, 2008
Last sequence update:	June 10, 2008
Last modified:	May 1, 2013
This is version 42 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program