P0C6W6 (R1AB_BCRP3) 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):
   Leader protein
2. Non-structural protein 2
   Short name=nsp2
   Alternative name(s):
   p65 homolog
3. Non-structural protein 3
   Short name=nsp3
   EC=3.4.19.12
   EC=3.4.22.69
   Alternative name(s):
   PL2-PRO
   Papain-like proteinase
   Short name=PL-PRO
4. Non-structural protein 4
   Short name=nsp4
5. 3C-like proteinase
   Short name=3CL-PRO
   Short name=3CLp
   EC=3.4.22.-
   Alternative name(s):
   nsp5
6. Non-structural protein 6
   Short name=nsp6
7. Non-structural protein 7
   Short name=nsp7
8. Non-structural protein 8
   Short name=nsp8
9. Non-structural protein 9
   Short name=nsp9
10. Non-structural protein 10
    Short name=nsp10
    Alternative name(s):
    Growth factor-like peptide
    Short name=GFL
11. RNA-directed RNA polymerase
    Short name=Pol
    Short name=RdRp
    EC=2.7.7.48
    Alternative name(s):
    nsp12
12. Helicase
    Short name=Hel
    EC=3.6.4.12
    EC=3.6.4.13
    Alternative name(s):
    nsp13
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
15. Putative 2'-O-methyl transferase
    EC=2.1.1.-
    Alternative name(s):
    nsp16

Gene names

Name:	rep
ORF Names:	1a-1b

Organism

Bat coronavirus Rp3/2004 (BtCoV/Rp3/2004) (SARS-like coronavirus Rp3) [Complete proteome]

Taxonomic identifier

349344 [NCBI]

Taxonomic lineage

Viruses › ssRNA viruses › ssRNA positive-strand viruses, no DNA stage › Nidovirales › Coronaviridae › Coronavirinae › Betacoronavirus › Severe acute respiratory syndrome-related coronavirus › Human SARS coronavirus

Virus host

Rhinolophus ferrumequinum (Greater horseshoe bat) [TaxID: 59479]
Rhinolophus macrotis (Big-eared horseshoe bat) [TaxID: 196889]
Rhinolophus pearsonii [TaxID: 188571]
Rhinolophus sinicus [TaxID: 89399]

Protein attributes

Sequence length	7071 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 By similarity. The papain-like proteinase (PL-PRO) is responsible for the cleavages located at the N-terminus of 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. 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. Its ATPase activity is strongly stimulated by poly(U), poly(dT), poly(C), poly(dA), but not by poly(G). Activity of helicase is dependent on magnesium 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 By similarity.
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	Bat coronavirus rp3 is highly similar to SARS-CoV (SARS-like).
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 1 peptidase C16 domain. Contains 1 peptidase C30 domain. Contains 1 RdRp catalytic domain.
Sequence caution	The sequence AAZ67050.1 differs from that shown. Reason: Erroneous gene model prediction. The sequence AAZ67051.1 differs from that shown. Reason: Erroneous gene model prediction.

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 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
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: P0C6W6-1)

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: P0C6T7-1)

Also known as: pp1a; ORF1a polyprotein;

The sequence of this isoform can be found in the external entry P0C6T7.
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 – 179	179	Non-structural protein 1 By similarity		PRO_0000043079
	Chain	180 – 818	639	Non-structural protein 2 By similarity		PRO_0000043080
	Chain	819 – 2738	1920	Non-structural protein 3 By similarity		PRO_0000043081
	Chain	2739 – 3238	500	Non-structural protein 4 By similarity		PRO_0000283840
	Chain	3239 – 3544	306	3C-like proteinase By similarity		PRO_0000043082
	Chain	3545 – 3834	290	Non-structural protein 6 By similarity		PRO_0000043083
	Chain	3835 – 3917	83	Non-structural protein 7 By similarity		PRO_0000043084
	Chain	3918 – 4115	198	Non-structural protein 8 By similarity		PRO_0000043085
	Chain	4116 – 4228	113	Non-structural protein 9 By similarity		PRO_0000043086
	Chain	4229 – 4367	139	Non-structural protein 10 By similarity		PRO_0000043087
	Chain	4368 – 5299	932	RNA-directed RNA polymerase By similarity		PRO_0000043088
	Chain	5300 – 5900	601	Helicase By similarity		PRO_0000043089
	Chain	5901 – 6427	527	Exoribonuclease By similarity		PRO_0000043090
	Chain	6428 – 6773	346	Uridylate-specific endoribonuclease By similarity		PRO_0000043091
	Chain	6774 – 7071	298	Putative 2'-O-methyl transferase By similarity		PRO_0000043092
Regions
	Transmembrane	2201 – 2221	21	Helical; Potential
	Transmembrane	2312 – 2334	23	Helical; Potential
	Transmembrane	2349 – 2369	21	Helical; Potential
	Transmembrane	2753 – 2773	21	Helical; Potential
	Transmembrane	3020 – 3040	21	Helical; Potential
	Transmembrane	3059 – 3079	21	Helical; Potential
	Transmembrane	3081 – 3101	21	Helical; Potential
	Transmembrane	3103 – 3123	21	Helical; Potential
	Transmembrane	3140 – 3160	21	Helical; Potential
	Transmembrane	3562 – 3582	21	Helical; Potential
	Transmembrane	3584 – 3604	21	Helical; Potential
	Transmembrane	3610 – 3630	21	Helical; Potential
	Transmembrane	3657 – 3676	20	Helical; Potential
	Transmembrane	3683 – 3702	20	Helical; Potential
	Transmembrane	3726 – 3746	21	Helical; Potential
	Transmembrane	3754 – 3774	21	Helical; Potential
	Domain	1001 – 1167	167	Macro
	Domain	1609 – 1873	265	Peptidase C16
	Domain	3239 – 3544	306	Peptidase C30
	Domain	4979 – 5141	163	RdRp catalytic
	Domain	5300 – 5383	84	CV MBD
	Domain	5556 – 5737	182	(+)RNA virus helicase ATP-binding
	Domain	5738 – 5907	170	(+)RNA virus helicase C-terminal
	Zinc finger	1727 – 1764	38	C4-type By similarity
	Zinc finger	4302 – 4318	17	By similarity
	Zinc finger	4345 – 4358	14	By similarity
	Nucleotide binding	5581 – 5588	8	ATP By similarity
	Region	2201 – 2369	169	HD1 By similarity
	Region	2753 – 3160	408	HD2 By similarity
	Region	3562 – 3774	213	HD3 By similarity
	Compositional bias	930 – 999	70	Glu-rich
	Compositional bias	2208 – 2211	4	Poly-Leu
	Compositional bias	3764 – 3767	4	Poly-Cys
Sites
	Active site	1649	1	For PL-PRO activity By similarity
	Active site	1810	1	For PL-PRO activity By similarity
	Active site	3279	1	For 3CL-PRO activity By similarity
	Active site	3383	1	For 3CL-PRO activity By similarity
	Site	179 – 180	2	Cleavage By similarity
	Site	818 – 819	2	Cleavage; by PL-PRO By similarity
	Site	3238 – 3239	2	Cleavage; by PL-PRO By similarity
	Site	3544 – 3545	2	Cleavage; by 3CL-PRO By similarity
	Site	3834 – 3835	2	Cleavage; by 3CL-PRO By similarity
	Site	3917 – 3918	2	Cleavage; by 3CL-PRO By similarity
	Site	4115 – 4116	2	Cleavage; by 3CL-PRO By similarity
	Site	4228 – 4229	2	Cleavage; by 3CL-PRO By similarity
	Site	4367 – 4368	2	Cleavage; by 3CL-PRO By similarity
	Site	5299 – 5300	2	Cleavage; by 3CL-PRO By similarity
	Site	5900 – 5901	2	Cleavage; by 3CL-PRO By similarity
	Site	6427 – 6428	2	Cleavage; by 3CL-PRO By similarity
	Site	6773 – 6774	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: 711112FAF32354AB	FASTA	7,071	790,103
	10 20 30 40 50 60 MESLVLGINE KTHVQLSLPV LQVRDVLVRG FGDSVEEALS EAREHLKSGT CGIVELEKGV 70 80 90 100 110 120 LPQPEQPYVF IKRSDAQGTD HGHRVRELVA ELDGVQYGRS GITLGVLVPH VGETPIAYRN 130 140 150 160 170 180 VLLRKNGNKG AGGHSFGIDL KSYDLGDELG TDPIEDYEQN WNTKHGSGVL RELTRELNGG 190 200 210 220 230 240 ALTRYVDNNF CGPDGYPLEC IKDLLARAGK SMCTLSEQLD YIESKRGVYC CRDHGHEIAW 250 260 270 280 290 300 FTERSDKSYE HQTPFEIKSA KKFDTFKGEC PKFVFPLNSK VKVIQPRVEK KKTEGFMGRI 310 320 330 340 350 360 RSVYPVATPQ ECNNMHLSTL MKCNHCDEVS WQTCDFLKAT CEQCGTENLV SEGPNTCGYL 370 380 390 400 410 420 PTNAVVKMPC PACQDPEIGP EHSAADYHNH SNIETRLRKG GRTRCFGGCV FAYVGCYNKR 430 440 450 460 470 480 AYWVPRASAD IGSGHTGITG DNVETLNEDL LEILSRERVN INIVGDFQLN EEVAIILASF 490 500 510 520 530 540 SASTSAFIDT IKSLDYKSFK TIVESCGNYK VTKGKPIKGA WNIGQHRSVL TPLCGFPSQA 550 560 570 580 590 600 AGVIRSIFSR TLDAANHSIP DLQRAAVTIL DSISEQSLRL VDAMVYTSNL LTNSVIIMAY 610 620 630 640 650 660 VTGGLVQQTS QWLSNLLDTT VEKLRPIFAW IEAKLSAGVE FLKDAWEILK FLITGVFDIV 670 680 690 700 710 720 KGQIQVASDN IKDCVKCFVD VVNKALEMCI DQVTIAGAKL RSLNLGEVFI AQSKGLYRQC 730 740 750 760 770 780 IRGKEQLQLL MPLKAPKEVT FLEGDSHDTV LTSEEVVLKN GELEALETPV DSFTNGAVVG 790 800 810 820 830 840 TPVCINGLML LEIKANEQYC ALSPGLLATN NVFRLKGGAP TKGVTFGEDT VVEVQGYKNV 850 860 870 880 890 900 RITFELDERV DKVLNEKCSV YTVESGTEVT EFACVVAEAV VKTLQPVSDL LTNMGIDLDE 910 920 930 940 950 960 WSVATFYLFD DSGEEKLSSR MYCSFYPPDE EEDCEEYEEE EEVSERTCEH EYGTEEDYKG 970 980 990 1000 1010 1020 LPLEFGASTD IIQVEEQEEE DWLDDAVEAE PEPEPLHEEP VNQLTGYLKL TDNVAIKCVD 1030 1040 1050 1060 1070 1080 IVEEAQNANP MVIVNAANIH LKHGGGVAGA LNKATNGAMQ KESDHYIKLN GPLTVGGSCL 1090 1100 1110 1120 1130 1140 LSGHNLAKKC LHVVGPNLNA GEDIQLLKAA YENFNSQDIL LAPLLSAGIF GAKPLQSLQM 1150 1160 1170 1180 1190 1200 CVQTVRTQVY IVVNDKVLYE QVVMDYLDSL KPKVEAPKQE VLPKAEYPKV DEKSVVQKTI 1210 1220 1230 1240 1250 1260 DVKPKIKACI DEVTTTLEET KFLTNKLLLF TDINGKLYQD SKNMLRGEDM SFLEKDAPYM 1270 1280 1290 1300 1310 1320 VGDVITSGDI TCVVIPSKKA GGTTEMLSRA LKKVPINEYI TTYPGQGCAG YTLEEAKTAL 1330 1340 1350 1360 1370 1380 KKCKSAFYVL PSETPNAKEE ILGTVSWNLR EMLAHAEETR KLMPVCMDVR AIMATIQRKY 1390 1400 1410 1420 1430 1440 KGIKIQEGIV DYGVRFFFYT SKEPVASIIT KLNSLNEPLV TMPIGYVTHG FNLEEAARCM 1450 1460 1470 1480 1490 1500 RSLKAPAIVS VSSPDAVTTY NGYLTSSSKT SEDHFVETVS LAGSYRDWSY SGQRTELGVE 1510 1520 1530 1540 1550 1560 FLKRGEKIVY HTLESPVKFH LDGEVLPLDK LKSLLSLREV KTIKVFTTVD NTNLHTQLVD 1570 1580 1590 1600 1610 1620 MSMTYGQQLG PTYLEGADVT KIKPHVNHEG KTFFVLPSDD TLRSEAFEYY HTLDESFLGR 1630 1640 1650 1660 1670 1680 YMSALNHTKK WKFPQVGGLT SIKWADNNCY LSSVLLALQQ IEVKFNAPAL QEAYYRARAG 1690 1700 1710 1720 1730 1740 DAANFCALIL AYSNKTVGEL GDVRETMTHL LQHANLESAK RVLNVVCKHC GQKTTTLTGV 1750 1760 1770 1780 1790 1800 EAVMYMGTLS YDNLKMGVSI PCVCGRDATQ YLVQQESSFV MMSAPPAEYK LQQGTFLCAN 1810 1820 1830 1840 1850 1860 EYTGNYQCGH YTHITAKETL YRIDGAHLTK MSEYKGPVTD VFYKETSYTT TIKPVSYKLD 1870 1880 1890 1900 1910 1920 GVTYTEIEPK LDGYYKKDNA YYTEQPIDLI PTQPLPNASF DNFKLTCSNT KFADDLNQMT 1930 1940 1950 1960 1970 1980 GFTKPASREL SVTFFPDLNG DVVAIDYRHY SASFKKGAKL LHKPIVWHIN QATTKTTFKP 1990 2000 2010 2020 2030 2040 NTWCLRCLWS TKPVDTSNSF EVLAVEDTQG MDNLACESQQ PTPEEVVENP TIQKEVIECD 2050 2060 2070 2080 2090 2100 VKTTEVVGNV ILKPSDEGVK VTQELDHEDL MAAYVENTSI TIKKPNELSL ALGLKTIATH 2110 2120 2130 2140 2150 2160 GIAAINSVPW GKILAYVKPF LGQAAVTTSN CAKRLVQRMF NNYMPYVLTL LFQLCTFTKS 2170 2180 2190 2200 2210 2220 TNSRIRASLP TTIAKNSVRG IVRLCLDAGI NYVKSPKFSK LFTIAMWLLL LSICLGSLIY 2230 2240 2250 2260 2270 2280 VTAALGVLLS NFGAPSYCSG VRESYLNSSN VTTMDFCEGS FPCSVCLSGL DSLDSYPALE 2290 2300 2310 2320 2330 2340 TIQVTISSYK LDLTILGLAA EWFFAYMLFT KFFYLLGLSA IMQVFFGYFA SHFISNSWLM 2350 2360 2370 2380 2390 2400 WFIISIVQMA PVSAMVRMYI FFASFYYIWK SYVHIMDGCT SSTCMMCYKR NRATRVECTT 2410 2420 2430 2440 2450 2460 IVNGMKRSFY VYANGGRGFC KTHNWNCLNC DTFCAGSTFI SDEVARDLSL QFKRPINPTD 2470 2480 2490 2500 2510 2520 QSSYVVDSVA VKNGALHLYF DKAGQKTYER HPLSHFVNLD NLRANNTKGS LPINVIVFDG 2530 2540 2550 2560 2570 2580 KSKCDESAAK SASVYYSQLM CQPILLLDQA LVSDVGDSTE VSVKMFDAYV DTFSATFSVP 2590 2600 2610 2620 2630 2640 MEKLKALVAT AHSELAKGVA LDGVLSTFVS ASRQGVVDTD VDTKDVIECL KLSHHSDLEV 2650 2660 2670 2680 2690 2700 TGDSCNNFML TYNKVENMTP RDLGACIDCN ARHINAQVAR SHNVSLIWNV KDYMSLSEQL 2710 2720 2730 2740 2750 2760 RKQIRSAAKK NNIPFRLTCA TTRQVVNVIT TKISLKGGKI VSTWFKIMLK ATLLCVLAAL 2770 2780 2790 2800 2810 2820 VCYIVMPVHI LSVHGGYTNE IIGYKAIQDG VTRDIVSTDD CFANKHAGFD SWFSQRGGSY 2830 2840 2850 2860 2870 2880 KNDKSCPVVA AIITREIGFI VPGLPGTVLR AINGDFLHFL PRVFSAVGNI CYTPSKLIEY 2890 2900 2910 2920 2930 2940 SDFSTSACVL AAECTIFKDA MGKPVPYCYD TNLLEGSISY SELRPDTRYV LMDGSIIQFP 2950 2960 2970 2980 2990 3000 NAYLEGSVRV VTTFDAEYCR HGTCERSEAG ICLSTSGRWV LNNEHYRALP GVFCGVDAMN 3010 3020 3030 3040 3050 3060 LIANIFTPLV QPVGALDVSA SVVAGGIIAI LVTCAAYYFM KFRRAFGEYN HVVAANAPLF 3070 3080 3090 3100 3110 3120 LMSFTILCLA PAYSFLPGVY SVFYLYLTFY FTNDVSFLAH LQWFAMFSPI VPFWITAIYV 3130 3140 3150 3160 3170 3180 FCISLKHFHW FFNNYLRKRV VFNGVTFSTF EEAALCTFLL NKEMYLKLRS ETLLPLTQYN 3190 3200 3210 3220 3230 3240 RYLALYNKYK YFSGALDTTS YREAACCHLA KALNDFSNSG ADVLYQPPQT SITSAVLQSG 3250 3260 3270 3280 3290 3300 FRKMAFPSGK VEGCMVQVTC GTTTLNGLWL DDTVYCPRHV ICTAEDMLNP NYEDLLIRKS 3310 3320 3330 3340 3350 3360 NHSFLVQAGN VQLRVIGHSM QNCLLRLKVD TSNPKTPKYK FVRIQPGQTF SVLACYNGSP 3370 3380 3390 3400 3410 3420 SGVYQCAMRP NHTIKGSFLN GSCGSVGFNI DYDCVSFCYM HHMELPTEVH AGTDLEGKFY 3430 3440 3450 3460 3470 3480 GPFVDRQTAQ AAGTDTTITL NVLAWLYAAV INGDRWFLNR FTTTLNDFNL VAMKYNYEPL 3490 3500 3510 3520 3530 3540 TQDHVDILGP LSAQTGIAVL DMCAALKELL QNGMNGRTIL GSTILEDEFT PFDVVRQCSG 3550 3560 3570 3580 3590 3600 VTFQGKFKRI VKGTHHWMLL TFLTSLLILV QSTQWSLFFF VYENAFLPFT LGIMAVAACA 3610 3620 3630 3640 3650 3660 MLLVKHKHAF LCLFLLPSLA TVAYFNMVYM PASWVMRIMT WLELADTSLS GYRLKDCVMY 3670 3680 3690 3700 3710 3720 ASALVLLVLM TARTVYDDAA RRVWTLMNVI TLVYKVYYGN ALDQAISMWA LVISVTSNYS 3730 3740 3750 3760 3770 3780 GVVTTIMFLA RAIVFVCVEY YPLLFITGNT LQCIMLVYCF LGYCCCCYFG LFCLLNRYFR 3790 3800 3810 3820 3830 3840 LTLGVYDYLV STQEFRYMNS QGLLPPKSSI DAFKLNIKLL GIGGKPCIKV ATVQSKMSDV 3850 3860 3870 3880 3890 3900 KCTSVVLLSV LQQLRVESSS KLWAQCVQLH NDILLAKDTT EAFEKMVSLL SVLLSMQGAV 3910 3920 3930 3940 3950 3960 DINKLCEEML DNRATLQAIA SEFSSLPSYA AYATAQEAYE QAVANGDSEV VLKKLKKSLN 3970 3980 3990 4000 4010 4020 VAKSEFDRNA AMQRKLEKMA DQAMTQMYKQ ARSEDKRAKV TSAMQTMLFT MLRKLDNDAL 4030 4040 4050 4060 4070 4080 NNIINNARDG CVPLNIIPLT TAAKLMVVVP DYGTYKNTCD GNTFTYASAL WEIQQVVDAD 4090 4100 4110 4120 4130 4140 SKIVQLSEIN MENSSNLAWP LIVTALRANS AVKLQNNELS PVALRQMSCA AGTTQTACTD 4150 4160 4170 4180 4190 4200 DNALAYYNNS KGGRFVLALL SDHQDLKWAR FPKSDGTGTI YTELEPPCRF VTDTPKGPKV 4210 4220 4230 4240 4250 4260 KYLHFIKGLN NLNRGMVLGS LAATVRLQAG NATEVPANST VLSFCAFAVD PAKAYKDYLA 4270 4280 4290 4300 4310 4320 SGGQPITNCV KMLCTHTGTG QAITVTPEAN MDQESFGGAS CCLYCRCHID HPNPKGFCDL 4330 4340 4350 4360 4370 4380 KGKYVQIPTT CANDPVGFTL RNTVCTVCGM WKGYGCSCDQ LREPMMQSAD ASTFLNRVCG 4390 4400 4410 4420 4430 4440 VSAARLTPCG TGISTDVVYR AFDIYNEKVA GFAKFLKTNC CRFQEKDEEG NLLDSYFVVK 4450 4460 4470 4480 4490 4500 RHTMSNYQHE ETIYNLVKDC PAVAVHDFFK FRVDGDMVPH ISRQRLTKYT MADLVYALRH 4510 4520 4530 4540 4550 4560 FDEGNCDTLK EILVTYNCCD DDYFNKKDWY DFVENPDILR VYANLGERVR QALLKTVQFC 4570 4580 4590 4600 4610 4620 DAMRDAGIVG VLTLDNQDLN GNWYDFGDFV QVAPGCGVPI VDSYYSLLMP ILTLTRALAA 4630 4640 4650 4660 4670 4680 ESHMDADLAK PLIKWDLLKY DFTAERLCLF DRYFKYWDQT YHPNCINCLD DRCILHCANF 4690 4700 4710 4720 4730 4740 NVLFSTVFPP TSFGPLVRKI FVDGVPFVVS TGYHFRELGV VHNQDVNLHS SRLSFKELLV 4750 4760 4770 4780 4790 4800 YAADPAMHAA SGNLLLDKRT TCFSVAALTN NVAFQTVKPG NFNKDFYDFA VSKGFFKEGS 4810 4820 4830 4840 4850 4860 SVELKHFFFA QDGNAAISDY DYYRYNLPTM CDIRQLLFVV EVVDKYFDCY DGGCINANQV 4870 4880 4890 4900 4910 4920 IVNNLDKSAG FPFNKWGKAR LYYDSMSYED QDALFAYTKR NVIPTITQMN LKYAISAKNR 4930 4940 4950 4960 4970 4980 ARTVAGVSIC STMTNRQFHQ KLLKSIAATR GATVVIGTSK FYGGWHNMLK TVYSDVETPH 4990 5000 5010 5020 5030 5040 LMGWDYPKCD RAMPNMLRIM ASLVLARKHS TCCNLSHRFY RLANECAQVL SEMVMCGGSL 5050 5060 5070 5080 5090 5100 YVKPGGTSSG DATTAYANSV FNICQAVTAN VNALLSTDGN KIADKYVRNL QHRLYECLYR 5110 5120 5130 5140 5150 5160 NRDVDHEFVG EFYAYLRKHF SMMILSDDAV VCYNSNYAAQ GLVASIKNFK AVLYYQNNVF 5170 5180 5190 5200 5210 5220 MSEAKCWTET DLTKGPHEFC SQHTMLVKQG DDYVYLPYPD PSRILGAGCF VDDIVKTDGT 5230 5240 5250 5260 5270 5280 LMIERFVSLA IDAYPLTKHP NQEYADVFHL YLQYIRKLHD ELTGHMLDMY SVMLTNDNTS 5290 5300 5310 5320 5330 5340 RYWEPEFYEA MYTPHTVLQA VGACVLCNSQ TSLRCGACIR RPFLCCKCCY DHVISTSHKL 5350 5360 5370 5380 5390 5400 VLSVNPYVCN APGCDVTDVT QLYLGGMSYY CKSHKPPISF PLCANGQVFG LYKNTCVGSD 5410 5420 5430 5440 5450 5460 NVTDFNAIAT CDWTNAGDYI LANTCTERLK LFAAETLKAT EETFKLSYGI ATVREVLSDR 5470 5480 5490 5500 5510 5520 ELHLSWEVGK PRPPLNRNYV FTGYRVTKNS KVQIGEYTFE KGDYGDAVVY RGTTTYKLNI 5530 5540 5550 5560 5570 5580 GDYFVLTSHT VMPLSAPTLV PQEHYVRITG LYPTLNISDE FSSNVANYQK VGMQKYSTLQ 5590 5600 5610 5620 5630 5640 GPPGTGKSHF AIGLALYYPS ARIVYTACSH AAVDALCEKA LKYLPIDKCS RIIPARARVE 5650 5660 5670 5680 5690 5700 CFDKFKVNST LEQYVFCTVN ALPETTADIV VFDEISMATN YDLSVVNARL RAKHYVYIGD 5710 5720 5730 5740 5750 5760 PAQLPAPRTL LTKGTLEPEY FNSVCRLMKT IGPDMFLGTC RRCPAEIVDT VSALVYDNKL 5770 5780 5790 5800 5810 5820 KAHKEKSAQC FKMFYKGVIT HDVSSAINRP QIGVVREFLT RNPAWRKAVF ISPYNSQNAV 5830 5840 5850 5860 5870 5880 ASKILGLPTQ TVDSSQGSEY DYVIFTQTTE TAHSCNVNRF NVAITRAKIG ILCIMSDRDL 5890 5900 5910 5920 5930 5940 YDKLQFTSLE VPRRNVATLQ AENVTGLFKD CSKIITGLHP TQAPTHLSVD TKFKTEGLCV 5950 5960 5970 5980 5990 6000 DIPGIPKDMT YRRLISMMGF KMNYQVNGYP NMFITREEAI RHVRAWIGFD VEGCHATRDA 6010 6020 6030 6040 6050 6060 VGTNLPLQLG FSTGVNLVAI PTGYVDTENN TEFTRVNAKP PPGDQFKHLI PLMYKGLPWN 6070 6080 6090 6100 6110 6120 VVRIKIVQML SDTLKGLSDR VVFVLWAHGF ELTSMKYFVK IGPERTCCLC DKRATCFSTS 6130 6140 6150 6160 6170 6180 SDTYACWNHS VGFDYVYNPF MIDVQQWGFT GNLQSNHDQH CQVHGNAHVA SCDAIMTRCL 6190 6200 6210 6220 6230 6240 AVHECFVKRV DWSVEYPIIG DELKINSACR KVQHMVVKSA LLADKFPVLH DIGNPKAIKC 6250 6260 6270 6280 6290 6300 VPQAEVEWKF YDAQPCSDKA YKIEELFYSY ATHHDKFTDG VCLFWNCNVD RYPANAIVCR 6310 6320 6330 6340 6350 6360 FDTRVLSNLN LPGCDGGSLY VNKHAFHTPA FDKSAFTNLK QLPFFYYSDS PCESHGKQVV 6370 6380 6390 6400 6410 6420 SDIDYVPLKS ATCITRCNLG GAVCRHHANE YRQYLDAYNM MISAGFSLWI YKQFDTYNLW 6430 6440 6450 6460 6470 6480 NTFTRLQSLE NVAYNVVNKG HFDGQAGETP VSIINNAVYT KVDGFDVEIF ENKTTLPVNV 6490 6500 6510 6520 6530 6540 AFELWAKRNI KSVPEIKILN NLGVDIAANT VIWDHKREAP VHMSTIGVCT MTDIAKKPTE 6550 6560 6570 6580 6590 6600 SACSSLTVLF DGRVEGQVDL FRNARNGVLI TEGSVKGLTP SKGPAQASVN GVTLIGESVK 6610 6620 6630 6640 6650 6660 TQFNYFKKVD GIIQQLPETY FTQSRDLEDF KPRSQMETDF LELAMDEFIQ RYKLEGYAFE 6670 6680 6690 6700 6710 6720 HIVYGDFSHG QLGGLHLMIG LAKRSRDSPL KLEDFIPMDS TVKNYFITDA QTGSSKCVCS 6730 6740 6750 6760 6770 6780 VIDLLLDDFV EIIKSQDLSV VSKVVKVTID YAEISFMLWC KDGHVETFYP KLQASQAWQP 6790 6800 6810 6820 6830 6840 GVAMPNLYKM QRMLLEKCDL QNYGENAVIP KGIMMNVAKY TQLCQYLNTL TLAVPYNMRV 6850 6860 6870 6880 6890 6900 IHFGAGSDKG VAPGTAVLRQ WLPTGTLLVD SDLNDFVSDA DSTLIGDCAT VHTANKWDLI 6910 6920 6930 6940 6950 6960 VSDMYDPKAK HVTKENDSKE GFFTYLCGFI KQKLALGGSV AVKITEHSWN ADLYKLMGHF 6970 6980 6990 7000 7010 7020 SWWTAFVTNV NASSSEAFLI GVNYLGKPKE QIDGYTMHAN YIFWRNTNPI QLSSYSLFDM 7030 7040 7050 7060 7070 SKFPLKLRGT AVMSLKENQI NDMIYSLLEK GRLIIRENNR VVVSSDILVN N
	Isoform Replicase polyprotein 1a (pp1a) (ORF1a polyprotein) [UniParc]. See P0C6T7.		–	–

References

[1]

"Bats are natural reservoirs of SARS-like coronaviruses." Li W., Shi Z., Yu M., Ren W., Smith C., Epstein J.H., Wang H., Crameri G., Hu Z., Zhang H., Zhang J., McEachern J., Field H., Daszak P., Eaton B.T., Zhang S., Wang L.F. Science 310:676-679(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Cross-references

Sequence databases
EMBL GenBank DDBJ	DQ071615 Genomic RNA. Translation: AAZ67050.1. Sequence problems. DQ071615 Genomic RNA. Translation: AAZ67051.1. Sequence problems.
3D structure databases
ProteinModelPortal	P0C6W6.
SMR	P0C6W6. Positions 13-127, 819-930, 997-1174, 1329-1467, 1539-1852, 3239-3544, 3834-3917, 3919-4109, 4116-4228, 4238-4360, 6428-6771.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Family and domain databases
InterPro	IPR027351. (+)RNA_virus_helicase_core_dom. IPR002589. A1pp. IPR009461. Coronavirus_NSP13. IPR027352. CV_MBD_dom. IPR021590. NSP1. IPR009466. NSP11. IPR024375. Nsp3_coronavir. IPR014828. NSP7. IPR014829. NSP8. IPR014822. NSP9. IPR027417. P-loop_NTPase. 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. IPR024358. SARS-CoV_Nsp3_N. IPR022733. SARS_polyprot_cleavage. IPR009003. Trypsin-like_Pept_dom. IPR014827. Viral_protease. [Graphical view]
Pfam	PF06478. Corona_RPol_N. 1 hit. PF12379. DUF3655. 1 hit. PF01661. Macro. 1 hit. PF11501. Nsp1. 1 hit. PF09401. NSP10. 1 hit. PF06471. NSP11. 1 hit. PF06460. NSP13. 1 hit. PF11633. Nsp3. 1 hit. PF12124. Nsp3_PL2pro. 1 hit. PF08716. nsp7. 1 hit. PF08717. nsp8. 1 hit. PF08710. nsp9. 1 hit. PF05409. Peptidase_C30. 1 hit. PF00680. RdRP_1. 1 hit. PF01443. Viral_helicase1. 1 hit. PF08715. Viral_protease. 1 hit. [Graphical view]
SUPFAM	SSF101816. Nsp9. 1 hit. SSF50494. Pept_Ser_Cys. 1 hit. SSF144246. SSF144246. 1 hit. SSF52540. SSF52540. 1 hit.
PROSITE	PS51653. CV_MBD. 1 hit. PS51442. M_PRO. 1 hit. PS51154. MACRO. 1 hit. PS51124. PEPTIDASE_C16. 1 hit. PS51657. PSRV_HELICASE. 1 hit. PS50507. RDRP_SSRNA_POS. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

R1AB_BCRP3

Accession

Primary (citable) accession number: P0C6W6
Secondary accession number(s): Q3I5J6, Q3I5J7

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 10, 2008
Last sequence update:	June 10, 2008
Last modified:	May 29, 2013
This is version 45 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Viral Protein Annotation Program