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P0C6Y4

- R1AB_PEDV7

UniProt

P0C6Y4 - R1AB_PEDV7

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Protein

Replicase polyprotein 1ab

Gene
rep, 1a-1b
Organism
Porcine epidemic diarrhea virus (strain CV777) (PEDV)
Status
Reviewed - Annotation score: 5 out of 5 - Protein inferred from homologyi

Functioni

The replicase polyprotein of coronaviruses is a multifunctional protein: it contains the activities necessary for the transcription of negative stranded RNA, leader RNA, subgenomic mRNAs and progeny virion RNA as well as proteinases responsible for the cleavage of the polyprotein into functional products.
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.
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 activityi

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.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei110 – 1112Cleavage; by PL1-PRO By similarity
Sitei895 – 8962Cleavage; by PL1-PRO By similarity
Active sitei1091 – 10911For PL1-PRO activity By similarity
Active sitei1239 – 12391For PL1-PRO activity By similarity
Active sitei1729 – 17291For PL2-PRO activity By similarity
Active sitei1888 – 18881For PL2-PRO activity By similarity
Sitei2516 – 25172Cleavage; by PL2-PRO By similarity
Sitei2997 – 29982Cleavage; by 3CL-PRO By similarity
Active sitei3038 – 30381For 3CL-PRO activity By similarity
Active sitei3141 – 31411For 3CL-PRO activity By similarity
Sitei3299 – 33002Cleavage; by 3CL-PRO By similarity
Sitei3579 – 35802Cleavage; by 3CL-PRO By similarity
Sitei3662 – 36632Cleavage; by 3CL-PRO By similarity
Sitei3857 – 38582Cleavage; by 3CL-PRO By similarity
Sitei3965 – 39662Cleavage; by 3CL-PRO By similarity
Sitei4100 – 41012Cleavage; by 3CL-PRO By similarity
Sitei5027 – 50282Cleavage; by 3CL-PRO By similarity
Sitei5546 – 55472Cleavage; by 3CL-PRO By similarity
Sitei6141 – 61422Cleavage; by 3CL-PRO By similarity
Sitei6480 – 64812Cleavage; by 3CL-PRO By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1162 – 119332C4-typeAdd
BLAST
Zinc fingeri4039 – 405517 By similarityAdd
BLAST
Zinc fingeri4081 – 409414 By similarityAdd
BLAST
Nucleotide bindingi5310 – 53178ATP By similarity

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. cysteine-type endopeptidase activity Source: InterPro
  3. endonuclease activity Source: UniProtKB-KW
  4. exoribonuclease activity, producing 5'-phosphomonoesters Source: InterPro
  5. helicase activity Source: UniProtKB-KW
  6. methyltransferase activity Source: InterPro
  7. omega peptidase activity Source: InterPro
  8. RNA binding Source: UniProtKB-KW
  9. RNA-directed RNA polymerase activity Source: UniProtKB-KW
  10. zinc ion binding Source: InterPro

GO - Biological processi

  1. induction by virus of host autophagy Source: UniProtKB-KW
  2. modulation by virus of host protein ubiquitination Source: UniProtKB-KW
  3. suppression by virus of host IRF3 activity Source: UniProtKB-KW
  4. transcription, DNA-templated Source: InterPro
  5. viral genome replication Source: InterPro
  6. viral protein processing Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Exonuclease, Helicase, Hydrolase, Nuclease, Nucleotidyltransferase, Protease, RNA-directed RNA polymerase, Thiol protease, Transferase

Keywords - Biological processi

Activation of host autophagy by virus, Host-virus interaction, Inhibition of host innate immune response by virus, Inhibition of host IRF3 by virus, Inhibition of host RLR pathway by virus, Modulation of host ubiquitin pathway by viral deubiquitinase, Modulation of host ubiquitin pathway by virus, Ubl conjugation pathway, Viral immunoevasion, Viral RNA replication

Keywords - Ligandi

ATP-binding, Metal-binding, Nucleotide-binding, RNA-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Replicase polyprotein 1ab
Short name:
pp1ab
Alternative name(s):
ORF1ab polyprotein
Cleaved into the following 15 chains:
Non-structural protein 1
Short name:
nsp1
Alternative name(s):
p9
Non-structural protein 2
Short name:
nsp2
Alternative name(s):
p87
Alternative name(s):
PL1-PRO/PL2-PRO
PLP1/PLP2
Papain-like proteinases 1/2
p195
Non-structural protein 4
Short name:
nsp4
Alternative name(s):
Peptide HD2
3C-like proteinase (EC:3.4.22.-)
Short name:
3CL-PRO
Short name:
3CLp
Alternative name(s):
M-PRO
nsp5
p34
Non-structural protein 6
Short name:
nsp6
Non-structural protein 7
Short name:
nsp7
Alternative name(s):
p5
Non-structural protein 8
Short name:
nsp8
Alternative name(s):
p23
Non-structural protein 9
Short name:
nsp9
Alternative name(s):
p12
Non-structural protein 10
Short name:
nsp10
Alternative name(s):
Growth factor-like peptide
Short name:
GFL
p14
RNA-directed RNA polymerase (EC:2.7.7.48)
Short name:
Pol
Short name:
RdRp
Alternative name(s):
nsp12
p100
Helicase (EC:3.6.4.12, EC:3.6.4.13)
Short name:
Hel
Alternative name(s):
nsp13
p66
p66-HEL
Exoribonuclease (EC:3.1.13.-)
Short name:
ExoN
Alternative name(s):
nsp14
Alternative name(s):
NendoU
nsp15
Alternative name(s):
nsp16
Gene namesi
Name:rep
ORF Names:1a-1b
OrganismiPorcine epidemic diarrhea virus (strain CV777) (PEDV)
Taxonomic identifieri229032 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageNidoviralesCoronaviridaeCoronavirinaeAlphacoronavirus
Virus hostiSus scrofa (Pig) [TaxID: 9823]
ProteomesiUP000008159: Genome

Subcellular locationi

Chain Non-structural protein 7 : Host cytoplasmhost 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.
Chain Non-structural protein 8 : Host cytoplasmhost 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.
Chain Non-structural protein 9 : Host cytoplasmhost 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.
Chain Non-structural protein 10 : Host cytoplasmhost 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.
Chain Helicase : Host endoplasmic reticulum-Golgi intermediate compartment Reviewed prediction
Note: The helicase interacts with the N protein in membranous complexes and colocalizes with sites of synthesis of new viral RNA By similarity.

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei1959 – 197921Helical; Reviewed predictionAdd
BLAST
Transmembranei2022 – 204221Helical; Reviewed predictionAdd
BLAST
Transmembranei2105 – 212521Helical; Reviewed predictionAdd
BLAST
Transmembranei2127 – 214721Helical; Reviewed predictionAdd
BLAST
Transmembranei2150 – 217021Helical; Reviewed predictionAdd
BLAST
Transmembranei2528 – 254821Helical; Reviewed predictionAdd
BLAST
Transmembranei2619 – 263921Helical; Reviewed predictionAdd
BLAST
Transmembranei2654 – 267421Helical; Reviewed predictionAdd
BLAST
Transmembranei2754 – 277421Helical; Reviewed predictionAdd
BLAST
Transmembranei2787 – 280721Helical; Reviewed predictionAdd
BLAST
Transmembranei2814 – 283421Helical; Reviewed predictionAdd
BLAST
Transmembranei2863 – 288321Helical; Reviewed predictionAdd
BLAST
Transmembranei3336 – 335621Helical; Reviewed predictionAdd
BLAST
Transmembranei3361 – 338121Helical; Reviewed predictionAdd
BLAST
Transmembranei3399 – 341921Helical; Reviewed predictionAdd
BLAST
Transmembranei3431 – 345121Helical; Reviewed predictionAdd
BLAST
Transmembranei3454 – 347421Helical; Reviewed predictionAdd
BLAST
Transmembranei3476 – 349621Helical; Reviewed predictionAdd
BLAST
Transmembranei3500 – 352021Helical; Reviewed predictionAdd
BLAST

GO - Cellular componenti

  1. host cell endoplasmic reticulum-Golgi intermediate compartment Source: UniProtKB-SubCell
  2. host cell membrane Source: UniProtKB-SubCell
  3. host cell perinuclear region of cytoplasm Source: UniProtKB-SubCell
  4. integral component of membrane Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Host cytoplasm, Host membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 110110Non-structural protein 1 By similarityPRO_0000037369Add
BLAST
Chaini111 – 895785Non-structural protein 2 By similarityPRO_0000037370Add
BLAST
Chaini896 – 25161621Non-structural protein 3 By similarityPRO_0000037371Add
BLAST
Chaini2517 – 2997481Non-structural protein 4 By similarityPRO_0000037372Add
BLAST
Chaini2998 – 32993023C-like proteinase By similarityPRO_0000037373Add
BLAST
Chaini3300 – 3579280Non-structural protein 6 By similarityPRO_0000037374Add
BLAST
Chaini3580 – 366283Non-structural protein 7 By similarityPRO_0000037375Add
BLAST
Chaini3663 – 3857195Non-structural protein 8 By similarityPRO_0000037376Add
BLAST
Chaini3858 – 3965108Non-structural protein 9 By similarityPRO_0000037377Add
BLAST
Chaini3966 – 4100135Non-structural protein 10 By similarityPRO_0000037378Add
BLAST
Chaini4101 – 5027927RNA-directed RNA polymerase By similarityPRO_0000037379Add
BLAST
Chaini5028 – 5546519HelicasePRO_0000037380Add
BLAST
Chaini5547 – 6141595Exoribonuclease By similarityPRO_0000037381Add
BLAST
Chaini6142 – 6480339Uridylate-specific endoribonuclease By similarityPRO_0000037382Add
BLAST
Chaini6481 – 6781301Putative 2'-O-methyl transferase By similarityPRO_0000037383Add
BLAST

Post-translational modificationi

Specific enzymatic cleavages in vivo by its own proteases yield mature proteins. 3CL-PRO and PL-PRO proteinases are autocatalytically processed By similarity.

Interactioni

Subunit structurei

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.

Structurei

3D structure databases

ProteinModelPortaliP0C6Y4.
SMRiP0C6Y4. Positions 2998-3297, 3860-3964, 3972-4096.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1057 – 1296240Peptidase C16 1Add
BLAST
Domaini1297 – 1465169MacroAdd
BLAST
Domaini1691 – 1951261Peptidase C16 2Add
BLAST
Domaini2998 – 3299302Peptidase C30Add
BLAST
Domaini4707 – 4869163RdRp catalyticAdd
BLAST
Domaini5028 – 511184CV MBDAdd
BLAST
Domaini5275 – 5466192(+)RNA virus helicase ATP-bindingAdd
BLAST
Domaini5467 – 5636170(+)RNA virus helicase C-terminalAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1959 – 2170212HD1Add
BLAST
Regioni2528 – 2883356HD2Add
BLAST
Regioni3336 – 3520185HD3Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi1816 – 1932117Val-richAdd
BLAST

Domaini

The hydrophobic domains (HD) could mediate the membrane association of the replication complex and thereby alter the architecture of the host cell membrane.

Sequence similaritiesi

Contains 1 Macro domain.

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1162 – 119332C4-typeAdd
BLAST
Zinc fingeri4039 – 405517 By similarityAdd
BLAST
Zinc fingeri4081 – 409414 By similarityAdd
BLAST

Keywords - Domaini

Repeat, Transmembrane, Transmembrane helix, Zinc-finger

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR027351. (+)RNA_virus_helicase_core_dom.
IPR009461. Coronavirus_NSP16.
IPR027352. CV_MBD_dom.
IPR002589. Macro_dom.
IPR009466. NSP11.
IPR014828. NSP7.
IPR014829. NSP8.
IPR014822. NSP9.
IPR027417. P-loop_NTPase.
IPR011050. Pectin_lyase_fold/virulence.
IPR008740. Peptidase_C30.
IPR013016. Peptidase_C30/C16.
IPR001205. RNA-dir_pol_C.
IPR009469. RNA_pol_N_coronovir.
IPR018995. RNA_synth_NSP10_coronavirus.
IPR029063. SAM-dependent_MTases-like.
IPR009003. Trypsin-like_Pept_dom.
IPR014827. Viral_protease.
[Graphical view]
PfamiPF06478. 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.
PF01443. Viral_helicase1. 1 hit.
PF08715. Viral_protease. 2 hits.
[Graphical view]
SMARTiSM00506. A1pp. 1 hit.
[Graphical view]
SUPFAMiSSF101816. SSF101816. 1 hit.
SSF144246. SSF144246. 1 hit.
SSF50494. SSF50494. 1 hit.
SSF51126. SSF51126. 1 hit.
SSF52540. SSF52540. 1 hit.
SSF53335. SSF53335. 1 hit.
PROSITEiPS51653. CV_MBD. 1 hit.
PS51442. M_PRO. 1 hit.
PS51154. MACRO. 1 hit.
PS51124. PEPTIDASE_C16. 2 hits.
PS51657. PSRV_HELICASE. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by ribosomal frameshifting. Align

Isoform Replicase polyprotein 1ab (identifier: P0C6Y4-1) [UniParc]FASTAAdd to Basket

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.

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MASNHVTLAF ANDAEISAFG FCTASEAVSY YSEAAASGFM QCRFVSLDLA     50
DTVEGLLPED YVMVVIGTTK LSAYVDTFGS RPRNICGWLL FSNCNYFLEE 100
LELTFGRRGG NIVPVDQYMC GADGKPVLQE SEWEYTDFFA DSEDGQLNIA 150
GITYVKAWIV ERSDVSYASQ NLTSIKSITY CSTYEHTFLD GTAMKVARTP 200
KIKKNVVLSE PLATIYREIG SPFVDNGSDA RSIIRRPVFL HAFVKCKCGS 250
YHWTVGDWTS YVSTCCGFKC KPVLVASCSA MPGSVVVTRA GAGTGVKYYN 300
NMFLRHVADI DGLAFWRILK VQSKDDLACS GKFLEHHEEG FTDPCYFLND 350
SSLATKLKFD ILSGKFSDEV KQAIIAGHVV VGSALVDIVD DALGQPWFIR 400
KLGDLASAPW EQLKAVVRGL GLLSDEVVLF GKRLSCATLS IVNGVFEFLA 450
DVPEKLAAAV TVFVNFLNEF FESACDCLKV GGKTFNKVGS YVLFDNALVK 500
LVKAKARGPR QAGICEVRYT SLVVGSTTKV VSKRVENANV NLVVVDEDVT 550
LNTTGRTVVV DGLAFFESDG FYRHLADADV VIEHPVYKSA CELKPVFECD 600
PIPDFPLPVA ASVAELCVQT DLLLKNYNTP YKTYSCVVRG DKCCITCTLQ 650
FKAPSYVEDA VNFVDLCTKN IGTAGFHEFY ITAHEQQDLQ GFLTTCCTMS 700
GFECFMPTIP QCPAVLEEID GGSIWRSFIT GLNTMWDFCK RLKVSFGLDG 750
IVVTVARKFK RLGALLAEMY NTYLSTVVEN LVLAGVSFKY YATSVPKIVL 800
GGCFHSVKSV FASVFQIPVQ AGIEKFKVFL NCVHPVVPRV IETSFVELEE 850
TTFKPPALNG GIAIVDGFAF YYDGTLYYPT DGNSVVPICF KKKGGGDVKF 900
SDEVSVKTID PVYKVSLEFE FESETIMAVL NKAVGNRIKV TGGWDDVVEY 950
INVAIEVLKD HVEVPKYYIY DEEGGTDPNL PVMVSQWPLN DDTISQDLLD 1000
VEVVTDAPID SEGDEVDSSA PEKVADVANS EPGDDGLPVA PETNVESEVE 1050
EVAATLSFIK DTPSTVTKDP FAFDFVSYGG LKVLRQSHNN CWVTSTLVQL 1100
QLLGIVDDPA MELFSAGRVG PMVRKCYESQ KAILGSLGDV SACLESLTKD 1150
LHTLKITCSV VCGCGTGERI YEGCAFRMTP TLEPFPYGAC AQCAQVLMHT 1200
FKSIVGTGIF CRDTTALSLD SLVVKPLCAA AFIGKDSGHY VTNFYDAAMA 1250
IDGYGRHQIK YDTLNTICVK DVNWTAPLVP AVDSVVEPVV KPFYSYKNVD 1300
FYQGDFSDLV KLPCDFVVNA ANEKLSHGGG IAKAIDVYTK GMLQKCSNDY 1350
IKAHGPIKVG RGVMLEALGL KVFNVVGPRK GKHAPELLVK AYKSVFANSG 1400
VALTPLISVG IFSVPLEESL SAFLACVGDR HCKCFCYGDK EREAIIKYMD 1450
GLVDAIFKEA LVDTTPVQED VQQVSQKPVL PNFEPFRIEG AHAFYECNPE 1500
GLMSLGADKL VLFTNSNLDF CSVGKCLNDV TSGALLEAIN VFKKSNKTVP 1550
AGNCVTLDCA NMISITMVVL PFDGDANYDK NYARAVVKVS KLKGKLVLAV 1600
DDATLYSKLS HLSVLGFVST PDDVERFYAN KSVVIKVTED TRSVKAVKVE 1650
STATYGQQIG PCLVNDTVVT DNKPVVADVV AKVVPNANWD SHYGFDKAGE 1700
FHMLDHTGFT FPSEVVNGRR VIKTTDNNCW VNVTCLQLQF ARFRFKSAGL 1750
QAMWESYCTG DVAMFVHWLY WLTGVDKGQP SDSENALNML SKYIVPAGSV 1800
TIERVTHDGC CCSKRVVTAP VVNASVLKLG VEDGLCPHGL NYIGKVVVVK 1850
GTTIVVNVGK PVVAPSHLFL KGVSYTTFLD NGNGVVGHYT VFDHGTGMVH 1900
DGDAFVPGDL NVSPVTNVVV SEQTAVVIKD PVKKAELDAT KLLDTMNYAS 1950
ERFFSFGDFM SRNLITVFLY ILSILGLCFR AFRKRDVKVL AGVPQRTGII 2000
LRKSMRYNAK ALGVFFKLKL YWFKVLGKFS LGIYALYALL FMTIRFTPIG 2050
SPVCDDVVAG YANSSFDKNE YCNSVICKVC LYGYQELSDF SHTQVVWQHL 2100
RDPLIGNVMP FFYLAFLAIF GGVYVKAITL YFIFQYLNSL GVFLGLQQSI 2150
WFLQLVPFDV FGDEIVVFFI VTRVLMFIKH VCLGCDKASC VACSKSARLK 2200
RVPVQTIFQG TSKSFYVHAN GGSKFCKKHN FFCLNCDSYG PGCTFINDVI 2250
ATEVGNVVKL NVQPTGPATI LIDKVEFSNG FYYLYSGDTF WKYNFDITDS 2300
KYTCKEALKN CSIITDFIVF NNNGSNVNQV KNACVYFSQM LCKPVKLVDS 2350
ALLASLSVDF GASLHSAFVS VLSNSFGKDL SSCNDMQDCK STLGFDDVPL 2400
DTFNAAVAEA HRYDVLLTDM SFNNFTTSYA KPEEKFPVHD IATCMRVGAK 2450
IVNHNVLVKD SIPVVWLVRD FIALSEETRK YIIRTTKVKG ITFMLTFNDC 2500
RMHTTIPTVC IANKKGAGLP SFSKVKKFFW FLCLFIVAAF FALSFLDFST 2550
QVSSDSDYDF KYIESGQLKT FDNPLSCVHN VFINFDQWHD AKFGFTPVNN 2600
PSCPIVVGVS DEARTVPGIP AGVYLAGKTL VFAINTIFGT SGLCFDASGV 2650
ADKGACIFNS ACTTLSGLGG TAVYCYKNGL VEGAKLYSEL APHSYYKMVD 2700
GNAVSLPEII SRGFGIRTIR TKAMTYCRVG QCVQSAEGVC FGADRFFVYN 2750
AESGSDFVCG TGLFTLLMNV ISVFSKTVPV TVLSGQILFN CIIAFVAVAV 2800
CFLFTKFKRM FGDMSVGVFT VGACTLLNNV SYIVTQNTLG MLGYATLYFL 2850
CTKGVRYMWI WHLGFLISYI LIAPWWVLMV YAFSAIFEFM PNLFKLKVST 2900
QLFEGDKFVG SFENAAAGTF VLDMHAYERL ANSISTEKLR QYASTYNKYK 2950
YYSGSASEAD YRLACFAHLA KAMMDYASNH NDTLYTPPTV SYNSTLQAGL 3000
RKMAQPSGVV EKCIVRVCYG NMALNGLWLG DIVMCPRHVI ASSTTSTIDY 3050
DYALSVLRLH NFSISSGNVF LGVVSATMRG ALLQIKVNQN NVHTPKYTYR 3100
TVRPGESFNI LACYDGAAAG VYGVNMRSNY TIRGSFINGA CGSPGYNINN 3150
GTVEFCYLHQ LELGSGCHVG SDLDGVMYGG YEDQPTLQVE GASSLFTENV 3200
LAFLYAALIN GSTWWLSSSR IAVDRFNEWA VHNGMTTVGN TDCFSILAAK 3250
TGVDVQRLLA SIQSLHKNFG GKQILGHTSL TDEFTTGEVV RQMYGVNLQG 3300
GYVSRACRNV LLVGSFLTFF WSELVSYTKF FWVNPGYVTP MFACLSLLSS 3350
LLMFTLKHKT LFFQVFLIPA LIVTSCINLA FDVEVYNYLA EHFDYHVSLM 3400
GFNAQGLVNI FVCFVVTILH GTYTWRFFNT PASSVTYVVA LLTAAYNYFY 3450
ASDILSCAMT LFASVTGNWF VGAVCYKVAV YMALRFPTFV AIFGDIKSVM 3500
FCYLVLGYFT CCFYGILYWF NRFFKVSVGV YDYTVSAAEF KYMVANGLRA 3550
PTGTLDSLLL SAKLIGIGGE RNIKISSVQS KLTDIKCSNV VLLGCLSSMN 3600
VSANSTEWAY CVDLHNKINL CNDPEKAQEM LLALLAFFLS KNSAFGLDDL 3650
LESYFNDNSM LQSVASTYVG LPSYVIYENA RQQYEDAVNN GSPPQLVKQL 3700
RHAMNVAKSE FDREASTQRK LDRMAEQAAA QMYKEARAVN RKSKVVSAMH 3750
SLLFGMLRRL DMSSVDTILN LAKDGVVPLS VIPAVSATKL NIVTSDIDSY 3800
NRIQREGCVH YAGTIWNIID IKDNDGKVVH VKEVTAQNAE SLSWPLVLGC 3850
ERIVKLQNNE IIPGKLKQRS IKAEGDGIVG EGKALYNNEG GRTFMYAFIS 3900
DKPDLRVVKW EFDGGCNTIE LEPPRKFLVD SPNGAQIKYL YFVRNLNTLR 3950
RGAVLGYIGA TVRLQAGKQT EQAINSSLLT LCAFAVDPAK TYIDAVKSGH 4000
KPVGNCVKML ANGSGNGQAV TNGVEASTNQ DSYGGASVCL YCRAHVEHPS 4050
MDGFCRLKGK YVQVPLGTVD PIRFVLENDV CKVCGCWLSN GCTCDRSIMQ 4100
STDMAYLNRV RGSSAARLEP CNGTDTQHVY RAFDIYNKDV ACLGKFLKVN 4150
CVRLKNLDKH DAFYVVKRCT KSAMEHEQSI YSRLEKCGAI AEHDFFTWKD 4200
GRAIYGNVCR KDLTEYTMMD LCYALRNFDE NNCDVLKSIL IKVGACEESY 4250
FNNKVWFDPV ENEDIHRVYA LLGTIVARAM LKCVKFCDAM VEQGIVGVVT 4300
LDNQDLNGDF YDFGDFTCSI KGMGVPICTS YYSYMMPVMG MTNCLASECF 4350
VKSDIFGEDF KSYDLLEYDF TEHKTALFNK YFKYWGLQYH PNCVDCSDEQ 4400
CIVHCANFNT LFSTTIPITA FGPLCRKCWI DGVPLVTTAG YHFKQLGIVW 4450
NNDLNLHSSR LSINELLQFC SDPALLIASS PALVDQRTVC FSVAALGTGM 4500
TNQTVKPGHF NKEFYDFLLE QGFFSEGSEL TLKHFFFAQK VDAAVKDFDY 4550
YRYNRPTVLD ICQARVVYQI VQRYFDIYEG GCITAKEVVV TNLNKSAGYP 4600
LNKFGKAGLY YESLSYEEQD ELYAYTKRNI LPTMTQLNLK YAISGKERAR 4650
TVGGVSLLST MTTRQYHQKH LKSIVNTRGA SVVIGTTKFY GGWDNMLKNL 4700
IDGVENPCLM GWDYPKCDRA LPNMIRMISA MILGSKHTTC CSSTDRFFRL 4750
CNELAQVLTE VVYSNGGFYL KPGGTTSGDA TTAYANSVFN IFQAVSANVN 4800
KLLSVDSNVC HNLEVKQLQR KLYECCYRST IVDDQFVVEY YGYLRKHFSM 4850
MILSDDGVVC YNNDYASLGY VADLNAFKAV LYYQNNVFMS ASKCWIEPDI 4900
NKGPHEFCSQ HTMQIVDKEG TYYLPYPDPS RILSAGVFVD DVVKTDAVVL 4950
LERYVSLAID AYPLSKHENP EYKKVFYVLL DWVKHLYKTL NAGVLESFSV 5000
TLLEDSTAKF WDESFYANMY EKSAVLQSAG LCVVCGSQTV LRCGDCLRRP 5050
MLCTKCAYDH VIGTTHKFIL AITPYVCCAS DCGVNDVTKL YLGGLSYWCH 5100
EHKPRLAFPL CSAGNVFGLY KNSATGSPDV EDFNRIATSD WTDVSDYRLA 5150
NDVKDSLRLF AAETIKAKEE SVKSSYACAT LHEVVGPKEL LLKWEVGRPK 5200
PPLNRNSVFT CYHITKNTKF QIGEFVFEKA EYDNDAVTYK TTATTKLVPG 5250
MVFVLTSHNV QPLRAPTIAN QERYSTIHKL HPAFNIPEAY SSLVPYYQLI 5300
GKQKITTIQG PPGSGKSHCV IGLGLYYPGA RIVFTACSHA AVDSLCVKAS 5350
TAYSNDKCSR IIPQRARVEC YDGFKSNNTS AQYLFSTVNA LPECNADIVV 5400
VDEVSMCTNY DLSVINQRIS YRHVVYVGDP QQLPAPRVMI SRGTLEPKDY 5450
NVVTQRMCAL KPDVFLHKCY RCPAEIVRTV SEMVYENQFI PVHPDSKQCF 5500
KIFCKGNVQV DNGSSINRRQ LDVVRMFLAK NPRWSKAVFI SPYNSQNYVA 5550
SRLLGLQIQT VDSSQGSEYD YVIYAQTSDT AHASNVNRFN VAITRAKKGI 5600
LCIMCDRSLF DLLKFFELKL SDLQANEGCG LFKDCSRGDD LLPPSHANTF 5650
MSLADNFKTD QYLAVQIGVN GPIKYEHVIS FMGFRFDINI PNHHTLFCTR 5700
DFAMRNVRGW LGFDVEGAHV VGSNVGTNVP LQLGFSNGVD FVVRPEGCVV 5750
TESGDYIKPV RARAPPGEQF AHLLPLLKRG QPWDVVRKRI VQMCSDYLAN 5800
LSDILIFVLW AGGLELTTMR YFVKIGPSKS CDCGKVATCY NSALHTYCCF 5850
KHALGCDYLY NPYCIDIQQW GYKGSLSLNH HEHCNVHRNE HVASGDAIMT 5900
RCLAIHDCFV KNVDWSITYP FIGNEAVINK SGRIVQSHTM RSVLKLYNPK 5950
AIYDIGNPKG IRCAVTDAKW FCFDKNPTNS NVKTLEYDYI THGQFDGLCL 6000
FWNCNVDMYP EFSVVCRFDT RCRSPLNLEG CNGGSLYVNN HAFHTPAFDK 6050
RAFAKLKPMP FFFYDDTECD KLQDSINYVP LRASNCITKC NVGGAVCSKH 6100
CAMYHSYVNA YNTFTSAGFT IWVPTSFDTY NLWQTFSNNL QGLENIAFNV 6150
LKKGSFVGDE GELPVAVVND KVLVRDGTVD TLVFTNKTSL PTNVAFELYA 6200
KRKVGLTPPI TILRNLGVVC TSKCVIWDYE AERPLTTFTK DVCKYTDFEG 6250
DVCTLFDNSI VGSLERFSMT QNAVLMSLTA VKKLTGIKLT YGYLNGVPVN 6300
THEDKPFTWY IYTRKNGKFE DYPDGYFTQG RTTADFSPRS DMEKDFLSMD 6350
MGLFINKYGL EDYGFEHVVY GDVSKTTLGG LHLLISQVRL ACMGVLKIDE 6400
FVSSNDSTLK SCTVTYADNP SSKMVCTYMD LLLDDFVSIL KSLDLSVVSK 6450
VHEVMVDCKM WRWMLWCKDH KLQTFYPQLQ ASEWKCGYSM PSIYKIQRMC 6500
LEPCNLYNYG AGVKLPDGIM FNVVKYTQLC QYLNSTTMCV PHHMRVLHLG 6550
AGSDKGVAPG TAVLRRWLPL DAIIVDNDSV DYVSDADYSV TGDCSTLYLS 6600
DKFDLVISDM YDGKIKSCDG ENVSKEGFFP YINGVITEKL ALGGTVAIKV 6650
TEFSWNKKLY ELIQKFEYWT MFCTSVNTSS SEAFLIGVHY LGDFASGAVI 6700
DGNTMHANYI FWRNSTIMTM SYNSVLDLSK FNCKHKATVV VNLKDSSISD 6750
VVLGLLKNGK LLVRNNDAIC GFSNHLVNVN K 6781

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

Length:6,781
Mass (Da):753,158
Last modified:June 10, 2008 - v1
Checksum:iC5E29CBA752AD5BB
GO
Isoform Replicase polyprotein 1a (identifier: P0C6V6-1) [UniParc]FASTAAdd to Basket

Also known as: pp1a, ORF1a polyprotein

The sequence of this isoform can be found in the external entry P0C6V6.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Note: Produced by conventional translation.

Length:4,117
Mass (Da):452,818
GO

Sequence cautioni

The sequence AAK38661.1 differs from that shown. Reason: Erroneous gene model prediction.

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF353511 Genomic RNA. Translation: AAK38661.1. Sequence problems.
RefSeqiNP_598309.2. NC_003436.1.

Genome annotation databases

GeneIDi935181.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF353511 Genomic RNA. Translation: AAK38661.1 . Sequence problems.
RefSeqi NP_598309.2. NC_003436.1.

3D structure databases

ProteinModelPortali P0C6Y4.
SMRi P0C6Y4. Positions 2998-3297, 3860-3964, 3972-4096.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 935181.

Family and domain databases

Gene3Di 3.40.50.300. 2 hits.
InterProi IPR027351. (+)RNA_virus_helicase_core_dom.
IPR009461. Coronavirus_NSP16.
IPR027352. CV_MBD_dom.
IPR002589. Macro_dom.
IPR009466. NSP11.
IPR014828. NSP7.
IPR014829. NSP8.
IPR014822. NSP9.
IPR027417. P-loop_NTPase.
IPR011050. Pectin_lyase_fold/virulence.
IPR008740. Peptidase_C30.
IPR013016. Peptidase_C30/C16.
IPR001205. RNA-dir_pol_C.
IPR009469. RNA_pol_N_coronovir.
IPR018995. RNA_synth_NSP10_coronavirus.
IPR029063. SAM-dependent_MTases-like.
IPR009003. Trypsin-like_Pept_dom.
IPR014827. Viral_protease.
[Graphical view ]
Pfami 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.
PF01443. Viral_helicase1. 1 hit.
PF08715. Viral_protease. 2 hits.
[Graphical view ]
SMARTi SM00506. A1pp. 1 hit.
[Graphical view ]
SUPFAMi SSF101816. SSF101816. 1 hit.
SSF144246. SSF144246. 1 hit.
SSF50494. SSF50494. 1 hit.
SSF51126. SSF51126. 1 hit.
SSF52540. SSF52540. 1 hit.
SSF53335. SSF53335. 1 hit.
PROSITEi PS51653. CV_MBD. 1 hit.
PS51442. M_PRO. 1 hit.
PS51154. MACRO. 1 hit.
PS51124. PEPTIDASE_C16. 2 hits.
PS51657. PSRV_HELICASE. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Further analysis of the genome of porcine epidemic diarrhea virus."
    Bridgen A., Kocherhans R., Tobler K., Carvajal A., Ackermann M.
    Adv. Exp. Med. Biol. 440:781-786(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  2. "Completion of the porcine epidemic diarrhoea coronavirus (PEDV) genome sequence."
    Kocherhans R., Bridgen A., Ackermann M., Tobler K.
    Virus Genes 23:137-144(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Entry informationi

Entry nameiR1AB_PEDV7
AccessioniPrimary (citable) accession number: P0C6Y4
Secondary accession number(s): Q91AV2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: June 10, 2008
Last modified: June 11, 2014
This is version 49 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. Peptidase families
    Classification of peptidase families and list of entries
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi