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K9N7C7

- R1AB_CVEMC

UniProt

K9N7C7 - R1AB_CVEMC

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Protein

Replicase polyprotein 1ab

Gene

rep

Organism
Human coronavirus EMC (isolate United Kingdom/H123990006/2012) (HCoV-EMC)
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.By similarity
Host translation inhibitor nsp1: Inhibits host translation by interacting with the 40S ribosomal subunit. The nsp1-40S ribosome complex further induces an endonucleolytic cleavage near the 5'UTR of host mRNAs, targeting them for degradation. Viral mRNAs are not susceptible to nsp1-mediated endonucleolytic RNA cleavage thanks to the presence of a 5'-end leader sequence and are therefore protected from degradation. By suppressing host gene expression, nsp1 facilitates efficient viral gene expression in infected cells and evasion from host immune response.By similarity
Non-structural protein 2: May play a role in the modulation of host cell survival signaling pathway by interacting with host PHB and PHB2. Indeed, these two proteins play a role in maintaining the functional integrity of the mitochondria and protecting cells from various stresses.By similarity
Papain-like proteinase: Responsible for the cleavages located at the N-terminus of the replicase polyprotein. In addition, PL-PRO possesses a deubiquitinating/deISGylating activity and processes both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains from cellular substrates. Participates together with nsp4 in the assembly of virally-induced cytoplasmic double-membrane vesicles necessary for viral replication. Antagonizes innate immune induction of type I interferon by blocking the phosphorylation, dimerization and subsequent nuclear translocation of host IRF3. Prevents also host NF-kappa-B signaling.By similarity
Non-structural protein 4: Participates in the assembly of virally-induced cytoplasmic double-membrane vesicles necessary for viral replication.By similarity
Proteinase 3CL-PRO: Cleaves the C-terminus of replicase polyprotein at 11 sites. Recognizes substrates containing the core sequence [ILMVF]-Q-|-[SGACN]. Also able to bind an ADP-ribose-1''-phosphate (ADRP).By similarityPROSITE-ProRule annotation
Non-structural protein 6: Plays a role in the initial induction of autophagosomes from host reticulum endoplasmic. Later, limits the expansion of these phagosomes that are no longer able to deliver viral components to lysosomes.By similarity
Non-structural protein 7: Forms an hexadecamer with nsp8 (8 subunits of each) that may participate in viral replication by acting as a primase. Alternatively, may synthesize substantially longer products than oligonucleotide primers.By similarity
Non-structural protein 8: Forms an hexadecamer with nsp7 (8 subunits of each) that may participate in viral replication by acting as a primase. Alternatively, may synthesize substantially longer products than oligonucleotide primers.By similarity
Non-structural protein 9: May participate in viral replication by acting as a ssRNA-binding protein.By similarity
Non-structural protein 10: Plays a pivotal role in viral transcription by stimulating both nsp14 3'-5' exoribonuclease and nsp16 2'-O-methyltransferase activities. Therefore plays an essential role in viral mRNAs cap methylation.By similarity
RNA-directed RNA polymerase: Responsible for replication and transcription of the viral RNA genome.By similarity
Helicase: Multi-functional protein with a zinc-binding domain in N-terminus displaying RNA and DNA duplex-unwinding activities with 5' to 3' polarity. Activity of helicase is dependent on magnesium.By similarity
Guanine-N7 methyltransferase: Enzyme possessing two different activities: an exoribonuclease activity acting on both ssRNA and dsRNA in a 3' to 5' direction and a N7-guanine methyltransferase activity.By similarity
Uridylate-specific endoribonuclease: Mn2+-dependent, uridylate-specific enzyme, which leaves 2'-3'-cyclic phosphates 5' to the cleaved bond.By similarity
2'-O-methyltransferase: Methyltransferase that mediates mRNA cap 2'-O-ribose methylation to the 5'-cap structure of viral mRNAs. N7-methyl guanosine cap is a prerequisite for binding of nsp16. Therefore plays an essential role in viral mRNAs cap methylation which is essential to evade immune system.By similarity

Catalytic activityi

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).PROSITE-ProRule annotation
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).

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei193 – 1942CleavageBy similarity
Sitei853 – 8542Cleavage; by PL-PROBy similarity
Active sitei1592 – 15921For PL-PRO activityPROSITE-ProRule annotation
Active sitei1759 – 17591For PL-PRO activityPROSITE-ProRule annotation
Sitei2740 – 27412Cleavage; by PL-PROBy similarity
Sitei3247 – 32482Cleavage; by 3CL-PROBy similarity
Active sitei3288 – 32881For 3CL-PRO activityPROSITE-ProRule annotation
Active sitei3395 – 33951For 3CL-PRO activityPROSITE-ProRule annotation
Sitei3553 – 35542Cleavage; by 3CL-PROBy similarity
Sitei3845 – 38462Cleavage; by 3CL-PROBy similarity
Sitei3928 – 39292Cleavage; by 3CL-PROBy similarity
Sitei4127 – 41282Cleavage; by 3CL-PROBy similarity
Sitei4237 – 42382Cleavage; by 3CL-PROBy similarity
Metal bindingi4311 – 43111Zinc
Metal bindingi4314 – 43141Zinc
Metal bindingi4320 – 43201Zinc
Metal bindingi4327 – 43271Zinc
Metal bindingi4354 – 43541Zinc
Metal bindingi4357 – 43571Zinc
Metal bindingi4365 – 43651Zinc
Sitei4377 – 43782Cleavage; by 3CL-PROBy similarity
Sitei5310 – 53112Cleavage; by 3CL-PROBy similarity
Sitei5908 – 59092Cleavage; by 3CL-PROBy similarity
Sitei6432 – 64332Cleavage; by 3CL-PROBy similarity
Sitei6775 – 67762Cleavage; by 3CL-PROBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1672 – 170938C4-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri4311 – 432717Add
BLAST
Zinc fingeri4354 – 436714Add
BLAST
Nucleotide bindingi5592 – 55998ATPBy 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 catabolism of host mRNA Source: UniProtKB-KW
  2. induction by virus of host autophagy Source: UniProtKB-KW
  3. modulation by virus of host protein ubiquitination Source: UniProtKB-KW
  4. suppression by virus of host gene expression Source: UniProtKB-KW
  5. suppression by virus of host ISG15 activity Source: UniProtKB-KW
  6. suppression by virus of host type I interferon-mediated signaling pathway Source: UniProtKB-KW
  7. transcription, DNA-templated Source: InterPro
  8. viral protein processing Source: InterPro
  9. viral RNA genome replication 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, Decay of host mRNAs by virus, Eukaryotic host gene expression shutoff by virus, Eukaryotic host translation shutoff by virus, Host gene expression shutoff by virus, Host mRNA suppression by virus, Host-virus interaction, Inhibition of host innate immune response by virus, Inhibition of host interferon signaling pathway by virus, Inhibition of host ISG15 by virus, Inhibition of host NF-kappa-B by virus, Modulation of host ubiquitin pathway by viral deubiquitinase, Modulation of host ubiquitin pathway by virus, Ubl conjugation pathway, Viral immunoevasion, Viral RNA replication

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:
Alternative name(s):
Leader protein
Non-structural protein 2
Short name:
nsp2
Alternative name(s):
p65 homolog
Papain-like proteinase (EC:3.4.19.12, EC:3.4.22.69)
Short name:
PL-PRO
Alternative name(s):
Non-structural protein 3
Short name:
nsp3
Non-structural protein 4
Short name:
nsp4
3C-like proteinase (EC:3.4.22.-)
Short name:
3CL-PRO
Short name:
3CLp
Alternative name(s):
nsp5
Non-structural protein 6
Short name:
nsp6
Non-structural protein 7
Short name:
nsp7
Non-structural protein 8
Short name:
nsp8
Non-structural protein 9
Short name:
nsp9
Non-structural protein 10
Short name:
nsp10
Alternative name(s):
Growth factor-like peptide
Short name:
GFL
RNA-directed RNA polymerase (EC:2.7.7.48)
Short name:
Pol
Short name:
RdRp
Alternative name(s):
nsp12
Helicase (EC:3.6.4.12, EC:3.6.4.13)
Short name:
Hel
Alternative name(s):
nsp13
Alternative name(s):
nsp14
Alternative name(s):
NendoU
nsp15
Alternative name(s):
nsp16
Gene namesi
Name:rep
ORF Names:1a-1b
OrganismiHuman coronavirus EMC (isolate United Kingdom/H123990006/2012) (HCoV-EMC)
Taxonomic identifieri1263720 [NCBI]
Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageNidoviralesCoronaviridaeCoronavirinaeBetacoronavirusunclassified Betacoronavirus

Subcellular locationi

Chain Papain-like proteinase : Host membrane; Multi-pass membrane protein. Host cytoplasm By similarity
Chain Non-structural protein 4 : Host membrane; Multi-pass membrane protein. Host cytoplasm
Note: Localizes in virally-induced cytoplasmic double-membrane vesicles.By similarity
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).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).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).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).By similarity
Chain Helicase : Host endoplasmic reticulum-Golgi intermediate compartment Curated
Note: The helicase interacts with the N protein in membranous complexes and colocalizes with sites of synthesis of new viral RNA.By similarity

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei2105 – 212521HelicalSequence AnalysisAdd
BLAST
Transmembranei2177 – 219721HelicalSequence AnalysisAdd
BLAST
Transmembranei2281 – 230121HelicalSequence AnalysisAdd
BLAST
Transmembranei2305 – 232521HelicalSequence AnalysisAdd
BLAST
Transmembranei2330 – 235021HelicalSequence AnalysisAdd
BLAST
Transmembranei2757 – 277721HelicalSequence AnalysisAdd
BLAST
Transmembranei3028 – 304821HelicalSequence AnalysisAdd
BLAST
Transmembranei3062 – 308221HelicalSequence AnalysisAdd
BLAST
Transmembranei3104 – 312421HelicalSequence AnalysisAdd
BLAST
Transmembranei3125 – 314521HelicalSequence AnalysisAdd
BLAST
Transmembranei3559 – 357921HelicalSequence AnalysisAdd
BLAST
Transmembranei3593 – 361321HelicalSequence AnalysisAdd
BLAST
Transmembranei3618 – 363821HelicalSequence AnalysisAdd
BLAST
Transmembranei3664 – 368421HelicalSequence AnalysisAdd
BLAST
Transmembranei3691 – 371121HelicalSequence AnalysisAdd
BLAST
Transmembranei3740 – 376021HelicalSequence AnalysisAdd
BLAST
Transmembranei3765 – 378521HelicalSequence AnalysisAdd
BLAST

GO - Cellular componenti

  1. host cell cytoplasm Source: UniProtKB-KW
  2. host cell membrane Source: UniProtKB-KW
  3. 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 – 193193Host translation inhibitor nsp1By similarityPRO_0000422439Add
BLAST
Chaini194 – 853660Non-structural protein 2By similarityPRO_0000422440Add
BLAST
Chaini854 – 27401887Papain-like proteinaseBy similarityPRO_0000422441Add
BLAST
Chaini2741 – 3247507Non-structural protein 4By similarityPRO_0000422442Add
BLAST
Chaini3248 – 35533063C-like proteinaseBy similarityPRO_0000422443Add
BLAST
Chaini3554 – 3845292Non-structural protein 6By similarityPRO_0000422444Add
BLAST
Chaini3846 – 392883Non-structural protein 7By similarityPRO_0000422445Add
BLAST
Chaini3929 – 4127199Non-structural protein 8By similarityPRO_0000422446Add
BLAST
Chaini4128 – 4237110Non-structural protein 9By similarityPRO_0000422447Add
BLAST
Chaini4238 – 4377140Non-structural protein 10By similarityPRO_0000422448Add
BLAST
Chaini4378 – 5310933RNA-directed RNA polymeraseBy similarityPRO_0000422449Add
BLAST
Chaini5311 – 5908598HelicaseBy similarityPRO_0000422450Add
BLAST
Chaini5909 – 6432524Guanine-N7 methyltransferaseBy similarityPRO_0000422451Add
BLAST
Chaini6433 – 6775343Uridylate-specific endoribonucleaseBy similarityPRO_0000422452Add
BLAST
Chaini6776 – 70783032'-O-methyltransferaseBy similarityPRO_0000422453Add
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).By similarity

Interactioni

Subunit structurei

Nsp2 interacts with host PHB and PHB2. 3CL-PRO exists as monomer and homodimer. Nsp4 interacts with PL-PRO and nsp6. Only the homodimer shows catalytic activity. Eight copies of nsp7 and eight copies of nsp8 assemble to form a heterohexadecamer dsRNA-encircling ring structure. Nsp9 is a dimer. Nsp10 forms a dodecamer and interacts with nsp14 and nsp16; these interactions enhance nsp14 and nsp16 enzymatic activities. Nsp14 interacts (via N-terminus) with DDX1.By similarity

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1110 – 1276167MacroPROSITE-ProRule annotationAdd
BLAST
Domaini1552 – 1823272Peptidase C16PROSITE-ProRule annotationAdd
BLAST
Domaini3248 – 3553306Peptidase C30PROSITE-ProRule annotationAdd
BLAST
Domaini4990 – 5152163RdRp catalyticPROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni2040 – 2363324HD1Add
BLAST
Regioni2761 – 3171411HD2Add
BLAST
Regioni3571 – 3785215HD3Add
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.PROSITE-ProRule annotation
Contains 1 peptidase C16 domain.PROSITE-ProRule annotation
Contains 1 peptidase C30 domain.PROSITE-ProRule annotation
Contains 1 RdRp catalytic domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri1672 – 170938C4-typePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri4311 – 432717Add
BLAST
Zinc fingeri4354 – 436714Add
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.
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.
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.
PF11633. SUD-M. 1 hit.
PF08715. Viral_protease. 1 hit.
[Graphical view]
SMARTiSM00506. A1pp. 1 hit.
[Graphical view]
SUPFAMiSSF101816. SSF101816. 1 hit.
SSF144246. SSF144246. 1 hit.
SSF50494. SSF50494. 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. 1 hit.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 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: K9N7C7-1) [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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        10         20         30         40         50
MSFVAGVTAQ GARGTYRAAL NSEKHQDHVS LTVPLCGSGN LVEKLSPWFM
60 70 80 90 100
DGENAYEVVK AMLLKKEPLL YVPIRLAGHT RHLPGPRVYL VERLIACENP
110 120 130 140 150
FMVNQLAYSS SANGSLVGTT LQGKPIGMFF PYDIELVTGK QNILLRKYGR
160 170 180 190 200
GGYHYTPFHY ERDNTSCPEW MDDFEADPKG KYAQNLLKKL IGGDVTPVDQ
210 220 230 240 250
YMCGVDGKPI SAYAFLMAKD GITKLADVEA DVAARADDEG FITLKNNLYR
260 270 280 290 300
LVWHVERKDV PYPKQSIFTI NSVVQKDGVE NTPPHYFTLG CKILTLTPRN
310 320 330 340 350
KWSGVSDLSL KQKLLYTFYG KESLENPTYI YHSAFIECGS CGNDSWLTGN
360 370 380 390 400
AIQGFACGCG ASYTANDVEV QSSGMIKPNA LLCATCPFAK GDSCSSNCKH
410 420 430 440 450
SVAQLVSYLS ERCNVIADSK SFTLIFGGVA YAYFGCEEGT MYFVPRAKSV
460 470 480 490 500
VSRIGDSIFT GCTGSWNKVT QIANMFLEQT QHSLNFVGEF VVNDVVLAIL
510 520 530 540 550
SGTTTNVDKI RQLLKGVTLD KLRDYLADYD VAVTAGPFMD NAINVGGTGL
560 570 580 590 600
QYAAITAPYV VLTGLGESFK KVATIPYKVC NSVKDTLTYY AHSVLYRVFP
610 620 630 640 650
YDMDSGVSSF SELLFDCVDL SVASTYFLVR LLQDKTGDFM STIITSCQTA
660 670 680 690 700
VSKLLDTCFE ATEATFNFLL DLAGLFRIFL RNAYVYTSQG FVVVNGKVST
710 720 730 740 750
LVKQVLDLLN KGMQLLHTKV SWAGSNISAV IYSGRESLIF PSGTYYCVTT
760 770 780 790 800
KAKSVQQDLD VILPGEFSKK QLGLLQPTDN STTVSVTVSS NMVETVVGQL
810 820 830 840 850
EQTNMHSPDV IVGDYVIISE KLFVRSKEED GFAFYPACTN GHAVPTLFRL
860 870 880 890 900
KGGAPVKKVA FGGDQVHEVA AVRSVTVEYN IHAVLDTLLA SSSLRTFVVD
910 920 930 940 950
KSLSIEEFAD VVKEQVSDLL VKLLRGMPIP DFDLDDFIDA PCYCFNAEGD
960 970 980 990 1000
ASWSSTMIFS LHPVECDEEC SEVEASDLEE GESECISETS TEQVDVSHEI
1010 1020 1030 1040 1050
SDDEWAAAVD EAFPLDEAED VTESVQEEAQ PVEVPVEDIA QVVIADTLQE
1060 1070 1080 1090 1100
TPVVSDTVEV PPQVVKLPSE PQTIQPEVKE VAPVYEADTE QTQSVTVKPK
1110 1120 1130 1140 1150
RLRKKRNVDP LSNFEHKVIT ECVTIVLGDA IQVAKCYGES VLVNAANTHL
1160 1170 1180 1190 1200
KHGGGIAGAI NAASKGAVQK ESDEYILAKG PLQVGDSVLL QGHSLAKNIL
1210 1220 1230 1240 1250
HVVGPDARAK QDVSLLSKCY KAMNAYPLVV TPLVSAGIFG VKPAVSFDYL
1260 1270 1280 1290 1300
IREAKTRVLV VVNSQDVYKS LTIVDIPQSL TFSYDGLRGA IRKAKDYGFT
1310 1320 1330 1340 1350
VFVCTDNSAN TKVLRNKGVD YTKKFLTVDG VQYYCYTSKD TLDDILQQAN
1360 1370 1380 1390 1400
KSVGIISMPL GYVSHGLDLI QAGSVVRRVN VPYVCLLANK EQEAILMSED
1410 1420 1430 1440 1450
VKLNPSEDFI KHVRTNGGYN SWHLVEGELL VQDLRLNKLL HWSDQTICYK
1460 1470 1480 1490 1500
DSVFYVVKNS TAFPFETLSA CRAYLDSRTT QQLTIEVLVT VDGVNFRTVV
1510 1520 1530 1540 1550
LNNKNTYRSQ LGCVFFNGAD ISDTIPDEKQ NGHSLYLADN LTADETKALK
1560 1570 1580 1590 1600
ELYGPVDPTF LHRFYSLKAA VHKWKMVVCD KVRSLKLSDN NCYLNAVIMT
1610 1620 1630 1640 1650
LDLLKDIKFV IPALQHAFMK HKGGDSTDFI ALIMAYGNCT FGAPDDASRL
1660 1670 1680 1690 1700
LHTVLAKAEL CCSARMVWRE WCNVCGIKDV VLQGLKACCY VGVQTVEDLR
1710 1720 1730 1740 1750
ARMTYVCQCG GERHRQIVEH TTPWLLLSGT PNEKLVTTST APDFVAFNVF
1760 1770 1780 1790 1800
QGIETAVGHY VHARLKGGLI LKFDSGTVSK TSDWKCKVTD VLFPGQKYSS
1810 1820 1830 1840 1850
DCNVVRYSLD GNFRTEVDPD LSAFYVKDGK YFTSEPPVTY SPATILAGSV
1860 1870 1880 1890 1900
YTNSCLVSSD GQPGGDAISL SFNNLLGFDS SKPVTKKYTY SFLPKEDGDV
1910 1920 1930 1940 1950
LLAEFDTYDP IYKNGAMYKG KPILWVNKAS YDTNLNKFNR ASLRQIFDVA
1960 1970 1980 1990 2000
PIELENKFTP LSVESTPVEP PTVDVVALQQ EMTIVKCKGL NKPFVKDNVS
2010 2020 2030 2040 2050
FVADDSGTPV VEYLSKEDLH TLYVDPKYQV IVLKDNVLSS MLRLHTVESG
2060 2070 2080 2090 2100
DINVVAASGS LTRKVKLLFR ASFYFKEFAT RTFTATTAVG SCIKSVVRHL
2110 2120 2130 2140 2150
GVTKGILTGC FSFVKMLFML PLAYFSDSKL GTTEVKVSAL KTAGVVTGNV
2160 2170 2180 2190 2200
VKQCCTAAVD LSMDKLRRVD WKSTLRLLLM LCTTMVLLSS VYHLYVFNQV
2210 2220 2230 2240 2250
LSSDVMFEDA QGLKKFYKEV RAYLGISSAC DGLASAYRAN SFDVPTFCAN
2260 2270 2280 2290 2300
RSAMCNWCLI SQDSITHYPA LKMVQTHLSH YVLNIDWLWF AFETGLAYML
2310 2320 2330 2340 2350
YTSAFNWLLL AGTLHYFFAQ TSIFVDWRSY NYAVSSAFWL FTHIPMAGLV
2360 2370 2380 2390 2400
RMYNLLACLW LLRKFYQHVI NGCKDTACLL CYKRNRLTRV EASTVVCGGK
2410 2420 2430 2440 2450
RTFYITANGG ISFCRRHNWN CVDCDTAGVG NTFICEEVAN DLTTALRRPI
2460 2470 2480 2490 2500
NATDRSHYYV DSVTVKETVV QFNYRRDGQP FYERFPLCAF TNLDKLKFKE
2510 2520 2530 2540 2550
VCKTTTGIPE YNFIIYDSSD RGQESLARSA CVYYSQVLCK SILLVDSSLV
2560 2570 2580 2590 2600
TSVGDSSEIA TKMFDSFVNS FVSLYNVTRD KLEKLISTAR DGVRRGDNFH
2610 2620 2630 2640 2650
SVLTTFIDAA RGPAGVESDV ETNEIVDSVQ YAHKHDIQIT NESYNNYVPS
2660 2670 2680 2690 2700
YVKPDSVSTS DLGSLIDCNA ASVNQIVLRN SNGACIWNAA AYMKLSDALK
2710 2720 2730 2740 2750
RQIRIACRKC NLAFRLTTSK LRANDNILSV RFTANKIVGG APTWFNALRD
2760 2770 2780 2790 2800
FTLKGYVLAT IIVFLCAVLM YLCLPTFSMV PVEFYEDRIL DFKVLDNGII
2810 2820 2830 2840 2850
RDVNPDDKCF ANKHRSFTQW YHEHVGGVYD NSITCPLTVA VIAGVAGARI
2860 2870 2880 2890 2900
PDVPTTLAWV NNQIIFFVSR VFANTGSVCY TPIDEIPYKS FSDSGCILPS
2910 2920 2930 2940 2950
ECTMFRDAEG RMTPYCHDPT VLPGAFAYSQ MRPHVRYDLY DGNMFIKFPE
2960 2970 2980 2990 3000
VVFESTLRIT RTLSTQYCRF GSCEYAQEGV CITTNGSWAI FNDHHLNRPG
3010 3020 3030 3040 3050
VYCGSDFIDI VRRLAVSLFQ PITYFQLTTS LVLGIGLCAF LTLLFYYINK
3060 3070 3080 3090 3100
VKRAFADYTQ CAVIAVVAAV LNSLCICFVA SIPLCIVPYT ALYYYATFYF
3110 3120 3130 3140 3150
TNEPAFIMHV SWYIMFGPIV PIWMTCVYTV AMCFRHFFWV LAYFSKKHVE
3160 3170 3180 3190 3200
VFTDGKLNCS FQDAASNIFV INKDTYAALR NSLTNDAYSR FLGLFNKYKY
3210 3220 3230 3240 3250
FSGAMETAAY REAAACHLAK ALQTYSETGS DLLYQPPNCS ITSGVLQSGL
3260 3270 3280 3290 3300
VKMSHPSGDV EACMVQVTCG SMTLNGLWLD NTVWCPRHVM CPADQLSDPN
3310 3320 3330 3340 3350
YDALLISMTN HSFSVQKHIG APANLRVVGH AMQGTLLKLT VDVANPSTPA
3360 3370 3380 3390 3400
YTFTTVKPGA AFSVLACYNG RPTGTFTVVM RPNYTIKGSF LCGSCGSVGY
3410 3420 3430 3440 3450
TKEGSVINFC YMHQMELANG THTGSAFDGT MYGAFMDKQV HQVQLTDKYC
3460 3470 3480 3490 3500
SVNVVAWLYA AILNGCAWFV KPNRTSVVSF NEWALANQFT EFVGTQSVDM
3510 3520 3530 3540 3550
LAVKTGVAIE QLLYAIQQLY TGFQGKQILG STMLEDEFTP EDVNMQIMGV
3560 3570 3580 3590 3600
VMQSGVRKVT YGTAHWLFAT LVSTYVIILQ ATKFTLWNYL FETIPTQLFP
3610 3620 3630 3640 3650
LLFVTMAFVM LLVKHKHTFL TLFLLPVAIC LTYANIVYEP TTPISSALIA
3660 3670 3680 3690 3700
VANWLAPTNA YMRTTHTDIG VYISMSLVLV IVVKRLYNPS LSNFALALCS
3710 3720 3730 3740 3750
GVMWLYTYSI GEASSPIAYL VFVTTLTSDY TITVFVTVNL AKVCTYAIFA
3760 3770 3780 3790 3800
YSPQLTLVFP EVKMILLLYT CLGFMCTCYF GVFSLLNLKL RAPMGVYDFK
3810 3820 3830 3840 3850
VSTQEFRFMT ANNLTAPRNS WEAMALNFKL IGIGGTPCIK VAAMQSKLTD
3860 3870 3880 3890 3900
LKCTSVVLLS VLQQLHLEAN SRAWAFCVKC HNDILAATDP SEAFEKFVSL
3910 3920 3930 3940 3950
FATLMTFSGN VDLDALASDI FDTPSVLQAT LSEFSHLATF AELEAAQKAY
3960 3970 3980 3990 4000
QEAMDSGDTS PQVLKALQKA VNIAKNAYEK DKAVARKLER MADQAMTSMY
4010 4020 4030 4040 4050
KQARAEDKKA KIVSAMQTML FGMIKKLDND VLNGIISNAR NGCIPLSVIP
4060 4070 4080 4090 4100
LCASNKLRVV IPDFTVWNQV VTYPSLNYAG ALWDITVINN VDNEIVKSSD
4110 4120 4130 4140 4150
VVDSNENLTW PLVLECTRAS TSAVKLQNNE IKPSGLKTMV VSAGQEQTNC
4160 4170 4180 4190 4200
NTSSLAYYEP VQGRKMLMAL LSDNAYLKWA RVEGKDGFVS VELQPPCKFL
4210 4220 4230 4240 4250
IAGPKGPEIR YLYFVKNLNN LHRGQVLGHI AATVRLQAGS NTEFASNSSV
4260 4270 4280 4290 4300
LSLVNFTVDP QKAYLDFVNA GGAPLTNCVK MLTPKTGTGI AISVKPESTA
4310 4320 4330 4340 4350
DQETYGGASV CLYCRAHIEH PDVSGVCKYK GKFVQIPAQC VRDPVGFCLS
4360 4370 4380 4390 4400
NTPCNVCQYW IGYGCNCDSL RQAALPQSKD SNFLKRVRGS IVNARIEPCS
4410 4420 4430 4440 4450
SGLSTDVVFR AFDICNYKAK VAGIGKYYKT NTCRFVELDD QGHHLDSYFV
4460 4470 4480 4490 4500
VKRHTMENYE LEKHCYDLLR DCDAVAPHDF FIFDVDKVKT PHIVRQRLTE
4510 4520 4530 4540 4550
YTMMDLVYAL RHFDQNSEVL KAILVKYGCC DVTYFENKLW FDFVENPSVI
4560 4570 4580 4590 4600
GVYHKLGERV RQAILNTVKF CDHMVKAGLV GVLTLDNQDL NGKWYDFGDF
4610 4620 4630 4640 4650
VITQPGSGVA IVDSYYSYLM PVLSMTDCLA AETHRDCDFN KPLIEWPLTE
4660 4670 4680 4690 4700
YDFTDYKVQL FEKYFKYWDQ TYHANCVNCT DDRCVLHCAN FNVLFAMTMP
4710 4720 4730 4740 4750
KTCFGPIVRK IFVDGVPFVV SCGYHYKELG LVMNMDVSLH RHRLSLKELM
4760 4770 4780 4790 4800
MYAADPAMHI ASSNAFLDLR TSCFSVAALT TGLTFQTVRP GNFNQDFYDF
4810 4820 4830 4840 4850
VVSKGFFKEG SSVTLKHFFF AQDGNAAITD YNYYSYNLPT MCDIKQMLFC
4860 4870 4880 4890 4900
MEVVNKYFEI YDGGCLNASE VVVNNLDKSA GHPFNKFGKA RVYYESMSYQ
4910 4920 4930 4940 4950
EQDELFAMTK RNVIPTMTQM NLKYAISAKN RARTVAGVSI LSTMTNRQYH
4960 4970 4980 4990 5000
QKMLKSMAAT RGATCVIGTT KFYGGWDFML KTLYKDVDNP HLMGWDYPKC
5010 5020 5030 5040 5050
DRAMPNMCRI FASLILARKH GTCCTTRDRF YRLANECAQV LSEYVLCGGG
5060 5070 5080 5090 5100
YYVKPGGTSS GDATTAYANS VFNILQATTA NVSALMGANG NKIVDKEVKD
5110 5120 5130 5140 5150
MQFDLYVNVY RSTSPDPKFV DKYYAFLNKH FSMMILSDDG VVCYNSDYAA
5160 5170 5180 5190 5200
KGYIAGIQNF KETLYYQNNV FMSEAKCWVE TDLKKGPHEF CSQHTLYIKD
5210 5220 5230 5240 5250
GDDGYFLPYP DPSRILSAGC FVDDIVKTDG TLMVERFVSL AIDAYPLTKH
5260 5270 5280 5290 5300
EDIEYQNVFW VYLQYIEKLY KDLTGHMLDS YSVMLCGDNS AKFWEEAFYR
5310 5320 5330 5340 5350
DLYSSPTTLQ AVGSCVVCHS QTSLRCGTCI RRPFLCCKCC YDHVIATPHK
5360 5370 5380 5390 5400
MVLSVSPYVC NAPGCGVSDV TKLYLGGMSY FCVDHRPVCS FPLCANGLVF
5410 5420 5430 5440 5450
GLYKNMCTGS PSIVEFNRLA TCDWTESGDY TLANTTTEPL KLFAAETLRA
5460 5470 5480 5490 5500
TEEASKQSYA IATIKEIVGE RQLLLVWEAG KSKPPLNRNY VFTGYHITKN
5510 5520 5530 5540 5550
SKVQLGEYIF ERIDYSDAVS YKSSTTYKLT VGDIFVLTSH SVATLTAPTI
5560 5570 5580 5590 5600
VNQERYVKIT GLYPTITVPE EFASHVANFQ KSGYSKYVTV QGPPGTGKSH
5610 5620 5630 5640 5650
FAIGLAIYYP TARVVYTACS HAAVDALCEK AFKYLNIAKC SRIIPAKARV
5660 5670 5680 5690 5700
ECYDRFKVNE TNSQYLFSTI NALPETSADI LVVDEVSMCT NYDLSIINAR
5710 5720 5730 5740 5750
IKAKHIVYVG DPAQLPAPRT LLTRGTLEPE NFNSVTRLMC NLGPDIFLSM
5760 5770 5780 5790 5800
CYRCPKEIVS TVSALVYNNK LLAKKELSGQ CFKILYKGNV THDASSAINR
5810 5820 5830 5840 5850
PQLTFVKNFI TANPAWSKAV FISPYNSQNA VARSMLGLTT QTVDSSQGSE
5860 5870 5880 5890 5900
YQYVIFCQTA DTAHANNINR FNVAITRAQK GILCVMTSQA LFESLEFTEL
5910 5920 5930 5940 5950
SFTNYKLQSQ IVTGLFKDCS RETSGLSPAY APTYVSVDDK YKTSDELCVN
5960 5970 5980 5990 6000
LNLPANVPYS RVISRMGFKL DATVPGYPKL FITREEAVRQ VRSWIGFDVE
6010 6020 6030 6040 6050
GAHASRNACG TNVPLQLGFS TGVNFVVQPV GVVDTEWGNM LTGIAARPPP
6060 6070 6080 6090 6100
GEQFKHLVPL MHKGAAWPIV RRRIVQMLSD TLDKLSDYCT FVCWAHGFEL
6110 6120 6130 6140 6150
TSASYFCKIG KEQKCCMCNR RAAAYSSPLQ SYACWTHSCG YDYVYNPFFV
6160 6170 6180 6190 6200
DVQQWGYVGN LATNHDRYCS VHQGAHVASN DAIMTRCLAI HSCFIERVDW
6210 6220 6230 6240 6250
DIEYPYISHE KKLNSCCRIV ERNVVRAALL AGSFDKVYDI GNPKGIPIVD
6260 6270 6280 6290 6300
DPVVDWHYFD AQPLTRKVQQ LFYTEDMASR FADGLCLFWN CNVPKYPNNA
6310 6320 6330 6340 6350
IVCRFDTRVH SEFNLPGCDG GSLYVNKHAF HTPAYDVSAF RDLKPLPFFY
6360 6370 6380 6390 6400
YSTTPCEVHG NGSMIEDIDY VPLKSAVCIT ACNLGGAVCR KHATEYREYM
6410 6420 6430 6440 6450
EAYNLVSASG FRLWCYKTFD IYNLWSTFTK VQGLENIAFN FVKQGHFIGV
6460 6470 6480 6490 6500
EGELPVAVVN DKIFTKSGVN DICMFENKTT LPTNIAFELY AKRAVRSHPD
6510 6520 6530 6540 6550
FKLLHNLQAD ICYKFVLWDY ERSNIYGTAT IGVCKYTDID VNSALNICFD
6560 6570 6580 6590 6600
IRDNGSLEKF MSTPNAIFIS DRKIKKYPCM VGPDYAYFNG AIIRDSDVVK
6610 6620 6630 6640 6650
QPVKFYLYKK VNNEFIDPTE CIYTQSRSCS DFLPLSDMEK DFLSFDSDVF
6660 6670 6680 6690 6700
IKKYGLENYA FEHVVYGDFS HTTLGGLHLL IGLYKKQQEG HIIMEEMLKG
6710 6720 6730 6740 6750
SSTIHNYFIT ETNTAAFKAV CSVIDLKLDD FVMILKSQDL GVVSKVVKVP
6760 6770 6780 6790 6800
IDLTMIEFML WCKDGQVQTF YPRLQASADW KPGHAMPSLF KVQNVNLERC
6810 6820 6830 6840 6850
ELANYKQSIP MPRGVHMNIA KYMQLCQYLN TCTLAVPANM RVIHFGAGSD
6860 6870 6880 6890 6900
KGIAPGTSVL RQWLPTDAII IDNDLNEFVS DADITLFGDC VTVRVGQQVD
6910 6920 6930 6940 6950
LVISDMYDPT TKNVTGSNES KALFFTYLCN LINNNLALGG SVAIKITEHS
6960 6970 6980 6990 7000
WSVELYELMG KFAWWTVFCT NANASSSEGF LLGINYLGTI KENIDGGAMH
7010 7020 7030 7040 7050
ANYIFWRNST PMNLSTYSLF DLSKFQLKLK GTPVLQLKES QINELVISLL
7060 7070
SQGKLLIRDN DTLSVSTDVL VNTYRKLR

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

Length:7,078
Mass (Da):789,563
Last modified:March 6, 2013 - v1
Checksum:iA944AF691D57A1E0
GO
Isoform Replicase polyprotein 1a (identifier: K9N638-1) [UniParc]FASTAAdd to Basket

Also known as: pp1a, ORF1a polyprotein

The sequence of this isoform can be found in the external entry K9N638.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Note: Produced by conventional translation.

Length:4,391
Mass (Da):486,059
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
KC164505 Genomic RNA. Translation: AFY13306.1.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
KC164505 Genomic RNA. Translation: AFY13306.1 .

3D structure databases

ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

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.
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.
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.
PF11633. SUD-M. 1 hit.
PF08715. Viral_protease. 1 hit.
[Graphical view ]
SMARTi SM00506. A1pp. 1 hit.
[Graphical view ]
SUPFAMi SSF101816. SSF101816. 1 hit.
SSF144246. SSF144246. 1 hit.
SSF50494. SSF50494. 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. 1 hit.
PS51657. PSRV_HELICASE. 1 hit.
PS50507. RDRP_SSRNA_POS. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Severe respiratory illness caused by a novel coronavirus, in a patient transferred to the United Kingdom from the Middle East, September 2012."
    Bermingham A., Chand M.A., Brown C.S., Aarons E., Tong C., Langrish C., Hoschler K., Brown K., Galiano M., Myers R., Pebody R.G., Green H.K., Boddington N.L., Gopal R., Price N., Newsholme W., Drosten C., Fouchier R.A., Zambon M.
    Eurosurveillance 17:20290-20290(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Entry informationi

Entry nameiR1AB_CVEMC
AccessioniPrimary (citable) accession number: K9N7C7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 29, 2013
Last sequence update: March 6, 2013
Last modified: October 29, 2014
This is version 17 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

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