Coronavirus Database

Strain

Human_TGEV_KX900410 (Region: USA: Minnesota; Strain: Transmissible gastroenteritis virus strain TGEV/USA/Minnesota153/2014, complete genome.; Date: 4-Feb-14)

Gene

replicase 1b

Description

Annotated in NCBI, replicase 1b

Location

KX900410(+):12320-20356

GenBank Accession

ASV64428.1

Full name

Replicase polyprotein 1ab

Alternative Name

ORF1ab polyprotein

CDS

TTTAAACGAGTGCGGGGTTCTAGTGCAGCTCGACTAGAACCCTGCAATGGTACTGATCCAGACCATGTTAGTAGAGCTTTTGACATCTACAACAAAGATGTTGCGTGTATTGGTAAATTTCTCAAGACGAATTGTTCAAGATTTAGGAATTTGGACAAACACGATGCCTACTACATTGTCAAACGTTGTACAAAGACCGTTATGGACCATGAGCAAGTCTGTTATAACGATCTTAAAGATTCTGGTGCTGTTGCTGAGCATGACTTCTTTACATATAAAGAGGGTAGATGTGAGTTTGGTAATGTTGCACGTAGGAATCTTACAAAGTACACAATGATGGATCTTTGTTACGCCATCAGAAATTTTGATGAAAGGAACTGTGAAGTTCTCAAAGAAATACTTGTGATAGTAGGTGCCTGCACTGAAGAATTCTTTGAAAATAAAGATTGGTTTGATCCAGTTGAAAATGAGGCCATACATGAAGTTTATGCAAAACTTGGACCCATTGTAGCCAATGCTATGCTTAAATGTGTTGCTTTTTGCGATTCGATAGTTGAAAAAGGCTATATAGGTGTTATAACACTTGACAATCAAGACCTTAATGGTAATTTCTACGATTTCGGAGATTTCGTGAAGACTGCTCCAGGTTTTGGTTGTGCTTGTGTTACATCATATTATTCTTATATGATGCCTTTAATGGGAATGACTTCATGTTTAGAGTCTGAAAACTTTGTGAAAAGTGACATCTATGGTTCTGATTATAAGCAGTATGATTTACTAGCTTATGATTTCACCGAACATAAGGAGTACCTTTTCCAAAAATACTTTAAGTACTGGGATCGCACATATCACCCAAATTGTTCTGATTGTACTAGTGACGAGTGTATCATTCATTGTGCCAATTTTAACACATTGTTTTCTATGACAATACCAATGACAGCTTTTGGACCACTTGTCCGTAAAGTTCATATTGATGGTGTACCAGTAGTTGTTACCGCAGGTTACCATTTCAAACAACTTGGTATAGTATGGAATCTTGATGTAAAATTAGACATGATGAAGTTGAGCATGACTGATCTTCTTAGATTTGTCACAGATCCAACACTTCTTGTAGCATCTAGCCCTGCACTCTTAGACCAGCGTACTGTCTGTTTCTCCATTGCAGCTTTGAGTACTGGTATTACATATCAGACAGTAAAACCAGGTCACTTTAACAAAGATTTCTACGATTTCATAACAGAGCGTGGATTCTTTGAAGAGGGATCTGAGTTAACATTAAAGCACTTTTTCTTTGCACAGGGTGGTGAAGCTGCTATGACAGACTTCAATTATTATCGCTACAATAGAGTCACAGTACTTGATATTTGCCAAGCTCAATTTGTTTACAAAATAGTTGGCAAATATTTTGAATGTTATGATGGAGGGTGCATTAGTGCTCGTGAAGTTGTTGTTACAAACTATGATAAGAGTGCTGGTTATCCTTTGAACAAATTTGGTAAAGCTAGACTTTACTACGAAACTCTTTCATATGAAGAGCAGGATGCACTTTTTGCTTTAACAAAGAGAAATGTTTTACCCACAATGACTCAAATGAATTTGAAATATGCTATTTCTGGTAAGGCAAGAGCTCGTACAGTAGGAGGAGTTTCACTTCTTTCTACCATGACTACGAGACAATACCACCAGAAGCATTTGAAGTCAATTGCTGCAACATGTAACGCTACTGTGGTTATTGGTTCAACCAAGTTTTATGGTGGTTGGGACAATATGCTTAAAAATTTAATGCGTGACGTTGATAATGGTTGTCTGATGGGATGGGACTATCCAAAGTGTGACCGTGCTCTACCTAACATGATTAGAATGGCTTCTGCCATGATATTAGGTTCTAAGCATGTTGGTTGTTGTACACATAATGATAGATTCTATCGCCTCTCCAATGAGTTAGCACAAGTACTCACAGAAGTTGTGCATTGCACAGGTGGTTTTTATTTTAAACCTGGTGGTACAACTAGTGGTGATGGTACTACAGCATATGCTAACTCTGCTTTTAACATTTTCCAAGCTGTTTCTGCTAATGTTAATAAGCTTTTAGGAGTTGATTCAAACGCTTGTAACAACGTTACAGTAAAATCCATACAGCGTAAAGTTTACGATAATTGTTATCGTAGTAGCAGCATTGACGAAGAATTTGTTGTTGAGTACTTTAGTTATTTGAGAAAACACTTTTCTATGATGATTTTATCTGATGATGGAGTCGTGTGCTACAACAAAGATTATGCTGACTTAGGTTATGTAGCTGACATTAATGCTTTTAAAGCAACACTTTATTACCAGAATAATGTCTTCATGTCCACTTCTAAGTGTTGGGTAGAACCAGATCTTAGTGTTGGACCACATGAATTTTGTTCACAGCATACATTGCAGATTGTTGGACCTGATGGAGACTACTACCTTCCCTATCCAGATCCGTCCAGAATTTTGTCAGCTGGTGTGTTTGTTGATGACATAGTTAAAACAGACAATGTTATTATGTTAGAACGTTACGTGTCATTGGCTATTGATGCATACCCGCTTACAAAACATCCTAAGCCTGCTTATCAAAAAGTTTTTTATACTCTATTAGATTGGGTTAAACATTTACAGAAAAACTTGAATGCAGGTGTTCTTGATTCTTTTTCAGTGACAATGTTAGAGGAAGGTCAAGATAAGTTCTGGAGTGAAGAGTTTTACGCTAGCCTCTATGAAAAATCTACTGTCTTGCAAGCTGCAGGTATGTGTGTAGTATGTGGTTCGCAAACTGTACTTCGTTGTGGAGACTGTCTTAGGAGACCACTTTTATGCACGAAGTGTGCTTATGACCATGTTATGGGAACAAAGCATAAATTCATTATGTCTATTACGCCATATGTGTGTAGTTTTAGTGGTTGTAATGTCAATGATGTTACAAAGTTGTTTTTAGGTGGTCTTAGTTATTATTGTATGAACCACAAACCACAGTTGTCATTCCCACTCTGTGCTAATGGCAACGTTTTTGGTCTATATAAAAGTAGTGCGGTAGGTTCAGAGGCTGTTGAAGATTTTAACAAACTTGCAGTCTCTGACTGGACTAATGTGGAAGACTACAAACTTGCTAACAATGTCAAGGAATCTCTGAAAATTTTCGCTGCTGAAACTGTGAAAGCTAAGGAGGAGTCTGTTAAATCTGAATATGCTTATGCTGTATTAAAAGAGGTTATCGGCCCTAAAGAAATTGTACTCCAATGGGAGGCTTCTAAGACTAAGCCTCCACTTAATAGAAATTCAGTTTTCACGTGTTTTCAGATAAGTAAGGATACTAAAATTCAATTAGGTGAATTTGTGTTTGAGCAATCTGAGTACGGTAGTGATTCTGTTTATTACAAGAGTACGAGTACTTATAAATTGACACCAGGTATGATTTTTGTGTTGACTTCTCACAACGTGAGTCCCCTTAAAGCTCCAATTTTAGTCAACCAAGAAAAGTACAATACCATATCTAAGCTCTATCCTGTCTTTAATATAGCGGAAGCCTATAATACACTGGTTCCTTACTACCAAATGATAGGTAAGCAAAAATTTACAACTATACAAGGTCCTCCTGGTAGCGGTAAATCTCATTGTGTTATAGGTTTGGGTTTGTATTATCCTCAGGCGAGAATAGTCTACACTGCATGTTCCCATGCTGCTGTAGACGCCTTATGTGAAAAAGCAGCCAAAAACTTCAATGTTGATAGATGTTCAAGACTAATACCTCAAAGAATCAGAGTTGACTGTTATACTGGCTTTAAGCCGAATAACACTAATGCGCAGTACTTGTTTTGTACTGTCAATGCTCTACCAGAAGTAAGTTGTGACATTGTTGTAGTTGATGAGGTCTCTATGTGCACTAATTATGATCTTAGTGTCATAAATAGCCGGTTGAGTTACAAACACATTGTCTATGTTGGAGACCCACAGCAGCTACCAGCTCCTAGAACTCTGATTAATAAAGGTGTACTTCAACCGCAGGATTACAATGTTGTAACCAAAAGAATGTGCACACTAGGACCTGATGTCTTTTTGCATAAATGTTACAGGTGCCCAGCCGAAATTGTTAAGACAGTCTCTGCACTTGTTTATGAAAACAAGTTTGTACCTGTCAACCCAGAATCAAAGCAATGCTTTAAAATGTTTGTAAAAGGCCAGGTTCAGATTGAGTCTAACTCTTCTATAAACAATAAGCAACTAGAGGTTGTCAGGGCCTTTTTAACACATAATCCAAAATGGCGCAAAGCTGTTTTCATCTCACCATATAATAGTCAAAATTATGTTGCTCGGCGCCTTCTTGGTTTGCAAACGCAAACTGTGGATTCCGCACAGGGTAGTGAGTATGATTACGTCATTTACACACAGACCTCCGATACACAGCATGCTACTAATGTTAACAGATTTAATGTTGCCATTACGAGAGCAAAGGTTGGTATACTTTGTATCATGTGTGATAGAACCATGTATGAGAATCTTGATTTCTATGAACTCAAAGATTCAAAGATTGGTTTACAAGCTAAACCTGAAACTTGTGGTTTATTTAAAGATTGTTCGAAGAGCGAACAATACATACCACCTGCTTATGCAACGACATATATGAGTTTATCTGATAATTTTAAGACAAGTGATGGTTTAGCTGTTAACATCGGTATAAAAGATGTTAAATATGCTAATGTCATCTCATATATGGGATTCAGGTTTGAAGCCAACATACCAGGTTATCATACACTATTCTGCACACGAGATTTTGCTATGCGTAATGTTAGAGCATGGCTCGGCTTTGACGTTGAAGGCGCACATGTCTGTGGTGATAATGTTGGAACTAACGTACCATTACAACTTGGTTTCTCAAACGGTGTGGATTTTGTAGTGCAAACTGAAGGGTGTGTTATTACTGAAAAAGGTAATAGCATTGAGGTTGTAAAATCACGAGCACCACCGGGTGAGCAATTTGCACACTTGATCCCGCTTATGAGAAAGGGTCAACCTTGGCACATCGTTAGACGCCGTATAGTGCAGATGGTCTGTGACTATTTTGATGGCTTATCAGACATTCTGATCTTTGTGCTTTGGGCTGGTGGTCTTGAACTTACAACTATGAGGTATTTTGTTAAAATTGGGAGACCACAAAAATGTGAGTGCGGCAAAAGTGCAACTTGTTATAGTAGCTCTCAATCCGTCTATGCTTGCTTTAAGCATGCATTGGGATGTGATTATTTATACAACCCTTATTGCATAGACATACAGCAATGGGGCTACACAGGATCTTTGAGCATGAATCATCATGAAGTTTGCAACATTCATAGAAATGAGCATGTAGCTAGTGGTGATGCTATCATGACTAGATGTCTCGCTATACATGACTGCTTTGTCAAACGTGTTGATTGGTCAATTGTGTACCCCTTTATTGACAATGAAGATAAGATCAATAAAGCTGGTCGCATAGTGCAGTCACATGTCATGAAAGCTGCTCTGAAGATTTTTAACCCTGCTGCAATTCACGATGTTGGTAATCCAAAAGGCATCCGTTGTGCTACAACACCAATACCATGGTTTTGTTATGATCGTGATCCTATTAATAATAATGTTAGATGCCTGGACTATGACTATATGGTACATGGTCAAATGAATGGTCTTATGTTATTTTGGAACTGTAATGTAGACATGTACCCAGAGTTTTCAATTGTTTGTAGATTTGACACTCGCACTCGTTCTAAATTGTCTTTAGAAGGTTGTAATGGTGGTGCATTGTATGTTAATAACCATGCTTTCCACACACCAGCTTATGATAGAAGAGCTTTTGCTAAGCTTAAACCTATGCCATTTTTCTACTATGATGATAGTAATTGTGAACTTGTTGATGGACAACCTAATTATGTACCACTTAAGTCAAATGTTTGCATAACAAAATGTAACATTGGTGGTGCTGTCTGCAAGAAGCATGCTGCTCTTTACAGAGCGTATGTTGAGGATTACAACATTTTTATGCAGGCTGGTTTTACAATATGGTGTCCTCAAACTTTTGACACTTATATGCTTTGGCATGGTTTTGTTAATAGCAGAGCACTTCAGAGTTTAGAAAATGTGGCTTTTAACGTCGTTAAGAAAGGTGCCTTCACTGGTTTAAAAGGTGACTTACCAACTGCTGTTATTGCTGACAAAATAATGGTAAGAGATGGACCTACTGACAGATGTATTTTTACAAATAAGACTAGTTTACCTACTAATGTAGCTTTTGAGTTGTATGCAAAACGCAAACTTGGACTCACACCTCCATTAACAATACTTAGGAACTTAGGTGTTGTCGCAACATATAATTTTGTGTTGTGGGATTATGAAGCTGAATGTCCTTTCTCAAATTTCACTAAGCAAGTTTGTTCTTACACTGATCTTGATAGTGAAGTTGTAACATGTTTTGATAATAGTATTGCTGGTTCTTTTGAGCGTTTTACTACTACAAGAGATGCAGTGCTTATTTCTAATAACGCTGTGAAAGGGCTTAGTGCCATTAAGTTACAATATGGCTTTTTGAATGATTTACCTGTAAGTACTATTGGGAATAAACCTGTCACATGGTATATGTATGTGCGCAAGAATGGTGAGTACGTCGAACAAATCGATAGTTATTATACACAGGGACGTACTTTTGAAACCTTTAAACCTCGTAGTACAATGGAAGAAGATTTTCTTAGTATGGATACTACACTCTTCATTCAAAAGTATGGTCTTGAGGATTATGGTTTTGAACACGTTGTATTTGGAGATGTTTCTAAAACTACCATTGGTGGTATGCATCTTCTTATATCGCAAGTGCGCCTTGCGAAAATGGGTTTGTTTTCCGTTCAAGAATTTATGAATAATTCTGACAGTACACTAAAAAGTTGTTGTATTACATATGCTGATGATCCATCTTCTAAGAATGTGTGCACTTATATGGACATACTCTTGGACGATTTTGTGACTATCATTAAGAGCTTAGATCTTAATGTTGTGTCCAAAGTTGTGGATGTCATTGTAGATTGTAAGGCATGGAGATGGATGTTGTGGTGTGAGAATTCACATATTAAAACATTCTATCCACAACTCCAATCTTCTGAATGGAATCCAGGCTATAGCATGCCTACACTGTACAAAATCCAGCGTATGTGTCTCGAACGGTGTAATCTCTACAATTATGGTGCACAAGTGAAATTACCTGACGGCATTACCACTAATGTCGTTAAGTATACTCAGTTGTGTCAATATCTTAACACTACTACATTGTGTGTACCACACAAAATGCGTGTATTGCATTTAGGAGCTGCTGGTGCATATGGTGTTGCTCCTGGTAGTACTGTATTAAGAAGATGGTTACCAGATGATGCCATATTGGTTGATAATGATTTGAGAGATTACGTTTCCGACGCTGACTTCAGTGTTACAGGTGATTGTACTAGTCTTTACATTGAAGACAAGTTTGATTTGCTCGTCTCTGATTTATACGATGGCTCCACAAAATCAATTGACGGTGAAAACACGTCGAAAGATGGTTTCTTTACTTATATTAATGGTTTCATTAAAGAGAAACTGTCACTTGGTGGATCTGTTGCCATTAAAATCACGGAATTTAGTTGGAATAAAGATTTATATGAATTGATTCAAAGATTTGAGTATTGGACTGTGTTTTGTACAAGTGTTAACACGTCATCATCAGAAGGCTTTCTGATTGGTATTAACTACTTAGGACCATACTGTGACAGAGCAATAGTAGATGGAAATATAATGCATGCCAATTATATATTTTGGAGAAATTCTACAATTATGGCTCTATCACATAACTCAGTCCTAGATACTCCTAAATTCAAGTGTCGTTGTAACAACGCACTTATTGTTAACTTAAAAGAAAAAGAATTGAATGAAATGGTCATTGGATTACTAAGGAAGGGTAAGTTGCTCATTAGAAATAATGGTAAGTTACTAAACTTTGGTAACCACTTCGTTAATACACCATGA

Protein

FKRVRGSSAARLEPCNGTDPDHVSRAFDIYNKDVACIGKFLKTNCSRFRNLDKHDAYYIVKRCTKTVMDHEQVCYNDLKDSGAVAEHDFFTYKEGRCEFGNVARRNLTKYTMMDLCYAIRNFDERNCEVLKEILVIVGACTEEFFENKDWFDPVENEAIHEVYAKLGPIVANAMLKCVAFCDSIVEKGYIGVITLDNQDLNGNFYDFGDFVKTAPGFGCACVTSYYSYMMPLMGMTSCLESENFVKSDIYGSDYKQYDLLAYDFTEHKEYLFQKYFKYWDRTYHPNCSDCTSDECIIHCANFNTLFSMTIPMTAFGPLVRKVHIDGVPVVVTAGYHFKQLGIVWNLDVKLDMMKLSMTDLLRFVTDPTLLVASSPALLDQRTVCFSIAALSTGITYQTVKPGHFNKDFYDFITERGFFEEGSELTLKHFFFAQGGEAAMTDFNYYRYNRVTVLDICQAQFVYKIVGKYFECYDGGCISAREVVVTNYDKSAGYPLNKFGKARLYYETLSYEEQDALFALTKRNVLPTMTQMNLKYAISGKARARTVGGVSLLSTMTTRQYHQKHLKSIAATCNATVVIGSTKFYGGWDNMLKNLMRDVDNGCLMGWDYPKCDRALPNMIRMASAMILGSKHVGCCTHNDRFYRLSNELAQVLTEVVHCTGGFYFKPGGTTSGDGTTAYANSAFNIFQAVSANVNKLLGVDSNACNNVTVKSIQRKVYDNCYRSSSIDEEFVVEYFSYLRKHFSMMILSDDGVVCYNKDYADLGYVADINAFKATLYYQNNVFMSTSKCWVEPDLSVGPHEFCSQHTLQIVGPDGDYYLPYPDPSRILSAGVFVDDIVKTDNVIMLERYVSLAIDAYPLTKHPKPAYQKVFYTLLDWVKHLQKNLNAGVLDSFSVTMLEEGQDKFWSEEFYASLYEKSTVLQAAGMCVVCGSQTVLRCGDCLRRPLLCTKCAYDHVMGTKHKFIMSITPYVCSFSGCNVNDVTKLFLGGLSYYCMNHKPQLSFPLCANGNVFGLYKSSAVGSEAVEDFNKLAVSDWTNVEDYKLANNVKESLKIFAAETVKAKEESVKSEYAYAVLKEVIGPKEIVLQWEASKTKPPLNRNSVFTCFQISKDTKIQLGEFVFEQSEYGSDSVYYKSTSTYKLTPGMIFVLTSHNVSPLKAPILVNQEKYNTISKLYPVFNIAEAYNTLVPYYQMIGKQKFTTIQGPPGSGKSHCVIGLGLYYPQARIVYTACSHAAVDALCEKAAKNFNVDRCSRLIPQRIRVDCYTGFKPNNTNAQYLFCTVNALPEVSCDIVVVDEVSMCTNYDLSVINSRLSYKHIVYVGDPQQLPAPRTLINKGVLQPQDYNVVTKRMCTLGPDVFLHKCYRCPAEIVKTVSALVYENKFVPVNPESKQCFKMFVKGQVQIESNSSINNKQLEVVRAFLTHNPKWRKAVFISPYNSQNYVARRLLGLQTQTVDSAQGSEYDYVIYTQTSDTQHATNVNRFNVAITRAKVGILCIMCDRTMYENLDFYELKDSKIGLQAKPETCGLFKDCSKSEQYIPPAYATTYMSLSDNFKTSDGLAVNIGIKDVKYANVISYMGFRFEANIPGYHTLFCTRDFAMRNVRAWLGFDVEGAHVCGDNVGTNVPLQLGFSNGVDFVVQTEGCVITEKGNSIEVVKSRAPPGEQFAHLIPLMRKGQPWHIVRRRIVQMVCDYFDGLSDILIFVLWAGGLELTTMRYFVKIGRPQKCECGKSATCYSSSQSVYACFKHALGCDYLYNPYCIDIQQWGYTGSLSMNHHEVCNIHRNEHVASGDAIMTRCLAIHDCFVKRVDWSIVYPFIDNEDKINKAGRIVQSHVMKAALKIFNPAAIHDVGNPKGIRCATTPIPWFCYDRDPINNNVRCLDYDYMVHGQMNGLMLFWNCNVDMYPEFSIVCRFDTRTRSKLSLEGCNGGALYVNNHAFHTPAYDRRAFAKLKPMPFFYYDDSNCELVDGQPNYVPLKSNVCITKCNIGGAVCKKHAALYRAYVEDYNIFMQAGFTIWCPQTFDTYMLWHGFVNSRALQSLENVAFNVVKKGAFTGLKGDLPTAVIADKIMVRDGPTDRCIFTNKTSLPTNVAFELYAKRKLGLTPPLTILRNLGVVATYNFVLWDYEAECPFSNFTKQVCSYTDLDSEVVTCFDNSIAGSFERFTTTRDAVLISNNAVKGLSAIKLQYGFLNDLPVSTIGNKPVTWYMYVRKNGEYVEQIDSYYTQGRTFETFKPRSTMEEDFLSMDTTLFIQKYGLEDYGFEHVVFGDVSKTTIGGMHLLISQVRLAKMGLFSVQEFMNNSDSTLKSCCITYADDPSSKNVCTYMDILLDDFVTIIKSLDLNVVSKVVDVIVDCKAWRWMLWCENSHIKTFYPQLQSSEWNPGYSMPTLYKIQRMCLERCNLYNYGAQVKLPDGITTNVVKYTQLCQYLNTTTLCVPHKMRVLHLGAAGAYGVAPGSTVLRRWLPDDAILVDNDLRDYVSDADFSVTGDCTSLYIEDKFDLLVSDLYDGSTKSIDGENTSKDGFFTYINGFIKEKLSLGGSVAIKITEFSWNKDLYELIQRFEYWTVFCTSVNTSSSEGFLIGINYLGPYCDRAIVDGNIMHANYIFWRNSTIMALSHNSVLDTPKFKCRCNNALIVNLKEKELNEMVIGLLRKGKLLIRNNGKLLNFGNHFVNTP

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.
Non-structural protein 1 inhibits host translation. By suppressing host gene expression, nsp1 facilitates efficient viral gene expression in infected cells and evasion from host immune response.
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-|-[SAGC]. Inhibited by the substrate-analog Cbz-Val-Asn-Ser-Thr-Leu-Gln-CMK.
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).
The exoribonuclease acts on both ssRNA and dsRNA in a 3' to 5' direction.
Nsp7-nsp8 hexadecamer may possibly confer processivity to the polymerase, maybe by binding to dsRNA or by producing primers utilized by the latter.
Nsp9 is a ssRNA-binding protein.
NendoU is a Mn(2+)-dependent, uridylate-specific enzyme, which leaves 2'-3'-cyclic phosphates 5' to the cleaved bond.

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).
a ribonucleoside 5'-triphosphate + RNA(n) = diphosphate + RNA(n+1)
ATP + H2O = ADP + H(+) + phosphate

Subunit

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).

Miscellaneous

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

Similarity

Belongs to the coronaviruses polyprotein 1ab family.

Keywords

3D-structure Activation of host autophagy by virus ATP-binding Endonuclease Exonuclease Helicase Host cytoplasm Host membrane Host-virus interaction Hydrolase Inhibition of host innate immune response by virus Inhibition of host IRF3 by virus Inhibition of host RLR pathway by virus Membrane Metal-binding Methyltransferase Modulation of host ubiquitin pathway by viral deubiquitinase Modulation of host ubiquitin pathway by virus Nuclease Nucleotide-binding Nucleotidyltransferase Protease Reference proteome Repeat Ribosomal frameshifting RNA-binding RNA-directed RNA polymerase Thiol protease Transferase Transmembrane Transmembrane helix Ubl conjugation pathway Viral immunoevasion Viral RNA replication Zinc Zinc-finger

Feature

chain Non-structural protein 1

Uniprot

P0C6Y5

Pubmed

7856095 10805807 11842254 21047955 12093723 12746549 + More

EMBL

Z34093 AJ271965

Proteomes

UP000001440

PRIDE

P0C6Y5

Pfam

PF01661   Macro
PF06471   NSP11
PF08717   nsp8
PF08716   nsp7
PF13087   AAA_12
PF16688   CNV-Replicase_N
PF08710   nsp9
PF09401   NSP10
PF08715   Viral_protease
PF05409   Peptidase_C30
PF06460   NSP16
PF16348   Corona_NSP4_C
PF06478   Corona_RPol_N

Interpro

IPR041679   DNA2/NAM7-like_AAA
IPR036499   NSP9_sf
IPR018995   RNA_synth_NSP10_coronavirus
IPR027351   (+)RNA_virus_helicase_core_dom
IPR029063   SAM-dependent_MTases
IPR038634   A-CoV_nsp1_sf
IPR042515   Nsp15_N
IPR038123   NSP4_C_sf
IPR037230   NSP8_sf
IPR027417   P-loop_NTPase
IPR002589   Macro_dom
IPR009461   Coronavirus_NSP16
IPR014827   Viral_protease
IPR013016   Peptidase_C30/C16
IPR014822   NSP9
IPR009003   Peptidase_S1_PA
IPR014829   NSP8
IPR037227   EndoU-like
IPR036333   NSP10_sf
IPR027352   CV_ZBD
IPR014828   NSP7
IPR032039   A-CoV_nsp1
IPR008740   Peptidase_C30
IPR037204   NSP7_sf
IPR009466   NSP11
IPR032505   Corona_NSP4_C
IPR009469   RNA_pol_N_coronovir

SUPFAM

SSF144246   SSF144246
SSF101816   SSF101816
SSF52540   SSF52540
SSF142877   SSF142877
SSF140367   SSF140367
SSF50494   SSF50494
SSF143076   SSF143076
SSF53335   SSF53335

Gene 3D

1.10.150.420 1.10.8.370 2.20.25.360 2.30.30.1000 2.40.10.250 2.40.10.290

ProteinModelPortal

P0C6Y5

PDB

6NUS E-value=0.0 Score=1109 Identity=58.59% Cov(Q)=34.54% Cov(P)=96.86%

3D Structure

View Sequence and Structure Alignments

GO

GO:0036459  F:thiol-dependent ubiquitinyl hydrolase activity
GO:0032259  P:methylation
GO:0003678  F:DNA helicase activity
GO:0003968  F:RNA-directed 5'-3' RNA polymerase activity
GO:0016021  C:integral component of membrane
GO:0008242  F:omega peptidase activity
GO:0044220  C:host cell perinuclear region of cytoplasm
GO:0016896  F:exoribonuclease activity, producing 5'-phosphomonoesters
GO:0003723  F:RNA binding
GO:0039548  P:suppression by virus of host IRF3 activity
GO:0006351  P:transcription, DNA-templated
GO:0008270  F:zinc ion binding
GO:0019082  P:viral protein processing
GO:0005524  F:ATP binding
GO:0039520  P:induction by virus of host autophagy
GO:0003724  F:RNA helicase activity
GO:0044172  C:host cell endoplasmic reticulum-Golgi intermediate compartment
GO:0004197  F:cysteine-type endopeptidase activity
GO:0039648  P:modulation by virus of host protein ubiquitination
GO:0008168  F:methyltransferase activity
GO:0019079  P:viral genome replication
GO:0004519  F:endonuclease activity
GO:0033644  C:host cell membrane

From MSLVP

Capsid

From Uniprot

Host membrane
   nsp7, nsp8, nsp9 and nsp10 are localized in cytoplasmic foci, largely perinuclear. Late in infection, they merge into confluent complexes (By similarity).   With evidence from 3 publications.
Host endoplasmic reticulum-Golgi intermediate compartment   The helicase interacts with the N protein in membranous complexes and colocalizes with sites of synthesis of new viral RNA.   With evidence from 3 publications.

Length:

2678

Number of predicted TMHs:

0

Exp number of AAs in TMHs:

0.290510000000001

Exp number, first 60 AAs:

0

Total prob of N-in:

0.00998

outside

1 - 2678

Sequence

Summary

Ontologies

Subcellular Location

Topology