Coronavirus Database

Strain

Human_IBV_DQ646405 (Region: Taiwan; Strain: Infectious bronchitis virus isolate TW2575/98, complete genome.; Date: 1998)

Gene

pol protein

Description

Annotated in NCBI, pol protein

Location

DQ646405(+):12529-20487

GenBank Accession

ACF74906.1

Full name

Replicase polyprotein 1ab

Alternative Name

ORF1ab polyprotein

CDS

ATGTTCATAAATTTGAAACGTAACTGTGCAAGATTCCAAGAAGTGCGTGATACTGAAGATGGTAATCTTGAGTATCTTGATTCTTATTTTGTGGTTAAACAAACCACTCCTAGTAATTATGAACATGAAAAAGCTTGTTATGAAGACTTAAAGTCAGAAGTAACAGCCGATCATGATTTCTTTGTGTTTAATAAGAACATTTATAATATTAGTAGGCAGCGACTTACTAAATATACTATGATGGACTTTTGCTATGCTTTGCGTCATTTTGACCCTAAGGATTGCGATGTTCTTAAAGAAATACTTGTCACTTATGGCTGTATTGAAGATTATCACCCTAAGTGGTTTGAAGAAAATAAAGATTGGTACGACCCGATAGAAAACCCCAAATATTATGCCATGTTGGCTAAAATGGGACCTATTGTACGACGTGCCTTGTTGAATGCTGTTGAGTTCGGAAACCTTATGGTTGAAAAAGGTTATGTAGGTGTTGTTACACTAGATAATCAGGATCTCAATGGCAAATTTTATGATTTTGGTGATTTTCAGAAGACAGTACTTGGAGCTGGTGTTCCTGTTTTTGATACATATTACTCCTTTATGATGCCCATCCTAGCCATGACGGATGCTTTAGCACCTGAAAGGTATTTTGAATATGATGTGCATAAGGGTTATAAGTCTTATGCCCTCCTCAAGTATGATTATACTGAGGAGAAACAGGAGTTGTTTCAGAAGTATTTTAAGTACTGGGACCAAGAGTACCACCCCAACTGTCGCGATTGTGTTGATGACAGGTGTTTAATACATTGTGCAAACTTCAACATACTTTTTTCTACACTCATACCGCAGACTTCTTTTGGTAATTTGTGTAGAAAAGTATTTGTTGATGGTGTACATTTTATAGCCACTTGTGGCTATCATTCTAAGGAACTTGGTGTTATCATGAATCAAGATAACACAATGTCGTTTTCAAAGATGGGATTAAGCCAGCTTATGCAATTTGTTGGAGACCCTGCTTTACTTGTGGGAACATCCAACAATTTAGTAGATCTTAGGACATCTTGTTTTAGTGTTTGTGCTTTAGCATCTGGTATTACTCATCAAACAGTAAAACCCGGTCACTTTAACAAAGATTTCTATGATTTTGCAGAAAAGGCAGGTATGTTTAAGGAAGGTTCTTCTATACCACTTAAACATTTCTTTTACCCCCAGACAGGTAATGCTGCTATAAACGATTATGATTATTATCGTTATAACAGGCCTACCATGTTTGACATACGTCAACTTCTATTTTGTCTAGAAGTGACTTCTAAGTATTTTGACTGCTATGAGGGCGGCTGTATACCAGCAAGCCAATTTATAGTTAACAATTTAGATAAGAGTGCAGGCTATCCTTTTAATAAATTTGGAAAAGCCCGCCTTTATTATGAGATGAGTCTAGAGGAGCAGGACCAACTCTTTGAAAGTACAAAGAAGAATGTCCTGCCCACTATAACTCAAATGAATTTAAAATATGCCATATCCGCGAAGAATAGAGCGCGTACAGTGGCAGGTGTGTCAATTCTTTCTACTATGACTAATAGACAGTTTCATCAGAAGGTTCTCAAGTCTATAGTCAACACTAGAAATGCCCCTGTAGTTATTGGAACAACCAAATTTTATGGTGGTTGGGACAATATGTTGAGAAACCTTATTCAAGGTGTTGAAGACCCGATGCTTATGGGCTGGGATTACCCTAAGTGTGACAGAGCAATGCCTAATTTGTTGCGTATAGCAGCGTCTTTAGTACTTGCTCGTAAACACACTAATTGTTGCACTTGGTCTGAGCGTATTTATAGGTTGTATAATGAATGCGCTCAGGTTTTGTCTGAAACTGTCTTGGCTACAGGTGGTATTTATGTGAAACCTGGCGGCACTAGCAGTGGTGATGCTACTACTGCTTATGCAAATAGTGTTTTCAACATAATACAAGCCACATCTGCTAATGTTGCGCGTTTATTGAGTGTTATAACGCGTGATATTGTTTATGATGACATTAGGAACCTGCAGTATGAGTTATACCAGCAGGTTTATAGGCGATCTAATTTTGATCCTGCCTTTGTTGAAAAGTTTTACTCTTACTTATGTAAGAACTTTTCGCTTATGATCTTGTCGGACGATGGTGTTGTGTGTTACAACAATACATTAGCTAAACAAGGTCTTGTAGCAGACATTTCTGGTTTTAGAGAAATTCTCTACTACCAAAATAATGTTTATATGTCTGATTCTAAATGCTGGGTTGAACCAGATTTGGAAAAAGGCCCTCATGAGTTTTGTTCACAACACACAATGCTAGTAGAGGTGGATGGTGAGCCTAAGTACTTGCCATATCCAGATCCTTCACGCATTTTGGGAGCATGTGTTTTTGTTGATGATGTGGATAAGACTGAACCTGTGGCTGTTATGGAGCGTTATATTGCTCTTGCCATAGACGCTTACCCTCTTGTTCATCATGAAAATGAGGAGTATAAGAAGGTTTTCTTTGTGCTCCTTTCCTACATTAGAAAACTCTACCAAGAGCTTTCTCAGAATATGCTTATGGACTACTCTTTTGTTATGGATATAGACAAGGGTAGTAAGTTTTGGGAACAGGAGTTCTATGAGAATATGTATAGGGCTCCTACGACTTTACAATCTTGTGGCGTCTGTGTAGTTTGCAATAGTCAAACTATATTGCGCTGCGGTAATTGTATTCGCAAACCATTCTTGTGTTGTAAGTGTTGCTATGACCACGTCATGCATACAGACCATAAAAATGTTTTGTCTATAAATCCATACATTTGCTCGCAACCCGGTTGTGGTGAAGCAGATGTTACTAAATTGTACCTCGGAGGTATGTCATACTTCTGTGGTAATCATAAACCAAAGTTGTCAATACCGTTAGTATCTAATGGTACTGTTTTTGGAATTTACAGGGCTAATTGTGCTGGTAGTGAAAATGTTGATGATTTTAATCAACTAGCTACTACTAATTGGTCAACTGTAGAACCATATATATTAGCAAATCGCTGTAGTGACTCATTGAGACGCTTTGCTGCAGAGACAGTAAAAGCCACAGAAGAGTTACATAAACAGCAATATGCTAGTGCTGAGGTGCGTGAAGTACTCTCAGATCGTGAATTGATTCTGTCATGGGAACCTGGTAAGACTAGGCCTCCCTTGAACAGAAACTATGTTTTTACAGGCTATCACTTTACTAGGACAAGTAAAGTGCAGCTTGGTGATTTCATCTTTGAAAAAGGTGATGGTAAGGACGTTGTCTATTACAAAGCAACGTCCACTGCTAAATTGACTGTTGGAGACATTTTTGTTTTGACTTCACACAATGTTGTTTCTCTTGTAGCACCAACACTGTGTCCTCAGCAAACCTTTTCTAGGTTTGTAAATTTGAGACCTAACGTAATGGTTCATGAATGTTTTGTAAATAACATTCCGCTATACCATTTAGTAGGTAAACAAAAGCGTACCACGGTACAAGGCCCCCCTGGCAGTGGTAAATCACACTTTGCCATAGGTCTTGCAGCATACTTTAGTAACGCTCGTGTAGTCTTTACTGCATGTTCTCATGCAGCTGTTGATGCTTTGTGTGAAAAAGCTTTTAAGTTTCTTAAAGTAGATGATTGCACTCGTATAGTACCTCAAAGAACTACTATCGACTGCTTCTCTAAATTTAAGGCAAATGACACAGGCAAAAAGTACATTTTTAGTACTATTAATGCCTTGCCAGAAGTTAGTTGTGACATTCTATTGGTTGATGAGGTTAGTATGTTAACCAATTATGAATTATCATTTATTAATGGTAAGATAAATTACCAGTATGTTGTGTATGTAGGTGATCCTGCGCAATTACCAGCACCTCGCACTTTACTTAATGGTTCACTTTCACCAAAGGACTATAATATTATCACAAACCTTATGGTTTGTGTTAAGCCAGATATATTCCTTGCAAAGTGTTACCGTTGTCCTAAAGAAATTGTAGACACTGTGTCTACTCTTGTGTATGATGGAAAGTTTGTTGCAAATAACCCAGAATCACGTGAGTGTTTCAAGGTTATAGTTAATAATGGTAATTCTGATGTAGGCCATGAAAGTGGTTCAGCCTACAACACAACGCAGTTAGAGTTTGTGAAAGATTTTGTTTGTCGCAATAAACAATGGCGAGAAGCAACATTCATTTCACCTTATAATGCTATGAACCAGAGAGCTTACCGTATGTTAGGACTTAATGTCCAAACAGTAGACTCTTCACAGGGTTCAGAGTATGATTATGTTATATTCTGTGTCACTGCTGATTCACAGCATGCGCTGAATATTAACAGGTTTAATGTAGCGCTTACAAGAGCTAAGCGCGGTATACTTGTTGTCATGCGTCAGCGTGATGAGTTGTATTCTGCTCTTAAATTTACAGAGCTTGATGCTGCAGCAAATCTGCAAGGTACAGGTTTGTTTAAGATTTGCAATAAAGAGTTTAGTGGTGTGCATCCAGCGTATGCGGTGACCACTAAAGCTCTTGCTGCAACTTATAAAGTTAATGAAGAGCTCGCTGCACTTGTTAATGTGGAAGCGGGTTCAGAGATTACATATAAGCATCTTATTTCTCTGTTAGGTTTTAAGATGAGTGTTAATGTTGAAGGTTGTCACAACATGTTTATTACACGTGATGAGGCAATCCGTAATGTAAGAGGGTGGATAGGATTTGATGTAGAAGCTACACATGCTTGCGGCACTAACATTGGTACTAACCTCCCCTTTCAAGTAGGCTTCTCTACGGGTGCGGATTTTGTTGTCACACCAGAAGGTCTTGTGGATACTTCAATAGGCAATAATTTTGAGCCTATTAATTCAAAAGCACCTCCAGGTGAACAATTTAATCACTTGAGAGCTTTATTTAAGAGCGCTAAACCTTGGCATGTTATAAGACCAAGGATTGTGCAAATGTTAGCGGACAATTTATGCAATGTTTCTGATTGCGTAGTGTTTGTCACTTGGTGTCATGGTCTAGAATTAACCACTTTGCGCTATTTTGTTAAAATAGGCAAGGAACAAGTCTGTTCTTGTGGTTCTAGAGCCACAACTTTTAATTCTCATACTCAAGCTTATGCTTGTTGGAAGCACTGTTTGGGTTTTGACTTTGTTTATAATCCGCTTTTAGTGGATGTTCAACAATGGGGTTACTCAGGTAATCTACAATTTAATCATGATTTGCATTGTAATGTGCATGGCCATGCTCATGTAGCGTCAGCTGACGCTATTATGACACGCTGCCTTGCTATTAACAATGCATTTTGTCAAGATGTCAACTGGGATTTGATTTATCCTCATATAGCAAATGAGGATGAAGTCAATTCAAGTTGTAGATACTTACAGCGCATGTATCTTAATGCATGTGTTGATGCTCTTAAAGTTAATGTTGTCTATGACATAGGCAACCCTAAAGGTATAAAATGTGTTAGACGCGGGGATGTCAATTTTAGGTTCTATGATAAGAACCCAATTGTACCCAACGTCAAACAGTTTAATTACGACTACAGCCAATACAAAGATAAATTTGTTGACGGTCTTTGTATGTTCTGGAATTGTAATGTTGATTGTTATCCAGAAAATTCTATTGTTTGTAGGTATGACACAAGAAATTTGAGTGTGTTCAACCTGCCAGGTTGTAATGGTGGTAGTTTGTATGTAAATAAACACGCATTCCACACACCAAGATTTGATCGCAATAGCTTCCGTAATTTGAAAGCTATGCCATTCTTCTTCTACGACTCATCTCCGTGCGAAACCGTTCAGATTGATGGTGTTGCACAAGATCTTGTGTCGTTAGCTACAAAGGACTGTATCACAAGATGCAACATTGGTGGTGCTGTTTGTAAGAAACATGCCCAAATGTATGCAGAATTTGTGACGTCTTATAATGCAGCTGTCACAGCTGGTTTTACATTTTGGGTTACTAATCAGTTTAACCCTTACAATTTGTGGAAAAGTTTTTCGGCTCTCCAGTCAATTGATAATATTGCGTACAATATGTACAAAGGTGGCCATTACGATGCTATTGCAGGAGAAATGCCCACTGTCATTACTGGGGATAAAGTTTTTGTTATTGATCAAGGTGTAGAAAAGGCAGTCTTTGTTAATCAAACAACACTGCCTACATCTGTTGCGTTTGAGTTGTATGCGAAGAGAAGTATTCGCACACTCCCAAACAATCGTATCTTGAGTGGACTAGGTGTAGACGTAACCCATGGTTTTGTAATTTGGGATTACGCCAACCAAACACCACTTTATCGTAATACCGTTAAAGTGTGTGCATATACAGACATTGAGCCAAATGGCTTAATTGTTCTGTATGATGATAGATATGGTGACTACCAATCTTTTCTTGCCGCAGATAATGCTGTTTTAATATCTACACAGTGTTATAAGCGGTATTCATATGTGGAAGTACCATCAAATCTGCTTGTTCAGAATGGTATGCCTTTAACAGATGGGGCGAACTTGTATGTTTATAAGAGATGTAATGGAGCGTTTGTTACGCTACCTACTACACTGAACACACAAGGTCGTAATTATGAAACTTTTGAACCTCGTAGTGACGTGGAGAGAGATTTTCTTGGCATGTCAGAGGAAGATTTTATTGAGAAGTATGGTAAAGACTTAGGTCTACAACACATACTGTATGGTGAAGTTGACAAACCACAATTAGGTGGTTTGCATACTGTTATAGGTATGTATAGACTATTGCGTGAGAATAAGTTAAACGCAAAGTCTGTCACTAATTCAGATGTTGATGTCATGCAAAATTATTTTGTGTTGACAGACAACGGTTCTTACAAACAGGTTTGCACTGTTGTAGACCTTTTGCTTGATGATTTCTTAGAACTTCTTAGGAACATACTTCAAGAGTATGGTACTAATAAGTCTAAAGTTGTAACAGTGTCAATTGACTACCATAGCATAAATTTTATGACATGGTTTGACAAAGGCAGTATTAAAACATGTTATCCACAGCTCCAATCAGCGTGGACGTGTGGTTATAATATGCCTGAACTCTATAAAGTTCAGAATTGTGTTATGGAGCCCTGCAATATTCCTAATTATGGTGTTGGAATAACATTGCCTAGTGGTATTATGATGAATGTGGCAAAGTATACACAACTTTGCCAGTATCTTTCAAAAACTACAATGTGCGTACCGCATAATATGCGTGTAATGCATTTTGGTGCTGGAAGTGACAAAGGAGTTGCCCCTGGTAGTACTGTGCTCAAACAGTGGCTACCTGAAGGCACACTCCTCGTCGATAATGATATTGTGGATTATGTGTCTGATGCGCATGTTTCTGTGCTATCAGATTGCAATAAATATAAGACAGAACACAAGTTTGATCTTGTGATATCTGATATGTATACAGACAATGATTCAAAGAGAAAACATGAAGGCGTAGTAGCCAATAATGGCAATGACGATGTCTTCATTTATTTATCTAATTTTTTAAAGAACAACTTAGCTCTGGGAGGCAGTTTTGCTATAAAAGTAACAGAGACAAGTTGGCATGAGAGTTTATATGACATTGCGCAGGATTGTGCATGGTGGACAATGTTTTGTACAGCAGTTAATGCTTCATCATCAGAAGCATTTATGGTTGGTATTAATTATTTGGGTGACAGTGGAAAAGTGAAAGTTAGTGGAAAAACACTGCACGCAAACTACATATTTTGGAGGAATTGTAACTATTTACAAACTTCCGCTTATAGTGCATTTGATGTTGCAAAGTTTGGATTGAAATTAAAAGCAACACCAGTTGTGAATTTGAAGAAAGAACAAAAGACCGACTTAGTAGCTAATTTACTAAGGAACGGTAAATTGTTGATTAGAGATGTTGGTGAAGTCACTGTTTTTAGCGACTCTTTTGTTTGCACTATCTAG

Protein

MFINLKRNCARFQEVRDTEDGNLEYLDSYFVVKQTTPSNYEHEKACYEDLKSEVTADHDFFVFNKNIYNISRQRLTKYTMMDFCYALRHFDPKDCDVLKEILVTYGCIEDYHPKWFEENKDWYDPIENPKYYAMLAKMGPIVRRALLNAVEFGNLMVEKGYVGVVTLDNQDLNGKFYDFGDFQKTVLGAGVPVFDTYYSFMMPILAMTDALAPERYFEYDVHKGYKSYALLKYDYTEEKQELFQKYFKYWDQEYHPNCRDCVDDRCLIHCANFNILFSTLIPQTSFGNLCRKVFVDGVHFIATCGYHSKELGVIMNQDNTMSFSKMGLSQLMQFVGDPALLVGTSNNLVDLRTSCFSVCALASGITHQTVKPGHFNKDFYDFAEKAGMFKEGSSIPLKHFFYPQTGNAAINDYDYYRYNRPTMFDIRQLLFCLEVTSKYFDCYEGGCIPASQFIVNNLDKSAGYPFNKFGKARLYYEMSLEEQDQLFESTKKNVLPTITQMNLKYAISAKNRARTVAGVSILSTMTNRQFHQKVLKSIVNTRNAPVVIGTTKFYGGWDNMLRNLIQGVEDPMLMGWDYPKCDRAMPNLLRIAASLVLARKHTNCCTWSERIYRLYNECAQVLSETVLATGGIYVKPGGTSSGDATTAYANSVFNIIQATSANVARLLSVITRDIVYDDIRNLQYELYQQVYRRSNFDPAFVEKFYSYLCKNFSLMILSDDGVVCYNNTLAKQGLVADISGFREILYYQNNVYMSDSKCWVEPDLEKGPHEFCSQHTMLVEVDGEPKYLPYPDPSRILGACVFVDDVDKTEPVAVMERYIALAIDAYPLVHHENEEYKKVFFVLLSYIRKLYQELSQNMLMDYSFVMDIDKGSKFWEQEFYENMYRAPTTLQSCGVCVVCNSQTILRCGNCIRKPFLCCKCCYDHVMHTDHKNVLSINPYICSQPGCGEADVTKLYLGGMSYFCGNHKPKLSIPLVSNGTVFGIYRANCAGSENVDDFNQLATTNWSTVEPYILANRCSDSLRRFAAETVKATEELHKQQYASAEVREVLSDRELILSWEPGKTRPPLNRNYVFTGYHFTRTSKVQLGDFIFEKGDGKDVVYYKATSTAKLTVGDIFVLTSHNVVSLVAPTLCPQQTFSRFVNLRPNVMVHECFVNNIPLYHLVGKQKRTTVQGPPGSGKSHFAIGLAAYFSNARVVFTACSHAAVDALCEKAFKFLKVDDCTRIVPQRTTIDCFSKFKANDTGKKYIFSTINALPEVSCDILLVDEVSMLTNYELSFINGKINYQYVVYVGDPAQLPAPRTLLNGSLSPKDYNIITNLMVCVKPDIFLAKCYRCPKEIVDTVSTLVYDGKFVANNPESRECFKVIVNNGNSDVGHESGSAYNTTQLEFVKDFVCRNKQWREATFISPYNAMNQRAYRMLGLNVQTVDSSQGSEYDYVIFCVTADSQHALNINRFNVALTRAKRGILVVMRQRDELYSALKFTELDAAANLQGTGLFKICNKEFSGVHPAYAVTTKALAATYKVNEELAALVNVEAGSEITYKHLISLLGFKMSVNVEGCHNMFITRDEAIRNVRGWIGFDVEATHACGTNIGTNLPFQVGFSTGADFVVTPEGLVDTSIGNNFEPINSKAPPGEQFNHLRALFKSAKPWHVIRPRIVQMLADNLCNVSDCVVFVTWCHGLELTTLRYFVKIGKEQVCSCGSRATTFNSHTQAYACWKHCLGFDFVYNPLLVDVQQWGYSGNLQFNHDLHCNVHGHAHVASADAIMTRCLAINNAFCQDVNWDLIYPHIANEDEVNSSCRYLQRMYLNACVDALKVNVVYDIGNPKGIKCVRRGDVNFRFYDKNPIVPNVKQFNYDYSQYKDKFVDGLCMFWNCNVDCYPENSIVCRYDTRNLSVFNLPGCNGGSLYVNKHAFHTPRFDRNSFRNLKAMPFFFYDSSPCETVQIDGVAQDLVSLATKDCITRCNIGGAVCKKHAQMYAEFVTSYNAAVTAGFTFWVTNQFNPYNLWKSFSALQSIDNIAYNMYKGGHYDAIAGEMPTVITGDKVFVIDQGVEKAVFVNQTTLPTSVAFELYAKRSIRTLPNNRILSGLGVDVTHGFVIWDYANQTPLYRNTVKVCAYTDIEPNGLIVLYDDRYGDYQSFLAADNAVLISTQCYKRYSYVEVPSNLLVQNGMPLTDGANLYVYKRCNGAFVTLPTTLNTQGRNYETFEPRSDVERDFLGMSEEDFIEKYGKDLGLQHILYGEVDKPQLGGLHTVIGMYRLLRENKLNAKSVTNSDVDVMQNYFVLTDNGSYKQVCTVVDLLLDDFLELLRNILQEYGTNKSKVVTVSIDYHSINFMTWFDKGSIKTCYPQLQSAWTCGYNMPELYKVQNCVMEPCNIPNYGVGITLPSGIMMNVAKYTQLCQYLSKTTMCVPHNMRVMHFGAGSDKGVAPGSTVLKQWLPEGTLLVDNDIVDYVSDAHVSVLSDCNKYKTEHKFDLVISDMYTDNDSKRKHEGVVANNGNDDVFIYLSNFLKNNLALGGSFAIKVTETSWHESLYDIAQDCAWWTMFCTAVNASSSEAFMVGINYLGDSGKVKVSGKTLHANYIFWRNCNYLQTSAYSAFDVAKFGLKLKATPVVNLKKEQKTDLVANLLRNGKLLIRDVGEVTVFSDSFVCTI

Function

The papain-like proteinase (PL-PRO) is responsible for the cleavages located at the N-terminus of replicase polyprotein. Activity of PL-PRO is dependent on zinc (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.
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) (By similarity).
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

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

Subunit

3CL-PRO exists as monomer and homodimer. The three peptides nsp2, nsp3 and nsp4 may form a complex. Nsp9 is a dimer. Eight copies of nsp7 and eight copies of nsp8 assemble to form a heterohexadecamer. Nsp10 forms a dodecamer (By similarity). Interacts with DDX1 (via C-terminus).

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 Membrane Metal-binding Methyltransferase Nuclease Nucleotide-binding Nucleotidyltransferase Protease Reference proteome Repeat Ribosomal frameshifting RNA-binding RNA-directed RNA polymerase Thiol protease Transferase Transmembrane Transmembrane helix Viral RNA replication Zinc Zinc-finger

Feature

chain Non-structural protein 2

Uniprot

P0C6Y1

Pubmed

3027249 16137658 11831730 7778277 9032311 9568037 + More
9636369 9657947 10644337 10873746 11601893 11413307 12021359 20573827

EMBL

M94356 M95169 DQ001339

Proteomes

UP000006717

PRIDE

P0C6Y1

Pfam

PF09401   NSP10
PF00680   RdRP_1
PF01443   Viral_helicase1
PF06460   NSP16
PF08715   Viral_protease
PF06478   Corona_RPol_N
PF08716   nsp7
PF08717   nsp8
PF17896   Nsp2a_N
PF08710   nsp9
PF05409   Peptidase_C30
PF16348   Corona_NSP4_C
PF06471   NSP11
PF01661   Macro

Interpro

IPR018995   RNA_synth_NSP10_coronavirus
IPR029063   SAM-dependent_MTases
IPR009003   Peptidase_S1_PA
IPR014822   NSP9
IPR037227   EndoU-like
IPR027417   P-loop_NTPase
IPR038123   NSP4_C_sf
IPR037230   NSP8_sf
IPR013016   Peptidase_C30/C16
IPR003593   AAA+_ATPase
IPR040795   Nsp1a_N
IPR001205   RNA-dir_pol_C
IPR027352   CV_ZBD
IPR014828   NSP7
IPR036333   NSP10_sf
IPR032505   Corona_NSP4_C
IPR009469   RNA_pol_N_coronovir
IPR008740   Peptidase_C30
IPR037204   NSP7_sf
IPR007094   RNA-dir_pol_PSvirus
IPR027351   (+)RNA_virus_helicase_core_dom
IPR036499   NSP9_sf
IPR014829   NSP8
IPR042515   Nsp15_N
IPR009461   Coronavirus_NSP16
IPR002589   Macro_dom
IPR014827   Viral_protease
IPR009466   NSP11

SUPFAM

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

Gene 3D

1.10.150.420 1.10.8.370 2.20.25.360 2.40.10.250 2.40.10.290

ProteinModelPortal

P0C6Y1

PDB

6NUS E-value=0.0 Score=1130 Identity=62.63% Cov(Q)=33.60% Cov(P)=93.30%

3D Structure

View Sequence and Structure Alignments

GO

GO:0008168  F:methyltransferase activity
GO:0004519  F:endonuclease activity
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:0006351  P:transcription, DNA-templated
GO:0008242  F:omega peptidase activity
GO:0044220  C:host cell perinuclear region of cytoplasm
GO:0003723  F:RNA binding
GO:0003678  F:DNA helicase activity
GO:0032259  P:methylation
GO:0003968  F:RNA-directed 5'-3' RNA polymerase activity
GO:0033644  C:host cell membrane
GO:0039694  P:viral RNA genome replication
GO:0008270  F:zinc ion binding
GO:0019082  P:viral protein processing
GO:0005524  F:ATP binding
GO:0016021  C:integral component of membrane
GO:0016896  F:exoribonuclease activity, producing 5'-phosphomonoesters

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 5 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 5 publications.

Length:

2652

Number of predicted TMHs:

0

Exp number of AAs in TMHs:

1.59983

Exp number, first 60 AAs:

0

Total prob of N-in:

0.06859

outside

1 - 2652

Sequence

Summary

Ontologies

Subcellular Location

Topology