Structure of PDB 6z6g Chain A Binding Site BS04

Receptor Information

>6z6g Chain A (length=2142) Species: 11577 (La Crosse virus)

YFQGMDYQEYQQFLARINTARDACVAKDIDVDLLMARHDYFGRELCKSLN
IEYRNDVPFIDIILDIRPEVDPLTIDAPHITPDNYLYINNVLYIIDYKVS
VSNESSVITYDKYYELTRDISDRLSIPIEIVIIRIDPVSRDLHINSDRFK
ELYPTIVVDINFNQFFDLKQLLYEKFGDDEEFLLKVAHGDFTLTAPWCKT
GCPEFWKHPIYKEFKMSMPVPERRLFEESVKFNAYESERWNTNLVKIREY
TKKDYSEHISKSAKNIFLASGFYKQPNKNEISEGWTLMVERVQDQREISK
SLHDQKPSIHFIWGAHNPGNSNNATFKLILLSKSLQSIKGISTYTEAFKS
LGKMMDIGDKAIEYEEFCMSLKSKARSSWKQIMNKKLEPKQINNALVLWE
QQFMINNDLIDKSEKLKLFKNFCGIGKSKPKILDFDDANMYLASLTMMEQ
SKKILSKSNGLKPDNFILNEFGSRIKDANKETYDNMHKIFETGYWQCISD
FSTLMKNILSVSQYNRHNTFRIAMCANNNVFAIVFPSATVVYSIIVLHKE
EENIFNPGCLHGTFKCMNGYISISRAIRLDKERCQRIVSSPGLFLTTCLL
FKHDNPTLVMSDIMNFSIYTSLSITKSVLSLTEPARYMIMNSLAISSNVK
DYIAEKFSPYTKTLFSVYMTRLIKNACFDAYDQRQRVQLRDIYLSDYDIT
QKGIKDNRELTSIWFPGSVTLKEYLTQIYLPFYFNAKGLHEKHHVMVDLA
KTILEIECEQRENIKEIWSTNCTKQTVNLKILIHSLCKNLLADTSRHNHL
RNRIENRNNFRRSITTISTFTSSKSCLKIGDFRKEKELQSVKQKKILEVQ
SRKMNYEMLRNAMPNYTDYISTKVFDRLYELLDKKVLTDKPVIEQIMDMM
IDHKKFYFTFFNKGQKTSKDREIFVGEYEAKMCMYAVERIAKERCKLNPD
EMISEPGDGKLKVLEQKSEQEIRFLVETTRQKNREIDEAIEALALGKIEK
LSLGKAKGLKMEINADMSKWSAQDVFYKYFWLIALDPILYPQEKERILYF
MCNYMDKELILPDELLFNLLDQKVAYQNDIIATMTNQLNSNTVLIKRNWL
QGNFNYTSSYVHSCAMSVYKEILKEAITLLDGSILVNSLVHSDDNQTSIT
IVQDKMENDKIIDFAMKEFERACLTFGCQANMKKTYVTNCIKEFVSLFNL
YGEPFSIYGRFLLTSVGDCAYIGPYEDLASRISSAQTAIKHGCPPSLAWV
SIAISHWMTSLTYNMLPGQSNDPIDYFPAENRKDIPIELNGVLDAPLSMI
STVGLESGNLYFLIKLLSKYTPVMQKRESVVNQIAEVKNWKVEDLTDNEI
FRLKILRYLVLDAEMGRSILTPRKFTTAGSLRKLYSFSKYQDRLSSPGGM
VELFTYLLEKPELLVTKGEDMKDYMESVIFRYNSKRFKESLSIQNPAQLF
IEQILFSHKPVIDFSGIRDKYIGKVTFTEAYRLLMRDLSSLELTNDDIQV
IYSYIILNDPMMITIANTHILSIYGSPQRRMGMSCSTMPEFRNSPALVLR
AYSKNNPDMARDLVHLKEFVENTNLEEKMKVRIAMNEAEKGQRDIVFELK
EMTRFYQVCYEYVKSKIKVFILPAKSYTTTDFCSLMQGNLIKDKEWYTVH
YLKQILSGGHKAIMQHNATSEQNIAFECFKLITHFADSFIDSLSRSAFLQ
LIIDEFSYKDVKVSKLYDIIKNGYNRTDFIPLLFRTGDLRQADLDKYDAM
KSHERVTWNDWINLTITGYNRSITIIGEDNKLTYAELCLTRKTPENITIS
GRKLLGSRHGLKFENMSKIQNYYITYRKKDRHQFVYQIHSHESITRRNEE
HMAIRTRIYNEITPVCVVNVAEVDGDQRILIRSLDYLNNDIFSLSRIKVG
LDEFATIKKAHFSKMVSFEGPPIKTGLLDLTELMKSQDLLNLNYDNIRNS
NLISFSKLICCEGSDNINDGLEFLSDDPMNFTEGEAIHSTPIFNIYYSKR
GERHMTYRNAIKLLIERETKIFEEAFTFSENGFISPENLGCLEAVVSLIK
LLKTNEWSTVIDKCIHICLIKNGMDHMYHSFDVPKCFMGNPITRDINWVM
FREFINSLPGTDIPPWNVMTENFKKKCIALINSKFSEFTKLM

Ligand information

• Ligand ID: MG
• InChI: InChI=1S/Mg/q+2
• InChIKey: JLVVSXFLKOJNIY-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mg+2]
  CACTVS 3.341: [Mg++]
• Formula: Mg
• Name: MAGNESIUM ION
• DrugBank: DB01378
• PDB chain: 6z6g Chain A Residue 2302

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6z6g Pre-initiation and elongation structures of full-length La Crosse virus polymerase reveal functionally important conformational changes.
• Resolution: 3.06 Å
• Binding residue (original residue number in PDB): A1059 D1060 D1188
• Binding residue (residue number reindexed from 1): A1015 D1016 D1144
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 2.7.7.48: RNA-directed RNA polymerase.
  3.1.-.-

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0003723 RNA binding
• GO:0003968 RNA-dependent RNA polymerase activity
• GO:0016787 hydrolase activity
• GO:0034062 5'-3' RNA polymerase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0001172 RNA-templated transcription
• GO:0006351 DNA-templated transcription
• GO:0019079 viral genome replication
• GO:0039694 viral RNA genome replication

Cellular Component

• GO:0044165 host cell endoplasmic reticulum
• GO:0044172 host cell endoplasmic reticulum-Golgi intermediate compartment
• GO:0044177 host cell Golgi apparatus
• GO:0044423 virion component

External links

• PDB: RCSB:6z6g, PDBe:6z6g, PDBj:6z6g
• PDBsum: 6z6g
• PubMed: 32681014
• UniProt: A5HC98|L_BUNLC RNA-directed RNA polymerase L (Gene Name=L)