Structure of PDB 6z6g Chain A

Receptor sequence

>6z6gA (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

3D structure

• PDB: 6z6g Pre-initiation and elongation structures of full-length La Crosse virus polymerase reveal functionally important conformational changes.
• Chain: A
• Resolution: 3.06 Å

Enzymatic activity

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

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	rna	A	Q291 R292 K302 H306 C419 G420 K439 P440 R592 A593 R595 R600 T642 K643 Y677 H760 H761 V764 K768 L1113 Q1116 Y1120 D1123	Q295 R296 K306 H310 C423 G424 K429 P430 R575 A576 R578 R583 T625 K626 Y660 H743 H744 V747 K751 L1069 Q1072 Y1076 D1079
BS02	rna	A	H312 N313 N318 K368 R372 I378 K381 K382 L383 W395 E396 L471 K472 T513 N517 S520 V521 Y524 R526 R531 M534 C535 A536 N537 N538 Q1313 I1511 L1512 H1515 K1516	H316 N317 N322 K372 R376 I382 K385 K386 L387 W399 E400 L461 K462 T503 N507 S510 V511 Y514 R516 R521 M524 C525 A526 N527 N528 Q1269 I1454 L1455 H1458 K1459
BS03	ZN	A	C2064 H2169 D2178 H2182	C1961 H2066 D2075 H2079
BS04	MG	A	A1059 D1060 D1188	A1015 D1016 D1144

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)