Structure of PDB 5amr Chain A

Receptor sequence

>5amrA (length=1657) Species: 11577 (La Crosse virus)

GMDYQEYQQFLARINTARDACVAKDIDVDLLMARHDYFGRELCKSLNIEY
RNDVPFIDIILDIRPEVDPLTIDAPHITPDNYLYINNVLYIIDYKVSVSN
ESSVITYDKYYELTRDISDRLSIPIEIVIIRIDPVSRDLHINSDRFKELY
PTIVVDINFNQFFDLKQLLYEKFGDDEEFLLKVAHGDFTLTAPWCKTGCP
EFWKHPIYKEFKMSMPVPERRLFEESVKFNAYESERWNTNLVKIREYTKK
DYSEHISKSAKNIFLASGFYKQPNKNEISEGWTLMVERVQDQREISKSLH
DQKPSIHFIWGAHNPGNSNNATFKLILLSKSLQSIKGISTYTEAFKSLGK
MMDIGDKAIEYEEFCMSLKSKARSSWKQIMNKKLEPKQINNALVLWEQQF
MINNDLIDKSEKLKLFKNFCGIGKKQFKNKMLEDSKPKILDFDDANMYLA
SLTMMEQSKKILSKSNGLKPDNFILNEFGSRIKDANKETYDNMHKIFETG
YWQCISDFSTLMKNILSVSQYNRHNTFRIAMCANNNVFAIVFPSATVVYS
IIVLHKEEENIFNPGCLHGTFKCMNGYISISRAIRLDKERCQRIVSSPGL
FLTTCLLFKHDNPTLVMSDIMNFSIYTSLSITKSVLSLTEPARYMIMNSL
AISSNVKDYIAEKFSPYTKTLFSVYMTRLIKNACFDAYDQRQRVQLRDID
YDITQKGIKDNRELTSIWFPGSVTLKEYLTQIYLPFYFNAKGLHEKHHVM
VDLAKTILEIECEQRENIKEIWSTNCTKQTVNLKILIHSLCKNLLADTSR
HNHLRNRIENRNNFRRSITTISTFTSSKSCLKIGDFRKEKELQSVKQKKI
LEVQSRKMRLANYEMLRNAMPNYTDYISTKVFDRLYELLDKKVLTDKPVI
EQIMDMMIDHKKFYFTFFNEIFVGEYEAKMCMYAVERIAKERCKLNPDEM
ISEPGDGKLKVLEQKSEQEIRFLVETTRQKNREIDEAIEALLGKIEKLSL
GKAKGLKMEINADMSKWSAQDVFYKYFWLIALDPILYPQEKERILYFMCN
YMDKELILPDELLFNLLDQKVAYQNDIIATMTNQLNSNTVLIKRNWLQGN
FNYTSSYVHSCAMSVYKEILKEAITLLDGSILVNSLVHSDDNQTSITIVQ
DKMENDKIIDFAMKEFERACLTFGCQANMKKTYVTNCIKEFVSLFNLYGE
PFSIYGRFLLTSVGDCAYIGPYEDLASRISSAQTAIKHGCPPSLAWVSIA
ISHWMTSLTYNMLPGQSNDPIDYFPAENRKDIPIELNGVLDAPLSMISTV
GLESGNLYFLIKLLSKYTPVMQKRESVVNQIAEVKNWKVEDLTDNEIFRL
KILRYLVLDSILTPRKFTGSLRKLYSFSKYQDRLSSPGGMVELFTYLLEK
PELLVTKGEDMKDYMESVIFRYNSKRFKESLSIQNPAQLFIEQILFSHKP
VIDFSGIRDKYINILGKVTFTEAYRLLMRDLSSLELTNDDIQVIYSYIIL
NDPMMITIANTHILSIYGSPQRRMGMSCSTMPEFRNHHSPALVLRAYSNN
PDIPTEMARDLVHLKEFVENTNLEEKMKVRIAMNEAEKGQRDIVFELKEM
TRFYQVCYEYVKSTEHKIKVFILPAKSYTTTDFCSLMQGNLIKDKEWYTV
HYLKQIL

3D structure

• PDB: 5amr Structural Insights Into Bunyavirus Replication and its Regulation by the Vrna Promoter.
• Chain: A
• Resolution: 2.57 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	H312 N313 P314 N318 K368 K370 R372 I378 K381 K382 L383 W395 E396 Q397 L471 K472 T513 N517 S520 V521 Y524 R526 R531 M534 C535 A536 N537 N538 K859 K862 N1308 Q1313 I1511 L1512 H1515 K1516	H313 N314 P315 N319 K369 K371 R373 I379 K382 K383 L384 W396 E397 Q398 L468 K469 T510 N514 S517 V518 Y521 R523 R528 M531 C532 A533 N534 N535 K846 K849 N1261 Q1266 I1444 L1445 H1448 K1449
BS02	rna	A	M379 N380	M380 N381

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:5amr, PDBe:5amr, PDBj:5amr
• PDBsum: 5amr
• PubMed: 26004069
• UniProt: A5HC98|L_BUNLC RNA-directed RNA polymerase L (Gene Name=L)