Structure of PDB 5a22 Chain A Binding Site BS01

Receptor Information

>5a22 Chain A (length=2002) Species: 11276 (Vesicular stomatitis virus)

NHADYNLNSPLISDDIDNLIRKFNSLPIPSMWDSKNWDGVLEMLTSCQAN
PISTSQMHKWMGSWLMSDNHDASQGYSFLHEVDKEAEITFDVVETFIRGW
GNKPIEYIKKERWTDSFKILAYLCQKFLDLHKLTLILNAVSEVELLNLAR
TFKGKVRRSSHGTNICRIRVPSLGPTFISEGWAYFKKLDILMDRNFLLMV
KDVIIGRMQTVLSMVCRIDNLFSEQDIFSLLNIYRIGDKIVERQGNFSYD
LIKMVEPICNLKLMKLARESRPLVPQFPHFENHIKTSVDEGAKIDRGIRF
LHDQIMSVKTVDLTLVIYGSFRHWGHPFIDYYTGLEKLHSQVTMKKDIDV
SYAKALASDLARIVLFQQFNDHKKWFVNGDLLPHDHPFKSHVKENTWPTA
AQVQDFGDKWHELPLIKCFEIPDLLDPSIIYSDKSHSMNRSEVLKHVRMN
PNTPIPSKKVLQTMLDTKATNWKEFLKEIDEKGLDDDDLIIGLKGKEREL
KLAGRFFSLMSWKLREYFVITEYLIKTHFVPMFKGLTMADDLTAVIKKML
DSSSGQGLKSYEAICIANHIDYEKWNNHQRKLSNGPVFRVMGQFLGYPSL
IERTHEFFEKSLIYYNGRPDLMRVHNNTLINSTSQRVCWQGQEGGLEGLR
QKGWTILNLLVIQREAKIRNTAVKVLAQGDNQVICTQYKTKKSRNVVELQ
GALNQMVSNNEKIMTAIKIGTGKLGLLINDDETMQSADYLNYGKIPIFRG
VIRGLETKRWSRVTCVTNDQIPTCANIMSSVSTNALTVAHFAENPINAMI
QYNYFGTFARLLLMMHDPALRQSLYEVQDKIPGLHSSTFKYAMLYLDPSI
GGVSGMSLSRFLIRAFPDPVTESLSFWRFIHVHARSEHLKEMSAVFGNPE
IAKFRITHIDKLVEDPTSLNIAMGMSPANLLKTEVKKCLIESRQTIRNQV
IKDATIYLYHEEDRLRSFLWSINPLFPRFLSEFKSGTFLGVADGLISLFQ
NSRTIRNSFKKKYHRELDDLIVRSEVSSLTHLGKLHLRRGSCKMWTCSAT
HADTLRYKSWGRTVIGTTVPHPLEMLGPQHRKETPCAPCNTSGFNYVSVH
CPDGIHDVFSSRGPLPAYLGSKTSESTSILQPWERESKVPLIKRATRLRD
AISWFVEPDSKLAMTILSNIHSLTGEEWTKRQHGFKRTGSALHRFSTSRM
SHGGFASQSTAALTRLMATTDTMRDLGDQNFDFLFQATLLYAQITTTVAR
DGWITSCTDHYHIACKSCLRPIEEITLDSSMDYTPPDVSHVLKTWRNGEG
QSYQVGRCIGFLYGDLAYRKSTHAEDSSLFPLSIQGRIRGRGFLKGLLDG
LMRASCCQVIHRRSLAHLKRPANAVYGGLIYLIDKLSVSPPFLSLTRSGP
IRDELETIPHKIPTSYPTSNRDMGVIVRNYFKYQCRLIEKGKYRSHYSQL
WLFSDVLSIDFIGPFSISTTLLQILYKPFLSGKDKNELRELANLSSLLRS
YPPWGRESRGTITTIPVYYTTTPYPKMLEMPPRIQNPLLSGIRLGQLPTG
AHYKIRSILHGMGIHYRDFLSCGDGSGGMTAALLRENVHSRGIFNSLLEL
SGSVMRGASPEPPSALETLGGDKSRCVNGETCWEYPSDLCDPRTWDYFLR
LKAGLGLQIDLIVMDMEVRDSSTSLKIETNVRNYVHRILDEQGVLIYKTY
GTYICESEKNAVTILGPMFKTVDLVQTEFSSSQTSEVYMVCKPDWSSINE
SWKNLYAFQSSEQEFARAKKVSTYFTLTGIPSQFIPDPFVNIETMLQIFG
VPTGVSHAAALKSSDRPADLLTISLFYMAIISYYNINHIRVGPIPPNPPS
DGIAQNVGIAITGISFWLSLMEKDIPLYQQCLAVIQQSFPIRWEAVSVKG
GYKQKWSTRGDGLPKDTRISDSLAPIGNWIRSLELVRNQVRLNPFNEILF
NQLCRTVDNHLKWSNLRRNTGMIEWINRRISKEDRSILMLKSDLHEENSW
RD

Ligand information

• Ligand ID: ZN
• InChI: InChI=1S/Zn/q+2
• InChIKey: PTFCDOFLOPIGGS-UHFFFAOYSA-N
• SMILES:
  CACTVS 3.341: [Zn++]
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Zn+2]
• Formula: Zn
• Name: ZINC ION
• ChEMBL: CHEMBL1236970
• DrugBank: DB14532
• PDB chain: 5a22 Chain A Residue 3000

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5a22 Structure of the L Protein of Vesicular Stomatitis Virus from Electron Cryomicroscopy.
• Resolution: 3.8 Å
• Binding residue (original residue number in PDB): C1081 E1108 C1299 C1302
• Binding residue (residue number reindexed from 1): C1047 E1074 C1265 C1268
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 2.1.1.375: NNS virus cap methyltransferase.
  2.7.7.48: RNA-directed RNA polymerase.
  2.7.7.88: GDP polyribonucleotidyltransferase.
  3.6.1.-

Gene Ontology

Molecular Function

• GO:0003924 GTPase activity
• GO:0003968 RNA-dependent RNA polymerase activity
• GO:0004482 mRNA 5'-cap (guanine-N7-)-methyltransferase activity
• GO:0005515 protein binding
• GO:0005524 ATP binding
• GO:0008168 methyltransferase activity
• GO:0016740 transferase 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:0006139 nucleobase-containing compound metabolic process
• GO:0006370 7-methylguanosine mRNA capping
• GO:0019083 viral transcription
• GO:0032259 methylation
• GO:0039689 negative stranded viral RNA replication
• GO:0106005 RNA 5'-cap (guanine-N7)-methylation

Cellular Component

• GO:0030430 host cell cytoplasm
• GO:0044423 virion component

External links

• PDB: RCSB:5a22, PDBe:5a22, PDBj:5a22
• PDBsum: 5a22
• PubMed: 26144317
• UniProt: P03523|L_VSIVA RNA-directed RNA polymerase L (Gene Name=L)