Structure of PDB 5vi8 Chain D Binding Site BS03

Receptor Information
>5vi8 Chain D (length=1248) Species: 246196 (Mycolicibacterium smegmatis MC2 155) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VNFFDELRIGLATADDIRNWSYGEVKKPETINYRTLKPEKDGLFCEKIFG
PTRDWECYCGKYKRVRFKGIICERCGVEVTRAKVRRERMGHIELAAPVTH
IWYFKGVPSRLGYLLDLAPKDLEKIIYFAAYVITSVDDEMRHNELSTLEA
EMAVEKKAVEDQRDADLEARAQKLEADLAELEAEGAKSDVRRKVRDSGER
EMRQLRDRAQRELDRLDEIWNTFTKLAPKQLIVDEVLYRELQDRYGEYFT
GAMGAESIKKLIENFDIDAEAESLREVIRSGKGQKKLRALKRLKVVAAFQ
QSGNSPMGMVLDAVPVIPPELRPMVQLDGGRFATSDLNDLYRRVINRNNR
LKRLIDLGAPEIIVNNEKRMLQESVDALFDNGRRGRPVTGPGNRPLKSLS
DLLKGKQGRFRQNLLGKRVDYSGRSVIVVGPQLKLHQCGLPKLMALELFK
PFVMKRLVDLNHAQNIKSAKRMVERQRPQVWDVLEEVIAEHPVLLNRAPT
LHRLGIQAFEPQLVEGKAIQLHPLVCEAFNADFDGDQMAVHLPLSAEAQA
EARILMLSSNNILSPASGKPLAMPRLDMVTGLYYLTTLVEGATGEYQAAT
KDAPEQGVYSSPAEAIMAMDRGALSVRAKIKVRLTELRPPTDLEAQLFEN
GWKPGDAWTAETTLGRVMFNELLPKSYPFVNEQMHKKVQARIINDLAERF
PMIVVAQTVDKLKDAGFYWATRSGVTVSMADVLVPPQKQEILERHEAEAD
AIERKYQRGALNHTERNESLVKIWQDATEEVGKALEEFYPADNPIITIVK
SGATGNLTQTRTLAGMKGLVTNPKGEFIPRPIKSSFREGLTVLEYFINTH
GARKGLADTALRTADSGYLTRRLVDVSQDVIVREHDCETERGINVTLAER
GPDIRDAHVETSAFARTLATDAVDANGNVIIERGHDLGDPAIDALLAAGI
TTVKVRSVLTCTSATGVCAMCYGRSMATGKLVDIGEAVGIVAAQSIGEPG
TQLTGGLPRVQELFEARVPRNKAPIADVAGRVRLEESDKFFKITIVPDDG
GEEVVYDKLSKRQRLRVIGVLSDGDHVEVGDQLMEGAADPHEVLRVQGPR
EVQIHLVKEVQEVYRAQGVSIHDKHIEVIVRQMLRRVTIIDSGSTEFLPG
SLTERAEFEAENRRVVAAGRPVLMGITKASLATDSWLSAASFQETTRVLT
DAAINCRSDKLNGLKENVIIGKLIPAGTGISRYRNIQVQPTEEARAAA
Ligand information
Ligand IDMG
InChIInChI=1S/Mg/q+2
InChIKeyJLVVSXFLKOJNIY-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Mg+2]
CACTVS 3.341[Mg++]
FormulaMg
NameMAGNESIUM ION
ChEMBL
DrugBankDB01378
ZINC
PDB chain5vi8 Chain D Residue 2003 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB5vi8 Structural insights into the mycobacteria transcription initiation complex from analysis of X-ray crystal structures.
Resolution2.76 Å
Binding residue
(original residue number in PDB)		D535 D537 D539
Binding residue
(residue number reindexed from 1)		D532 D534 D536
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.7.6: DNA-directed RNA polymerase.
Gene Ontology
Molecular Function
GO:0000287 magnesium ion binding
GO:0003677 DNA binding
GO:0003899 DNA-directed 5'-3' RNA polymerase activity
GO:0008270 zinc ion binding
GO:0016779 nucleotidyltransferase activity
GO:0034062 5'-3' RNA polymerase activity
GO:0046872 metal ion binding
Biological Process
GO:0006351 DNA-templated transcription
Cellular Component
GO:0000428 DNA-directed RNA polymerase complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5vi8, PDBe:5vi8, PDBj:5vi8
PDBsum5vi8
PubMed28703128
UniProtA0QS66|RPOC_MYCS2 DNA-directed RNA polymerase subunit beta' (Gene Name=rpoC)

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