Structure of PDB 8dy7 Chain D Binding Site BS04

Receptor Information
>8dy7 Chain D (length=1253) Species: 54571 (Streptomyces venezuelae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DDVNFFDELRIGLATADDIRQWSHGEVKKPETINYRTLKPEKDGLFCEKI
FGPTRDWECYCGKYKRVRFKGIICERCGVEVTRAKVRRERMGHIELAAPV
THIWYFKGVPSRLGYLLDLAPKDLEKVIYFAAYMITYVDDERRTRDLPSL
EAHVSVERQQIENRRDSDLEARAKKLENDLGELEAEGAKADVRRKVREGA
EREMKQLRDRAQREIDRLDEVWSRFKNLKVQDLEGDELLYRELRDRFGTY
FDGSMGAAALQKRLESFDLEEEAERLREIIRTGKGQKKTRALKRLKVVSA
FLQTANSPKGMVLDCVPVIPPDLRPMVQLDGGRFATSDLNDLYRRVINRN
NRLKRLLDLGAPEIIVNNEKRMLQEAVDALFDNGRRGRPVTGPGNRPLKS
LSDMLKGKQGRFRQNLLGKRVDYSARSVIVVGPQLKLHQCGLPKAMALEL
FKPFVMKRLVDLNHAQNIKSAKRMVERGRTVVYDVLEEVIAEHPVLLNRA
PTLHRLGIQAFEPQLVEGKAIQIHPLVCTAFNADFDGDQMAVHLPLSAEA
QAEARILMLSSNNILKPADGRPVTMPTQDMVLGLFFLTTDGELRDTKGEG
RAFGSTAEAIMAFDAGELALQSQIDIRFPVGTVAPRGWVPPVTEEGEPEW
QQGDSFRLRTSLGRALFNELLPEDYPFVDYSVGKKQLSEIVNDLAERYPK
VIVAATLDNLKAAGFYWATRSGVTVAISDVVVPEAKKAIVKGYEEQDEKV
QKQYERGLITKEERTQELIAIWTKATNEVAEAMNANFPKTNPIFMMVDSG
ARGNMMQMRQIAGMRGLVSNAKNETIPRPIKASFREGLTVLEYFISTHGA
RKGLADTALRTADSGYLTRRLVDVSQDVIIREEDCGTERGLKLRIAERGA
DGVLRKTDDVETSVYARMLAEDVVVDGKVIAPANVDLGDVLIDALVGAGV
EEVKTRSVLTCESAVGTCAFCYGRSLATGKLVDIGEAVGIIAAQSIGEPG
TQLTMDITQGLPRVVELFEARQPKGVAPISEAAGRVRIEETEKTKKIVVT
PDDGTDETAFPISKRARLLVGEGDHVEVGQKLTVGATNPHDVLRILGQRA
VQVHLVAEVQKVYNSQGVSIHDKHIEIIIRQMLRRVTIIESGDAELLPGE
LVERSKFETENRRVVTEGGHPASGRPQLMGITKASLATESWLSAASFQET
TRVLTDAAINAKSDSLIGLKENVIIGKLIPAGTGLSRYRNIRVEPTEEAK
AAM
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 chain8dy7 Chain D Residue 2002 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8dy7 Structural basis of dual activation of cell division by the actinobacterial transcription factors WhiA and WhiB.
Resolution3.18 Å
Binding residue
(original residue number in PDB)		D535 D537 D539
Binding residue
(residue number reindexed from 1)		D534 D536 D538
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:8dy7, PDBe:8dy7, PDBj:8dy7
PDBsum8dy7
PubMed36888660
UniProtF2RIS6

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