Structure of PDB 6dvc Chain D Binding Site BS05

Receptor Information
>6dvc Chain D (length=1264) Species: 83332 (Mycobacterium tuberculosis H37Rv) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DVNFFDELRIGLATAEDIRQWSYGEVKKPETINYRTLKPEKDGLFCEKIF
GPTRDWECYCGKYKRVRFKGIICERCGVEVTRAKVRRERMGHIELAAPVT
HIWYFKGVPSRLGYLLDLAPKDLEKIIYFAAYVITSVDEEMRHNELSTLE
AEMAVERKAVEDQRDGELEARAQKLEADLAELEAEGAKADARRKVRDGGE
REMRQIRDRAQRELDRLEDIWSTFTKLAPKQLIVDENLYRELVDRYGEYF
TGAMGAESIQKLIENFDIDAEAESLRDVIRNGKGQKKLRALKRLKVVAAF
QQSGNSPMGMVLDAVPVIPPELRPMVQLDGGRFATSDLNDLYRRVINRNN
RLKRLIDLGAPEIIVNNEKRMLQESVDALFDNGRRGRPVTGPGNRPLKSL
SDLLKGKQGRFRQNLLGKVDYSGRSVIVVGPQLKLHQCGLPKLMALELFK
PFVMKRLVDLNHAQNIKSAKRMVERQRPQVWDVLEEVIAEHPVLLNRAPT
LHRLGIQAFEPMLVEGKAIQLHPLVCEAFNADFDGDQMAVHLPLSAEAQA
EARILMLSSNNILSPASGRPLAMPRLDMVTGLYYLTTEVPGDTGEYQPAS
GDHPETGVYSSPAEAIMAADRGVLSVRAKIKVRLTQLRPPVEIEAELFGH
SGWQPGDAWMAETTLGRVMFNELLPLGYPFVNKQMHKKVQAAIINDLAER
YPMIVVAQTVDKLKDAGFYWATRSGVTVSMADVLVPPRKKEILDHYEERA
DKVEKQFQRGALNHDERNEALVEIWKEATDEVGQALREHYPDDNPIITIV
DSGATGNFTQTRTLAGMKGLVTNPKGEFIPRPVKSSFREGLTVLEYFINT
HGARKGLADTALRTADSGYLTRRLVDVSQDVIVREHDCQTERGIVVELAE
RAPDGTLIRDPYIETSAYARTLGTDAVDEAGNVIVERGQDLGDPEIDALL
AAGITQVKVRSVLTCATSTGVCATCYGRSMATGKLVDIGEAVGIVAAQSI
GEPGTQLTGGLPRVQELFEARVPRGKAPIADVTGRVRLEDGERFYKITIV
PDDGGEEVVYDKISKRQRLRVFKHEDGSERVLSDGDHVEVGQQLMEGSAD
PHEVLRVQGPREVQIHLVREVQEVYRAQGVSIHDKHIEVIVRQMLRRVTI
IDSGSTEFLPGSLIDRAEFEAENRRVVAEGGEPAAGRPVLMGITKASLAT
DSWLSAASFQETTRVLTDAAINCRSDKLNGLKENVIIGKLIPAGTGINRY
RNIAVQPTEEARAA
Ligand information
Ligand IDZN
InChIInChI=1S/Zn/q+2
InChIKeyPTFCDOFLOPIGGS-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Zn++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Zn+2]
FormulaZn
NameZINC ION
ChEMBLCHEMBL1236970
DrugBankDB14532
ZINC
PDB chain6dvc 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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PDB6dvc Structural basis of ECF-sigma-factor-dependent transcription initiation.
Resolution3.3 Å
Binding residue
(original residue number in PDB)		C60 C62 C75
Binding residue
(residue number reindexed from 1)		C58 C60 C73
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
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0009274 peptidoglycan-based cell wall

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:6dvc, PDBe:6dvc, PDBj:6dvc
PDBsum6dvc
PubMed30755604
UniProtP9WGY7|RPOC_MYCTU DNA-directed RNA polymerase subunit beta' (Gene Name=rpoC)

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