Structure of PDB 8w8p Chain B Binding Site BS01

Receptor Information

>8w8p Chain B (length=227) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

LDSKLKAPVFTVRTQGREYGEFVLEPLERGFGVTLGNPLRRILLSSIPGT
AVTSVYIEDVLHEFSTIPGVKEDVVEIILNLKELVVRFLNPSLQTVTLLL
KAEGPKEVKARDFLPVADVEIMNPDLHIATLEEGGRLNMEVRVDRGVGYV
PAEKHGIKDRINAIPVDAVFSPVRRVAFQVEDTRLGQRTDLDKLTLRIWT
DGSVTPLEALNQAVEILREHLTYFSNP

Ligand information

Ligand ID

InChI

InChI=1S/Mg/q+2

InChIKey

JLVVSXFLKOJNIY-UHFFFAOYSA-N

SMILES

Software	SMILES
ACDLabs 10.04 OpenEye OEToolkits 1.5.0	[Mg+2]
CACTVS 3.341	[Mg++]

Formula

Name

MAGNESIUM ION

PDB chain

8w8p Chain B Residue 401 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]

Receptor-Ligand Complex Structure

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Structure summary

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PDB	8w8p Nanopore tweezers show fractional-nucleotide translocation in sequence-dependent pausing by RNA polymerase.
Resolution	3.165 Å
Binding residue (original residue number in PDB)	D183 D191 D193
Binding residue (residue number reindexed from 1)	D182 D190 D192
Annotation score	1

Gene Ontology

	Molecular Function
GO:0003677	DNA binding
GO:0003899	DNA-directed 5'-3' RNA polymerase activity
GO:0005515	protein binding
GO:0016779	nucleotidyltransferase activity
GO:0034062	5'-3' RNA polymerase activity

	Biological Process
GO:0006351	DNA-templated transcription

	Cellular Component
GO:0000428	DNA-directed RNA polymerase complex
GO:0005737	cytoplasm

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Cellular Component

External links

PDB	RCSB:8w8p, PDBe:8w8p, PDBj:8w8p
PDBsum	8w8p
PubMed	38990947
UniProt	Q5SHR6\|RPOA_THET8 DNA-directed RNA polymerase subunit alpha (Gene Name=rpoA)

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