Structure of PDB 1smy Chain A Binding Site BS05

Receptor Information

>1smy Chain A (length=229) Species: 274 (Thermus thermophilus)

MLDSKLKAPVFTVRTQGREYGEFVLEPLERGFGVTLGNPLRRILLSSIPG
TAVTSVYIEDVLHEFSTIPGVKEDVVEIILNLKELVVRFLNPSLQTVTLL
LKAEGPKEVKARDFLPVADVEIMNPDLHIATLEEGGRLNMEVRVDRGVGY
VPAEKHGIKDRINAIPVDAVFSPVRRVAFQVEDTRLGQRTDLDKLTLRIW
TDGSVTPLEALNQAVEILREHLTYFSNPQ

Ligand information

• Ligand ID: MG
• InChI: InChI=1S/Mg/q+2
• InChIKey: JLVVSXFLKOJNIY-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mg+2]
  CACTVS 3.341: [Mg++]
• Formula: Mg
• Name: MAGNESIUM ION
• DrugBank: DB01378
• PDB chain: 1smy Chain A Residue 9442

Receptor-Ligand Complex Structure

Structure summary

• PDB: 1smy Structural basis for transcription regulation by alarmone ppGpp
• Resolution: 2.7 Å
• Binding residue (original residue number in PDB): R88 E121
• Binding residue (residue number reindexed from 1): R88 E121
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 2.7.7.6: DNA-directed RNA polymerase.

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003899 DNA-directed 5'-3' RNA polymerase activity
• GO:0016779 nucleotidyltransferase activity
• GO:0034062 5'-3' RNA polymerase activity
• GO:0046983 protein dimerization activity

Biological Process

• GO:0006351 DNA-templated transcription

Cellular Component

• GO:0000428 DNA-directed RNA polymerase complex
• GO:0005737 cytoplasm

External links

• PDB: RCSB:1smy, PDBe:1smy, PDBj:1smy
• PDBsum: 1smy
• PubMed: 15109491
• UniProt: Q9Z9H6|RPOA_THETH DNA-directed RNA polymerase subunit alpha (Gene Name=rpoA)