Structure of PDB 6lum Chain B Binding Site BS01

Receptor Information

>6lum Chain B (length=238) Species: 1445611 (Mycolicibacterium smegmatis MC2 51)

AVMVTLKIARFNPENPDAAGWQSFRVPCLPSDRLLNLLHYVKWYLDGTLT
FRRSCAHGVCGSDAMRINGVNRLACKVLMRDMLPKNPNKQLTITIEPIRG
LPVEKDLVVNMEPFFDAYRAVKPFLVTSGNPPTKERIQSPTDRARYDDTT
KCILCACCTTSCPVYWSEGSYFGPAAIVNAHRFIFDSRDEAAAERLDILN
EVDGVWRCRTTFNCTEACPRGIQVTQAIQEVKRALMFA

Ligand information

• Ligand ID: FES
• InChI: InChI=1S/2Fe.2S
• InChIKey: NIXDOXVAJZFRNF-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04: [Fe]1S[Fe]S1
  CACTVS 3.341
  OpenEye OEToolkits 1.5.0: S1[Fe]S[Fe]1
• Formula: Fe2 S2
• Name: FE2/S2 (INORGANIC) CLUSTER
• PDB chain: 6lum Chain B Residue 301

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6lum Cryo-EM structure of trimeric Mycobacterium smegmatis succinate dehydrogenase with a membrane-anchor SdhF.
• Resolution: 2.84 Å
• Binding residue (original residue number in PDB): C77 C82 G83 D85 C97
• Binding residue (residue number reindexed from 1): C55 C60 G61 D63 C75
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 1.3.5.1: succinate dehydrogenase.

Gene Ontology

Molecular Function

• GO:0009055 electron transfer activity
• GO:0016491 oxidoreductase activity
• GO:0046872 metal ion binding
• GO:0051536 iron-sulfur cluster binding
• GO:0051537 2 iron, 2 sulfur cluster binding
• GO:0051538 3 iron, 4 sulfur cluster binding

Biological Process

• GO:0006099 tricarboxylic acid cycle
• GO:0009060 aerobic respiration
• GO:0022904 respiratory electron transport chain

Cellular Component

• GO:0005886 plasma membrane

External links

• PDB: RCSB:6lum, PDBe:6lum, PDBj:6lum
• PDBsum: 6lum
• PubMed: 32843629
• UniProt: A0QT07