Structure of PDB 6lum Chain B Binding Site BS02

Receptor Information

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

AVMVTLKIARFNPENPDAAGWQSFRVPCLPSDRLLNLLHYVKWYLDGTLT
FRRSCAHGVCGSDAMRINGVNRLACKVLMRDMLPKNPNKQLTITIEPIRG
LPVEKDLVVNMEPFFDAYRAVKPFLVTSGNPPTKERIQSPTDRARYDDTT
KCILCACCTTSCPVYWSEGSYFGPAAIVNAHRFIFDSRDEAAAERLDILN
EVDGVWRCRTTFNCTEACPRGIQVTQAIQEVKRALMFA

Ligand information

• Ligand ID: SF4
• InChI: InChI=1S/4Fe.4S
• InChIKey: LJBDFODJNLIPKO-UHFFFAOYSA-N
• SMILES:
  OpenEye OEToolkits 2.0.7: [S]12[Fe]3[S]4[Fe]1[S]5[Fe]2[S]3[Fe]45
  CACTVS 3.385: S1[Fe]S[Fe]1.S2[Fe]S[Fe]2
• Formula: Fe4 S4
• Name: IRON/SULFUR CLUSTER
• PDB chain: 6lum Chain B Residue 302

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): C174 I175 C177 A178 C180 C240 P241
• Binding residue (residue number reindexed from 1): C152 I153 C155 A156 C158 C218 P219
• 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