Structure of PDB 7a24 Chain D Binding Site BS02

Receptor Information

>7a24 Chain D (length=177) Species: 3712 (Brassica oleracea)

DDEEAEQLAKEISKDWSTVFERSMNTLFLTEMVRGLSLTLKYFFDPKVTI
NYPFEKGPLSPRFRGEHALRRYPTGEERCIACKLCEAVCPAQAITIEAEE
REDGSRRTTRYDIDMTKCIYCGFCQEACPVDAIVEGPNFEFATETHEELL
YDKEKLLENGDRWETEIAENLRSESLY

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: 7a24 Chain D Residue 302

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7a24 Specific features and assembly of the plant mitochondrial complex I revealed by cryo-EM.
• Resolution: 3.8 Å
• Binding residue (original residue number in PDB): C123 I124 A125 C126 K127 L128 C129 I140 Y155 C172 P173 A176 I177
• Binding residue (residue number reindexed from 1): C79 I80 A81 C82 K83 L84 C85 I96 Y111 C128 P129 A132 I133
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 7.1.1.2: NADH:ubiquinone reductase (H(+)-translocating).

Gene Ontology

Molecular Function

• GO:0008137 NADH dehydrogenase (ubiquinone) activity
• GO:0016491 oxidoreductase activity
• GO:0016651 oxidoreductase activity, acting on NAD(P)H
• GO:0046872 metal ion binding
• GO:0051539 4 iron, 4 sulfur cluster binding

Biological Process

• GO:1902600 proton transmembrane transport

Cellular Component

• GO:0005634 nucleus
• GO:0005739 mitochondrion
• GO:0016020 membrane

External links

• PDB: RCSB:7a24, PDBe:7a24, PDBj:7a24
• PDBsum: 7a24
• PubMed: 33060577
• UniProt: Q9FX83|NDS8B_ARATH NADH dehydrogenase [ubiquinone] iron-sulfur protein 8-B, mitochondrial (Gene Name=At1g16700)