Structure of PDB 9fdj Chain D

Receptor sequence

>9fdjD (length=418) Species: 224324 (Aquifex aeolicus VF5)

MRSYPAIPRIYAETTLNMLLKRAKKPRVHSIDEYLKDGGYQALEKALNMS
PEEIIDWVDKSTLRGGGGAGFPTGKKWKFAVQNPGPRYFICNADESEPGT
FKDRIIIERDPHLLIEGIIISSYAIGANEAYIYIRGEYPAGYYILRDAIE
EAKKKGFLGKNILGSGFDLEIYVARGAGAYICGEETALIESLEGKRGHPR
LKPPYPVQKGLWGKPTVVNNVETIANVPFIISMGWEEYRYIGPSDYAGPK
LFPVSGKVKKPGVYELPMNTTLREVIFKYAGGTLGNKKVKAVFSGALDCF
SSEELDIPMDYSPLGFGGTGTVIVLTEEDDIVEAALKIAEFYEHETCGQC
TPCRVGCYEQANLLEKIYKGEATEQDWEGFDFVNRNIQPTSICGLGAVAG
RLIRQTLEKFPEEWEKYR

3D structure

• PDB: 9fdj Structural robustness of the NADH binding site in NADH:ubiquinone oxidoreductase (complex I).
• Chain: D
• Resolution: 1.7 Å

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	SF4	D	P199 T346 C347 G348 Q349 C350 C353 I392 C393 L395 G396	P199 T346 C347 G348 Q349 C350 C353 I392 C393 L395 G396
BS02	FMN	D	G65 G67 K76 N92 E95 Y180 G183 E184 E185 V218 N219 N220 T223	G65 G67 K76 N92 E95 Y180 G183 E184 E185 V218 N219 N220 T223
BS03	NAI	D	A69 F71 K76 E185	A69 F71 K76 E185

Gene Ontology

Molecular Function

• GO:0046872 metal ion binding
• GO:0048038 quinone binding
• GO:0051539 4 iron, 4 sulfur cluster binding

Biological Process

• GO:1902600 proton transmembrane transport

External links

• PDB: RCSB:9fdj, PDBe:9fdj, PDBj:9fdj
• PDBsum: 9fdj
• PubMed: 38960077
• UniProt: O66841|NUOF_AQUAE NADH-quinone oxidoreductase subunit F (Gene Name=nuoF)