Structure of PDB 9fdj Chain B

Receptor sequence

>9fdjB (length=416) Species: 224324 (Aquifex aeolicus VF5)

SYPAIPRIYAETTLNMLLKRAKKPRVHSIDEYLKDGGYQALEKALNMSPE
EIIDWVDKSTLRGGGGAGFPTGKKWKFAVQNPGPRYFICNADESEPGTFK
DRIIIERDPHLLIEGIIISSYAIGANEAYIYIRGEYPAGYYILRDAIEEA
KKKGFLGKNILGSGFDLEIYVARGAGAYICGEETALIESLEGKRGHPRLK
PPYPVQKGLWGKPTVVNNVETIANVPFIISMGWEEYRYIGPSDYAGPKLF
PVSGKVKKPGVYELPMNTTLREVIFKYAGGTLGNKKVKAVFSGALDCFSS
EELDIPMDYSPLGFGGTGTVIVLTEEDDIVEAALKIAEFYEHETCGQCTP
CRVGCYEQANLLEKIYKGEATEQDWEGFDFVNRNIQPTSICGLGAVAGRL
IRQTLEKFPEEWEKYR

3D structure

• PDB: 9fdj Structural robustness of the NADH binding site in NADH:ubiquinone oxidoreductase (complex I).
• Chain: B
• 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	B	P199 T346 C347 G348 Q349 C350 C353 S391 I392 C393 G396	P197 T344 C345 G346 Q347 C348 C351 S389 I390 C391 G394
BS02	FMN	B	G65 G67 K76 N92 D94 E95 Y180 G183 E184 E185 V218 N219 N220 T223	G63 G65 K74 N90 D92 E93 Y178 G181 E182 E183 V216 N217 N218 T221
BS03	NAI	B	A69 F71 K76 F79 E185 Y205	A67 F69 K74 F77 E183 Y203

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)