Structure of PDB 7dkf Chain 82

Receptor sequence

>7dkf82 (length=427) Species: 9913 (Bos taurus)

FGSLKDEDRIFTNLYGRHDWRLKGAQSRGDWYKTKEILLKGPDWILGEVK
TSGLRGRGGAGFPTGLKWSFMNKPSDGRPKYLVVNADEGEPGTCKDREII
RHDPHKLVEGCLVGGRAMGARAAYIYIRGEFYNEASNLQVAIREAYEAGL
IGKNACGSGYDFDVFVVRGAGAYICGEETALIESIEGKQGKPRLKPPFPA
DVGVFGCPTTVANVETVAVSPTICRRGGAWFASFGRERNSGTKLFNISGH
VNNPCTVEEEMSVPLKELIEKHAGGVTGGWDNLLAVIPGGSSTPLIPKSV
CETVLMDFDALIQAQTGLGTAAVIVMDRSTDIVKAIARLIEFYKHESCGQ
CTPCREGVDWMNKVMARFVRGDARPAEIDSLWEISKQIEGHTICALGDGA
AWPVQGLIRHFRPELEERMQQFAQQHQ

3D structure

• PDB: 7dkf A Dynamic Substrate Pool Revealed by cryo-EM of a Lipid-Preserved Respiratory Supercomplex.
• Chain: 82
• Resolution: 8.3 Å

Enzymatic activity

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

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	peptide	82	R152 Y163 N164 R174 Y177 E178 F196 R199	R121 Y132 N133 R143 Y146 E147 F165 R168
BS02	FMN	82	G89 N116 D118 E119 G120 C206 G207 A243 N244	G58 N85 D87 E88 G89 C175 G176 A212 N213
BS03	SF4	82	Y204 C379 G380 Q381 C382 C385 I424 C425	Y173 C348 G349 Q350 C351 C354 I393 C394

Gene Ontology

Molecular Function

• GO:0008137 NADH dehydrogenase (ubiquinone) activity
• GO:0010181 FMN binding
• GO:0016491 oxidoreductase activity
• GO:0046872 metal ion binding
• GO:0051287 NAD binding
• GO:0051539 4 iron, 4 sulfur cluster binding

Biological Process

• GO:0006120 mitochondrial electron transport, NADH to ubiquinone
• GO:1902600 proton transmembrane transport

Cellular Component

• GO:0005739 mitochondrion
• GO:0005743 mitochondrial inner membrane
• GO:0045271 respiratory chain complex I

External links

• PDB: RCSB:7dkf, PDBe:7dkf, PDBj:7dkf
• PDBsum: 7dkf
• PubMed: 34913730
• UniProt: P25708|NDUV1_BOVIN NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial (Gene Name=NDUFV1)