Structure of PDB 4gav Chain B

Receptor sequence
>4gavB (length=463) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence]
MKVIDPQHSDKPNVLILGSGWGAISFLKHIDTKKYNVSIISPRSYFLFTP
LLPSAPVGTVDEKSIIEPIVNFALKKKGNVTYYEAEATSINPDRNTVTIK
SLSAVSQLYQPENHLGLHQAEPAEIKYDYLISAVGAEPNTFGIPGVTDYG
HFLKEIPNSLEIRRTFAANLEKANLLPKGDPERRRLLSIVVVGGGPTGVE
AAGELQDYVHQDLRKFLPALAEEVQIHLVEALPIVLNMFEKKLSSYAQSH
LENTSIKVHLRTAVAKVEEKQLLAKTKHEDGKITEETIPYGTLIWATGNK
ARPVITDLFKKIPEQNSSKRGLAVNDFLQVKGSNNIFAIGDNAFAGLPPT
AQVAHQEAEYLAKNFDKMAQIPNFQKIDLLFEENNFKPFKYNDLGALAYL
GSERAIATIRSGKRTFYTGGGLMTFYLWRILYLSMILSARSRLKVFFDWI
KLAFFKRDFFKGL
3D structure
PDB4gav The structure of the yeast NADH dehydrogenase (Ndi1) reveals overlapping binding sites for water- and lipid-soluble substrates.
ChainB
Resolution3.0 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 1.6.5.9: NADH:ubiquinone reductase (non-electrogenic).
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 FAD B G60 S61 G62 W63 P84 R85 T91 P92 A129 V176 G177 L195 T239 R344 G382 D383 P391 T392 A393 G18 S19 G20 W21 P42 R43 T49 P50 A87 V134 G135 L153 T197 R302 G340 D341 P349 T350 A351
BS02 UQ2 B W63 P238 T392 Q394 L447 M485 W21 P196 T350 Q352 L397 M435
Gene Ontology
Molecular Function
GO:0003954 NADH dehydrogenase activity
GO:0008137 NADH dehydrogenase (ubiquinone) activity
GO:0016491 oxidoreductase activity
GO:0042802 identical protein binding
GO:0050136 NADH:ubiquinone reductase (non-electrogenic) activity
Biological Process
GO:0006116 NADH oxidation
GO:0006120 mitochondrial electron transport, NADH to ubiquinone
GO:0043065 positive regulation of apoptotic process
GO:1902600 proton transmembrane transport
Cellular Component
GO:0005739 mitochondrion
GO:0005743 mitochondrial inner membrane
GO:0005759 mitochondrial matrix

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:4gav, PDBe:4gav, PDBj:4gav
PDBsum4gav
PubMed22949654
UniProtP32340|NDI1_YEAST Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial (Gene Name=NDI1)

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