Structure of PDB 6vax Chain A

Receptor sequence

>6vaxA (length=611) Species: 9606 (Homo sapiens) [Search protein sequence]

QYPVVDHEFDAVVVGAGGAGLRAAFGLSEAGFNTACVTKLFPTRSHTVAA
QGGINAALGNMEEDNWRWHFYDTVKGSDWLGDQDAIHYMTEQAPAAVVEL
ENYGMPFSRTEDGKIYQRAFGGQSLKFGKGGQAHRCCCVADRTGHSLLHT
LYGRSLRYDTSYFVEYFALDLLMENGECRGVIALCIEDGSIHRIRAKNTV
VATGGYGRTYFSCTSAHTSTGDGTAMITRAGLPCQDLEFVQFHPTGIYGA
GCLITEGCRGEGGILINSQGERFMERYAPVAKDLASRDVVSRSMTLEIRE
GRGCGPEKDHVYLQLHHLPPEQLATRLPGISETAMIFAGVDVTKEPIPVL
PTVHYNMGGIPTNYKGQVLRHVNGQDQIVPGLYACGEAACASVHGANRLG
ANSLLDLVVFGRACALSIEESCRPGDKVPPIKPNAGEESVMNLDKLRFAD
GSIRTSELRLSMQKSMQNHAAVFRVGSVLQEGCGKISKLYGDLKHLKTFD
RGMVWNTDLVETLELQNLMLCALQTIYGAEARKESRGAHAREDYKVRIDE
YDYSKPIQGQQKKPFEEHWRKHTLSYVDVGTGKVTLEYRPVIDKTLNEAD
CATVPPAIRSY

3D structure

PDB

6vax The roles of SDHAF2 and dicarboxylate in covalent flavinylation of SDHA, the human complex II flavoprotein.

Chain

Resolution

2.59 Å

3D
structure

Catalytic site residues are labeled in the structure
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Enzymatic activity

Catalytic site (original residue number in PDB)	F173 Q294 H296 L306 E309 R312 R340 H407 Y408 R451
Catalytic site (residue number reindexed from 1)	F120 Q241 H243 L253 E256 R259 R287 H354 Y355 R398
Enzyme Commision number	1.3.5.1: succinate dehydrogenase.

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	A	G68 A69 G70 T91 K92 L93 S98 H99 T100 A103 G105 F220 A221 A255 T256 G257 D275 H407 Y408 E440 A454 S456 L457 L460	G15 A16 G17 T38 K39 L40 S45 H46 T47 A50 G52 F167 A168 A202 T203 G204 D222 H354 Y355 E387 A401 S403 L404 L407
BS02	OAA	A	F173 H296 R340 R451	F120 H243 R287 R398

Gene Ontology

	Molecular Function
GO:0005515	protein binding
GO:0008177	succinate dehydrogenase (quinone) activity
GO:0009055	electron transfer activity
GO:0016491	oxidoreductase activity
GO:0016627	oxidoreductase activity, acting on the CH-CH group of donors
GO:0050660	flavin adenine dinucleotide binding

	Biological Process
GO:0006099	tricarboxylic acid cycle
GO:0006105	succinate metabolic process
GO:0006121	mitochondrial electron transport, succinate to ubiquinone
GO:0007399	nervous system development
GO:0022900	electron transport chain
GO:0022904	respiratory electron transport chain
GO:0042776	proton motive force-driven mitochondrial ATP synthesis

	Cellular Component
GO:0005730	nucleolus
GO:0005739	mitochondrion
GO:0005743	mitochondrial inner membrane
GO:0005759	mitochondrial matrix
GO:0045273	respiratory chain complex II (succinate dehydrogenase)

View graph for
Molecular Function

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Biological Process

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Cellular Component

External links

PDB	RCSB:6vax, PDBe:6vax, PDBj:6vax
PDBsum	6vax
PubMed	32887801
UniProt	P31040\|SDHA_HUMAN Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial (Gene Name=SDHA)

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