PDBsum entry 6myt

Oxidoreductase/oxidoreductase inhibitor

PDB id: 6myt

Contents

Protein chains

611 a.a.

240 a.a.

139 a.a.

102 a.a.

Ligands

FAD

OAA

UNL ×59

PEG

FES

SF4

F3S

AT5

HEM

UMQ

3PE

Metals

__K

Waters ×202

PDB id:

6myt

Name:

Oxidoreductase/oxidoreductase inhibitor

Title:

Avian mitochondrial complex ii with atpenin a5 bound, sidechain in pocket

Structure:

Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial. Chain: a. Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial. Chain: b. Synonym: iron-sulfur subunit of complex ii,ip. Succinate dehydrogenase cytochrome b, large subunit. Chain: c.

Source:

Gallus gallus. Chicken. Organism_taxid: 9031. Organ: heart. Organ: heart

Resolution:

2.27Å R-factor: 0.227 R-free: 0.260

Authors:

E.A.Berry,L.-S.Huang

Key ref:

L.-S.Huang and e.a.berry Crystallographic studies of the binding of ligands to ubiquinone site of mitochondrial respiratory complex. To be published, . PubMed id: 34089891

Date:

02-Nov-18 Release date: 06-Nov-19

Protein chain

Q9YHT1  (SDHA_CHICK) -  Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial from Gallus gallus

Seq: 665 a.a.

Struc: 611 a.a.*

Protein chain

Q9YHT2  (SDHB_CHICK) -  Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial from Gallus gallus

Seq: 290 a.a.

Struc: 240 a.a.

Protein chain

D0VWW3  (D0VWW3_CHICK) -  Succinate dehydrogenase cytochrome b560 subunit, mitochondrial from Gallus gallus

Seq: 140 a.a.

Struc: 139 a.a.*

Protein chain

Q5ZIS0  (DHSD_CHICK) -  Succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial from Gallus gallus

Seq: 157 a.a.

Struc: 102 a.a.

* PDB and UniProt seqs differ at 6 residue positions (black crosses)

Enzyme reactions

• Enzyme class 2: Chains A, B, C: E.C.1.3.5.1 - succinate dehydrogenase.
• Pathway: Citric acid cycle
• Reaction: a quinone + succinate = fumarate + a quinol

quinone + succinate (Bound ligand (Het Group name = OAA) matches with 88.89% similarity) = fumarate + quinol

• Cofactor: FAD; Iron-sulfur

FAD (Bound ligand (Het Group name = FAD) corresponds exactly) Iron-sulfur

• Enzyme class 3: Chain D: E.C.?

Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.

Molecule diagrams generated from .mol files obtained from the KEGG ftp site