SMTL ID : 6aon.1

1.72 Angstrom Resolution Crystal Structure of 2-Oxoglutarate Dehydrogenase Complex Subunit Dihydrolipoamide Dehydrogenase from Bordetella pertussis in Complex with FAD

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.72 Å

Oligo State

homo-dimer

Ligands

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 40 residues within 4Å: Chain A: I.13, G.14, A.15, G.16, P.17, G.18, I.36, D.37, A.38, W.39, G.50, T.51, C.52, V.55, G.56, C.57, S.60, K.61, G.123, K.124, G.125, A.155, T.156, G.157, S.158, N.176, I.197, R.285, Y.288, G.290, G.324, D.325, M.331, L.332, A.333, H.334, A.336, Y.364 Chain B: H.457, P.458 30 PLIP interactions: 27 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:I.197, A:I.197 Hydrogen bonds: A:A.15, A:G.16, A:G.18, A:G.19, A:D.37, A:A.38, A:W.39, A:T.51, A:T.51, A:T.51, A:C.52, A:S.60, A:K.61, A:G.125, A:G.125, A:S.158, A:D.325, A:M.331, A:A.333, A:H.334, B:H.457 Water bridges: A:D.37, A:G.50, A:G.157, A:V.326, A:A.336, B:H.457, B:H.457 FAD.3: 38 residues within 4Å: Chain A: H.457, P.458 Chain B: I.13, G.14, G.16, P.17, G.18, I.36, D.37, A.38, W.39, G.50, T.51, C.52, V.55, G.56, C.57, S.60, K.61, G.123, K.124, G.125, A.155, T.156, G.157, S.158, N.176, I.197, R.285, Y.288, G.324, D.325, M.331, L.332, A.333, H.334, A.336, Y.364 26 PLIP interactions: 25 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:T.51, B:I.197, B:I.197 Hydrogen bonds: B:G.16, B:G.18, B:G.19, B:A.38, B:W.39, B:T.51, B:T.51, B:C.52, B:K.61, B:G.125, B:G.125, B:S.158, B:D.325, B:M.331, B:A.333, B:H.334, A:H.457 Water bridges: B:A.15, B:G.50, B:G.157, B:V.326, B:A.336, B:Y.364

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: A.223, A.225, Q.227, Q.377 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:A.223, A:A.225, H2O.1, H2O.5, H2O.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Minasov, G. et al., 1.72 Angstrom Resolution Crystal Structure of 2-Oxoglutarate Dehydrogenase Complex Subunit Dihydrolipoamide Dehydrogenase from Bordetella pertussis in Complex with FAD. To Be Published

Release Date

2017-08-23

Peptides

Dihydrolipoyl dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Dihydrolipoyl dehydrogenase