SMTL ID : 5ez3.2 (1 other biounit)

Crystal structure Acyl-CoA dehydrogenase from Brucella melitensis in complex with FAD

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

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

FAD.1: 30 residues within 4Å: Chain A: M.211, M.213, T.214, G.218, G.219, T.220, F.245, M.246, S.247, K.289, S.297, V.450, I.453, W.454, E.455, S.457, N.459, V.460, L.463 Chain B: R.353, V.355, F.356, L.360, Q.363, M.366, E.428, C.429, G.431, G.432, Y.435 31 PLIP interactions: 20 interactions with chain A, 11 interactions with chain B Hydrophobic interactions: A:F.245, A:K.289, A:V.450, A:I.453, B:Y.435 Hydrogen bonds: A:M.211, A:M.213, A:T.214, A:T.214, A:T.214, A:G.219, A:T.220, A:T.220, A:S.247, A:E.455, A:S.457, A:S.457, A:N.459, B:Q.363, B:E.428, B:G.432 Water bridges: A:E.215, A:G.458, B:R.353, B:R.353, B:R.353, B:Q.363, B:N.433 pi-Stacking: A:F.245 Salt bridges: B:R.353, B:R.353 FAD.6: 30 residues within 4Å: Chain A: R.353, V.355, F.356, L.360, Q.363, M.366, E.428, C.429, G.431, G.432, Y.435 Chain B: M.211, G.212, M.213, T.214, G.218, G.219, T.220, F.245, M.246, S.247, K.289, S.297, V.450, W.454, E.455, S.457, N.459, V.460, L.463 32 PLIP interactions: 19 interactions with chain B, 13 interactions with chain A Hydrophobic interactions: B:K.289, B:V.450, A:Y.435, A:Y.435 Hydrogen bonds: B:M.211, B:M.213, B:T.214, B:T.214, B:T.214, B:G.219, B:T.220, B:T.220, B:S.247, B:E.455, B:S.457, B:S.457, B:N.459, B:V.460, A:Q.363, A:E.428, A:G.432 Water bridges: B:N.459, A:R.353, A:R.353, A:R.353, A:R.353, A:E.428, A:N.433 pi-Stacking: B:F.245, B:W.454 Salt bridges: A:R.353, A:R.353

2 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)

MRD.2: 8 residues within 4Å: Chain A: L.162, C.163, T.166, D.330, C.331, A.334, N.451, W.454 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:D.330, A:A.334, A:W.454 Hydrogen bonds: A:T.166, A:T.166 Water bridges: A:C.163, A:N.292 MRD.7: 9 residues within 4Å: Chain B: F.151, L.162, C.163, T.166, D.330, C.331, A.334, N.451, W.454 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:F.151, B:T.166, B:D.330, B:A.334, B:W.454 Hydrogen bonds: B:T.166 Water bridges: B:C.163, B:N.292

2 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.3: 5 residues within 4Å: Chain A: H.144, D.322, F.391, A.404, R.405 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.391, A:A.404 MPD.8: 3 residues within 4Å: Chain B: H.144, F.391, A.404 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.391, B:F.391, B:A.404

4 x CAC: CACODYLATE ION(Non-covalent)

CAC.4: 7 residues within 4Å: Chain A: P.54, L.55, Q.58, G.532, A.533, Q.568, L.569 No protein-ligand interaction detected (PLIP) CAC.5: 4 residues within 4Å: Chain A: Q.184, W.185, A.201, F.202 1 PLIP interactions: 1 interactions with chain A Water bridges: A:F.202 CAC.9: 5 residues within 4Å: Chain B: L.55, Q.58, G.532, A.533, L.569 2 PLIP interactions: 2 interactions with chain B Water bridges: B:G.532, B:D.535 CAC.10: 4 residues within 4Å: Chain B: Q.184, W.185, A.201, F.202 1 PLIP interactions: 1 interactions with chain B Water bridges: B:F.202

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abendroth, J. et al., Crystal structure Acyl-CoA dehydrogenase from Brucella melitensis in complex with FAD. to be published

Release Date

2015-12-09

Peptides

Acyl-CoA dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Acyl-CoA dehydrogenase

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