SMTL ID : 6kse.1

Crystal Structure of E447A Acyl-CoA Dehydrogenase FadE5 mutant from Mycobacteria tuberculosisin complex with C18CoA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

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

FAD.1: 38 residues within 4Å: Chain A: M.162, V.163, L.164, T.165, G.170, S.171, F.196, I.197, T.198, K.258, L.261, T.266, I.442, L.445, Y.446, A.447, G.448, T.449, A.451, I.452, Q.455 Chain B: Y.322, R.326, Q.328, G.329, A.330, I.345, H.348, D.350, V.351, Q.420, T.421, L.422, G.423, G.424, S.425, F.427 Ligands: ST9.2 33 PLIP interactions: 18 interactions with chain A, 15 interactions with chain B Hydrophobic interactions: A:F.196, A:K.258, A:I.442, A:I.442, A:Y.446 Hydrogen bonds: A:M.162, A:L.164, A:T.165, A:T.165, A:T.165, A:S.171, A:S.171, A:T.198, A:A.447, A:T.449, A:Q.455, B:G.424, B:S.425 Water bridges: A:S.171, A:Q.455, B:Y.322, B:Y.322, B:R.326, B:R.326, B:R.326, B:Q.328, B:A.330, B:H.348, B:D.350, B:Q.420 Salt bridges: B:R.326, B:R.326 pi-Stacking: B:H.348 FAD.3: 37 residues within 4Å: Chain A: Y.322, R.326, Q.328, G.329, I.345, H.348, D.350, V.351, Q.420, T.421, L.422, G.423, G.424, S.425, F.427 Chain B: M.162, V.163, L.164, T.165, G.170, S.171, F.196, I.197, T.198, K.258, L.261, T.266, I.442, L.445, Y.446, A.447, G.448, T.449, A.451, I.452, Q.455 Ligands: ST9.4 32 PLIP interactions: 14 interactions with chain A, 18 interactions with chain B Hydrogen bonds: A:H.348, A:T.421, A:G.424, A:S.425, B:M.162, B:L.164, B:T.165, B:T.165, B:T.165, B:S.171, B:S.171, B:T.198, B:T.198, B:L.445, B:A.447 Water bridges: A:R.326, A:R.326, A:R.326, A:Q.328, A:A.330, A:H.348, A:Q.420, B:P.167, B:T.449 Salt bridges: A:R.326, A:R.326 pi-Stacking: A:H.348 Hydrophobic interactions: B:F.196, B:K.258, B:T.266, B:I.442, B:Y.446

2 x ST9: STEAROYL-COENZYME A(Non-covalent)

ST9.2: 45 residues within 4Å: Chain A: W.92, D.93, K.94, V.95, I.97, K.108, V.111, H.115, W.126, M.127, G.130, G.133, F.134, I.137, M.162, L.164, T.165, G.170, S.171, D.172, V.173, T.198, T.224, K.225, I.290, A.291, F.294, V.296, I.297, E.298, Q.299, A.300, R.301, M.303, Y.446, A.447, G.448, I.452, Q.455, D.456, R.460, K.461, R.464 Chain B: K.338 Ligands: FAD.1 36 PLIP interactions: 31 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:W.126, A:W.126, A:W.126, A:V.173, A:V.173, A:A.300, A:Y.446, A:Y.446 Hydrogen bonds: A:S.171, A:R.301, A:R.301, A:A.447, A:D.456, A:K.461 Water bridges: A:G.170, A:T.224, A:T.224, A:T.224, A:K.225, A:K.225, A:K.225, A:Q.455, A:R.460, A:R.460, B:K.338, B:K.338, B:K.338 Salt bridges: A:K.225, A:R.460, A:R.464, B:K.338, B:K.338 pi-Stacking: A:F.294, A:F.294 pi-Cation interactions: A:R.460, A:R.460 ST9.4: 44 residues within 4Å: Chain A: K.338 Chain B: G.96, I.97, D.98, K.108, W.126, M.127, G.130, G.133, F.134, Q.136, I.137, H.140, M.162, L.164, T.165, G.170, S.171, D.172, V.173, G.174, T.198, T.224, K.225, I.290, A.291, F.294, V.296, I.297, E.298, Q.299, A.300, R.301, M.303, V.304, Y.446, A.447, G.448, I.452, D.456, R.460, K.461, R.464 Ligands: FAD.3 38 PLIP interactions: 4 interactions with chain A, 34 interactions with chain B Water bridges: A:K.338, A:K.338, B:T.224, B:T.224, B:T.224, B:K.225, B:K.225, B:K.225, B:D.456, B:D.456, B:R.460, B:R.464, B:R.464 Salt bridges: A:K.338, A:K.338, B:K.225, B:R.460, B:R.464 Hydrophobic interactions: B:I.97, B:W.126, B:Q.136, B:V.173, B:V.173, B:F.294, B:Q.299, B:Q.299, B:Y.446 Hydrogen bonds: B:S.171, B:T.224, B:E.298, B:R.301, B:R.301, B:R.301, B:A.447, B:D.456, B:K.461 pi-Stacking: B:F.294 pi-Cation interactions: B:R.460

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, X. et al., Structural basis for the broad substrate specificity of two acyl-CoA dehydrogenases FadE5 from mycobacteria. Proc.Natl.Acad.Sci.USA (2020)

Release Date

2020-07-01

Peptides

Acyl-CoA dehydrogenase FadE5: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Acyl-CoA dehydrogenase FadE5