SMTL ID : 6u1v.1

Crystal structure of acyl-ACP/acyl-CoA dehydrogenase from allylmalonyl-CoA and FK506 biosynthesis, TcsD

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-tetramer

Ligands

4 x FDA: DIHYDROFLAVINE-ADENINE DINUCLEOTIDE(Non-covalent)

FDA.1: 38 residues within 4Å: Chain A: F.79, L.83, T.116, L.117, G.118, S.119, G.124, S.125, F.149, S.150, T.151, V.192, M.195, T.200, I.362, I.363, E.364, G.365, G.366, D.368, V.369, D.372 Chain C: Y.253, K.257, L.259, K.260, L.264, D.267, V.269, R.273, E.337, M.338, F.339, G.340, G.341, I.342, Y.344, T.345 33 PLIP interactions: 23 interactions with chain A, 10 interactions with chain C Hydrophobic interactions: A:F.79, A:F.149, A:V.192, A:T.200, A:I.363 Hydrogen bonds: A:T.116, A:G.118, A:S.119, A:S.119, A:S.125, A:S.125, A:T.151, A:T.151, A:E.364, A:G.365, A:D.368, C:E.337, C:G.340, C:G.341 Water bridges: A:E.120, A:E.120, A:E.120, A:G.124, A:S.125, A:E.126, A:F.149, C:K.257, C:K.260, C:K.260, C:R.273, C:I.342 Salt bridges: C:K.257, C:K.257 FDA.2: 38 residues within 4Å: Chain B: F.79, L.83, T.116, L.117, G.118, S.119, G.124, S.125, F.149, S.150, T.151, V.192, M.195, T.200, I.362, I.363, E.364, G.365, G.366, D.368, V.369, D.372 Chain D: Y.253, K.257, L.259, K.260, L.264, D.267, V.269, R.273, E.337, M.338, F.339, G.340, G.341, I.342, Y.344, T.345 30 PLIP interactions: 8 interactions with chain D, 22 interactions with chain B Hydrogen bonds: D:K.260, D:E.337, D:G.340, D:G.341, B:T.116, B:G.118, B:S.119, B:S.119, B:S.125, B:S.125, B:T.151, B:T.151, B:E.364, B:G.365, B:D.368, B:D.368 Water bridges: D:R.273, D:I.342, B:E.120, B:G.124, B:G.124, B:S.125, B:E.126, B:F.149 Salt bridges: D:K.257, D:K.257 Hydrophobic interactions: B:F.79, B:F.149, B:T.200, B:I.363 FDA.3: 37 residues within 4Å: Chain A: Y.253, K.257, L.259, L.264, D.267, V.269, R.273, E.337, M.338, F.339, G.340, G.341, I.342, Y.344, T.345 Chain C: F.79, L.83, T.116, L.117, G.118, S.119, G.124, S.125, F.149, S.150, T.151, V.192, M.195, T.200, I.362, I.363, E.364, G.365, G.366, D.368, V.369, D.372 28 PLIP interactions: 8 interactions with chain A, 20 interactions with chain C Hydrogen bonds: A:E.337, A:G.340, A:G.341, C:T.116, C:G.118, C:S.119, C:S.119, C:S.125, C:S.125, C:T.151, C:T.151, C:E.364, C:G.365, C:D.368, C:D.368 Water bridges: A:K.257, A:R.273, A:I.342, C:S.125, C:E.126, C:F.149 Salt bridges: A:K.257, A:K.257 Hydrophobic interactions: C:F.79, C:F.149, C:V.192, C:T.200, C:I.363 FDA.4: 38 residues within 4Å: Chain B: Y.253, K.257, L.259, K.260, L.264, D.267, V.269, R.273, E.337, M.338, F.339, G.340, G.341, I.342, Y.344, T.345 Chain D: F.79, L.83, T.116, L.117, G.118, S.119, G.124, S.125, F.149, S.150, T.151, V.192, M.195, T.200, I.362, I.363, E.364, G.365, G.366, D.368, V.369, D.372 33 PLIP interactions: 10 interactions with chain B, 23 interactions with chain D Hydrogen bonds: B:E.337, B:G.340, B:G.341, D:T.116, D:G.118, D:S.119, D:S.119, D:S.119, D:S.125, D:S.125, D:T.151, D:T.151, D:E.364, D:G.365, D:D.368, D:D.368, D:D.372 Water bridges: B:K.257, B:K.260, B:K.260, B:R.273, B:I.342, D:E.120, D:E.120, D:E.126, D:F.149 Salt bridges: B:K.257, B:K.257 Hydrophobic interactions: D:F.79, D:F.149, D:V.192, D:T.200, D:I.363

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Blake-Hedges, J.M. et al., Structural Mechanism of Regioselectivity in an Unusual Bacterial Acyl-CoA Dehydrogenase. J.Am.Chem.Soc. (2020)

Release Date

2019-12-18

Peptides

Acyl-CoA dehydrogenase domain-containing protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Acyl-CoA dehydrogenase domain-containing protein