SMTL ID : 3pfd.5 (4 other biounits)

Crystal structure of an Acyl-CoA dehydrogenase from Mycobacterium thermoresistibile bound to reduced flavin adenine dinucleotide solved by combined iodide ion SAD MR

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

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

FDA.1: 21 residues within 4Å: Chain A: Y.136, A.137, L.138, S.139, G.144, S.145, W.169, I.170, T.171, K.214, I.217, T.222, I.372, I.375, Y.376, E.377, T.379, Q.381, I.382 Ligands: IOD.2, IOD.21 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:W.169, A:W.169, A:K.214, A:I.217, A:T.222, A:I.372, A:Y.376 Hydrogen bonds: A:Y.136, A:L.138, A:S.139, A:S.139, A:S.139, A:S.145, A:S.145, A:T.171, A:T.171, A:T.171, A:E.377, A:T.379, A:T.379 Water bridges: A:Y.136

28 x IOD: IODIDE ION(Non-functional Binders)

IOD.2: 2 residues within 4Å: Chain A: R.389 Ligands: FDA.1 Ligand excluded by PLIP IOD.3: 2 residues within 4Å: Chain A: V.386, R.389 Ligand excluded by PLIP IOD.4: 2 residues within 4Å: Chain A: S.289, D.290 Ligand excluded by PLIP IOD.5: 1 residues within 4Å: Chain A: Y.277 Ligand excluded by PLIP IOD.6: 2 residues within 4Å: Chain A: F.361, P.362 Ligand excluded by PLIP IOD.7: 2 residues within 4Å: Chain A: Q.381, R.384 Ligand excluded by PLIP IOD.8: 5 residues within 4Å: Chain A: D.339, Q.374, N.380, Q.381, R.384 Ligand excluded by PLIP IOD.9: 2 residues within 4Å: Chain A: R.318, F.328 Ligand excluded by PLIP IOD.10: 1 residues within 4Å: Chain A: R.27 Ligand excluded by PLIP IOD.11: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.12: 2 residues within 4Å: Chain A: D.300, K.304 Ligand excluded by PLIP IOD.13: 1 residues within 4Å: Chain A: E.142 Ligand excluded by PLIP IOD.14: 2 residues within 4Å: Chain A: E.22 Ligands: IOD.15 Ligand excluded by PLIP IOD.15: 3 residues within 4Å: Chain A: A.78, D.79 Ligands: IOD.14 Ligand excluded by PLIP IOD.16: 3 residues within 4Å: Chain A: A.49, R.213, K.214 Ligand excluded by PLIP IOD.17: 1 residues within 4Å: Chain A: K.211 Ligand excluded by PLIP IOD.18: 3 residues within 4Å: Chain A: K.105, M.109 Ligands: IOD.19 Ligand excluded by PLIP IOD.19: 3 residues within 4Å: Chain A: K.105, H.254 Ligands: IOD.18 Ligand excluded by PLIP IOD.20: 4 residues within 4Å: Chain A: K.105, H.254, P.257, A.316 Ligand excluded by PLIP IOD.21: 2 residues within 4Å: Chain A: E.377 Ligands: FDA.1 Ligand excluded by PLIP IOD.22: 2 residues within 4Å: Chain A: A.126, W.178 Ligand excluded by PLIP IOD.23: 4 residues within 4Å: Chain A: E.140, R.141, S.166, K.167 Ligand excluded by PLIP IOD.24: 2 residues within 4Å: Chain A: G.234, D.235 Ligand excluded by PLIP IOD.25: 4 residues within 4Å: Chain A: D.160, R.231, I.232, P.233 Ligand excluded by PLIP IOD.26: 1 residues within 4Å: Chain A: V.155 Ligand excluded by PLIP IOD.27: 3 residues within 4Å: Chain A: T.185, D.186, G.242 Ligand excluded by PLIP IOD.28: 2 residues within 4Å: Chain A: K.282, G.285 Ligand excluded by PLIP IOD.29: 2 residues within 4Å: Chain A: E.44, E.47 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abendroth, J. et al., SAD phasing using iodide ions in a high-throughput structural genomics environment. J.STRUCT.FUNCT.GENOM. (2011)

Release Date

2010-11-10

Peptides

Acyl-CoA dehydrogenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

Acyl-CoA dehydrogenase

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