SMTL ID : 3owa.1 (1 other biounit)

Crystal Structure of Acyl-CoA Dehydrogenase complexed with FAD from Bacillus anthracis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.97 Å

Oligo State

homo-dimer

Ligands

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

FAD.1: 31 residues within 4Å: Chain A: Y.151, L.153, T.154, G.159, S.160, W.186, I.187, T.188, K.227, T.235, I.403, I.406, F.407, T.410, E.412, I.413, L.416, Q.490 Chain B: R.294, Q.296, F.297, I.301, F.304, I.307, Q.381, I.382, G.384, G.385, Y.386, M.389 Ligands: PEG.10 22 PLIP interactions: 15 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:W.186, A:K.227, A:T.235, A:I.403 Hydrogen bonds: A:Y.151, A:L.153, A:T.154, A:T.154, A:S.160, A:S.160, A:T.188, A:T.410, A:E.412, A:Q.490, B:Q.296, B:Q.381, B:G.385 Water bridges: A:G.409, B:R.294 Salt bridges: B:R.294, B:R.294 pi-Stacking: B:F.304 FAD.6: 29 residues within 4Å: Chain A: R.294, Q.296, F.297, I.301, F.304, I.307, Q.381, I.382, G.384, G.385, Y.386 Chain B: Y.151, L.153, T.154, G.159, S.160, W.186, I.187, T.188, K.227, I.403, I.406, F.407, T.410, E.412, I.413, L.416, Q.490 Ligands: PEG.3 21 PLIP interactions: 14 interactions with chain B, 7 interactions with chain A Hydrophobic interactions: B:W.186, B:K.227, B:I.403 Hydrogen bonds: B:Y.151, B:L.153, B:T.154, B:T.154, B:S.160, B:S.160, B:T.188, B:T.188, B:T.410, B:T.410, B:Q.490, A:Q.296, A:Q.381, A:G.385 Water bridges: A:R.294 Salt bridges: A:R.294, A:R.294 pi-Stacking: A:F.304

2 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.2: 7 residues within 4Å: Chain A: N.313, K.317, F.367, E.370, V.371, F.535, E.538 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.317 1PE.9: 9 residues within 4Å: Chain B: K.317, F.367, E.370, V.371, Y.374, F.535, E.538, A.539, E.542 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:K.317 Water bridges: B:Y.374, B:N.502, B:E.538, B:K.582

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 3 residues within 4Å: Chain A: F.297, F.304 Ligands: FAD.6 No protein-ligand interaction detected (PLIP) PEG.10: 3 residues within 4Å: Chain B: F.297, F.304 Ligands: FAD.1 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Q.490

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 2 residues within 4Å: Chain A: E.391, Y.392 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.391 GOL.7: 4 residues within 4Å: Chain B: R.170, N.172, A.173, E.174 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.170, B:A.173, B:E.174 GOL.8: 5 residues within 4Å: Chain B: A.390, E.391, Y.392, E.393, R.396 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.391, B:R.396, B:R.396 Water bridges: B:R.396 GOL.12: 5 residues within 4Å: Chain A: D.373, R.405 Chain B: D.373, Y.374, D.377 10 PLIP interactions: 7 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:D.373, B:D.373, B:D.373, A:R.405 Water bridges: B:Y.374, B:D.377, B:D.377, B:R.405, A:D.373, A:D.373 GOL.13: 4 residues within 4Å: Chain B: N.292, Q.293, P.300, E.593 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.292

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.5: 4 residues within 4Å: Chain A: Q.480, K.481, Y.482, G.483 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.484 SO4.11: 2 residues within 4Å: Chain B: A.217, G.218 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.218 Water bridges: B:V.219, B:V.219

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, Y. et al., Crystal Structure of Acyl-CoA Dehydrogenase complexed with FAD from Bacillus anthracis. To be Published

Release Date

2010-10-13

Peptides

Acyl-CoA dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Acyl-CoA dehydrogenase

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