SMTL ID : 1wdk.1

fatty acid beta-oxidation multienzyme complex from Pseudomonas fragi, form I (native2)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-2-2-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 2 residues within 4Å: Chain A: H.550, D.573 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.550

2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.2: 19 residues within 4Å: Chain A: G.321, A.322, I.324, M.325, D.344, I.345, N.346, G.349, A.400, V.401, E.403, K.408, V.411, N.428, T.429, S.430, H.451, F.452, N.454 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:A.322, A:A.322, A:I.324, A:M.325, A:N.346, A:E.403, A:E.403, A:K.408, A:K.408, A:N.428, A:S.430, A:N.454 Water bridges: A:G.326, A:G.326, A:N.346 NAD.5: 19 residues within 4Å: Chain B: G.321, A.322, I.324, M.325, D.344, I.345, N.346, G.349, A.400, V.401, E.403, K.408, V.411, N.428, T.429, S.430, H.451, F.452, N.454 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:A.322, B:A.322, B:M.325, B:N.346, B:E.403, B:K.408, B:K.408, B:N.428, B:S.430, B:N.454 Water bridges: B:G.326, B:G.326

4 x N8E: 3,6,9,12,15-PENTAOXATRICOSAN-1-OL(Non-covalent)

N8E.3: 10 residues within 4Å: Chain A: M.459, P.460, N.501, L.504, V.544, V.659, Y.660, G.661, I.662, G.663 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.504, A:V.544 Hydrogen bonds: A:Y.660 N8E.4: 13 residues within 4Å: Chain A: G.68, A.69, D.70, I.71, F.74, G.116, G.117, P.139, E.140, L.143, F.294, Q.298, K.305 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.74, A:P.139, A:L.143, A:F.294 Hydrogen bonds: A:D.70, A:I.71, A:Q.298 N8E.6: 16 residues within 4Å: Chain B: F.294, D.297, F.453, M.459, P.460, N.501, L.504, M.535, L.540, M.656, V.659, Y.660, G.661, I.662, G.663, L.666 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:F.453, B:L.504, B:L.540 Hydrogen bonds: B:Y.660 N8E.7: 16 residues within 4Å: Chain B: F.32, R.34, L.37, E.73, F.74, N.77, L.80, E.84, L.85, G.88, N.89, E.120, E.140, G.148, F.149, F.278 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:F.74, B:F.149, B:F.149, B:F.278 Hydrogen bonds: B:R.34, B:N.77

2 x HG: MERCURY (II) ION(Non-covalent)

HG.8: 4 residues within 4Å: Chain C: C.94, M.150, F.348 Ligands: ACO.9 No protein-ligand interaction detected (PLIP) HG.10: 4 residues within 4Å: Chain D: C.94, M.150, F.348 Ligands: ACO.11 No protein-ligand interaction detected (PLIP)

2 x ACO: ACETYL COENZYME *A(Non-covalent)

ACO.9: 22 residues within 4Å: Chain C: K.21, C.94, M.129, M.150, H.176, R.214, T.217, L.222, L.225, F.229, A.238, G.239, S.242, I.244, M.283, N.311, A.313, F.314, H.346, C.376, G.378 Ligands: HG.8 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:F.229, C:F.314 Hydrogen bonds: C:R.214, C:T.217, C:T.217, C:S.242, C:S.242, C:N.311 Water bridges: C:K.21, C:K.21, C:G.151 Salt bridges: C:K.21 pi-Cation interactions: C:R.214 ACO.11: 22 residues within 4Å: Chain D: C.94, M.129, M.150, H.176, R.214, T.217, L.222, L.225, A.228, A.238, G.239, S.242, I.244, M.283, N.311, A.313, F.314, H.346, C.376, I.377, G.378 Ligands: HG.10 11 PLIP interactions: 11 interactions with chain D Hydrophobic interactions: D:A.228, D:A.238 Hydrogen bonds: D:R.214, D:T.217, D:T.217, D:S.221, D:S.242, D:N.311 Water bridges: D:C.376 Salt bridges: D:K.21 pi-Cation interactions: D:R.214

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ishikawa, M. et al., Structural basis for channelling mechanism of a fatty acid beta-oxidation multienzyme complex. Embo J. (2004)

Release Date

2004-07-27

Peptides

Fatty oxidation complex alpha subunit: AB
3-ketoacyl-CoA thiolase: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Fatty oxidation complex alpha subunit

3-ketoacyl-CoA thiolase

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