SMTL ID : 4b3j.1

Crystal structure of Mycobacterium tuberculosis fatty acid beta- oxidation complex with CoenzymeA bound at the hydratase and thiolase active sites

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-oligomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: P.275, G.309, Q.310, V.311 Ligand excluded by PLIP SO4.2: 3 residues within 4Å: Chain A: V.290, D.291 Chain C: H.24 Ligand excluded by PLIP SO4.3: 4 residues within 4Å: Chain A: H.7, H.8, H.9, H.10 Ligand excluded by PLIP SO4.4: 4 residues within 4Å: Chain A: R.614, G.626, K.627, R.628 Ligand excluded by PLIP SO4.5: 3 residues within 4Å: Chain A: P.647, L.648 Chain D: H.243 Ligand excluded by PLIP SO4.6: 1 residues within 4Å: Chain A: R.343 Ligand excluded by PLIP SO4.12: 4 residues within 4Å: Chain B: P.275, G.309, Q.310, V.311 Ligand excluded by PLIP SO4.13: 4 residues within 4Å: Chain B: Q.289, V.290, D.291 Chain D: H.24 Ligand excluded by PLIP SO4.14: 3 residues within 4Å: Chain B: P.647, L.648 Chain C: H.243 Ligand excluded by PLIP SO4.15: 2 residues within 4Å: Chain B: R.343, K.419 Ligand excluded by PLIP SO4.16: 3 residues within 4Å: Chain B: R.614, K.627, R.628 Ligand excluded by PLIP SO4.17: 1 residues within 4Å: Chain B: K.616 Ligand excluded by PLIP SO4.18: 4 residues within 4Å: Chain B: T.708, G.709, K.710, A.711 Ligand excluded by PLIP SO4.19: 4 residues within 4Å: Chain B: T.673, S.674, T.675, A.676 Ligand excluded by PLIP SO4.22: 1 residues within 4Å: Chain C: R.382 Ligand excluded by PLIP SO4.23: 4 residues within 4Å: Chain C: S.163, R.164, N.249, V.251 Ligand excluded by PLIP SO4.24: 2 residues within 4Å: Chain C: R.195, L.201 Ligand excluded by PLIP SO4.25: 2 residues within 4Å: Chain C: P.193, R.195 Ligand excluded by PLIP SO4.26: 4 residues within 4Å: Chain C: H.43, P.44, D.45, L.46 Ligand excluded by PLIP SO4.27: 4 residues within 4Å: Chain C: R.173, K.177, D.345, E.346 Ligand excluded by PLIP SO4.28: 3 residues within 4Å: Chain C: N.380, R.382, R.402 Ligand excluded by PLIP SO4.32: 3 residues within 4Å: Chain D: R.382, R.402, V.403 Ligand excluded by PLIP SO4.33: 2 residues within 4Å: Chain D: R.195, L.201 Ligand excluded by PLIP SO4.34: 2 residues within 4Å: Chain D: P.193, R.195 Ligand excluded by PLIP SO4.35: 4 residues within 4Å: Chain D: S.163, R.164, N.249, V.251 Ligand excluded by PLIP SO4.36: 1 residues within 4Å: Chain D: R.382 Ligand excluded by PLIP

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 6 residues within 4Å: Chain A: S.528, I.531, G.532, L.571, I.579 Ligands: GOL.9 No protein-ligand interaction detected (PLIP) GOL.8: 10 residues within 4Å: Chain A: G.84, M.89, I.107, G.132, E.135, E.157, G.165, G.166, F.303 Ligands: GOL.10 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.157, A:E.157, A:G.165, A:G.166 GOL.9: 7 residues within 4Å: Chain A: S.457, H.478, F.480, S.528, I.531, L.571 Ligands: GOL.7 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.528 GOL.10: 10 residues within 4Å: Chain A: G.83, G.84, L.130, G.131, G.132, P.156, E.157, L.160 Ligands: GOL.8, COA.11 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.84, A:G.132, A:E.157 GOL.20: 9 residues within 4Å: Chain B: G.84, M.89, V.104, E.135, E.157, G.165, G.166, F.303 Ligands: COA.21 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:E.135, B:G.165, B:G.166 Water bridges: B:G.84, B:G.132 GOL.29: 9 residues within 4Å: Chain C: I.36, L.39, R.40, H.43, L.46, E.48, I.51, M.79, L.115 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:H.43 GOL.39: 8 residues within 4Å: Chain D: L.39, R.40, H.43, L.46, E.48, I.51, L.115, M.268 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:H.43, D:E.48, D:E.48

4 x COA: COENZYME A(Non-covalent)

COA.11: 15 residues within 4Å: Chain A: S.42, T.43, V.45, A.82, G.83, G.84, D.85, V.86, L.130, P.156, L.160, R.191, F.320, Q.324 Ligands: GOL.10 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.130 Hydrogen bonds: A:A.82, A:V.86, A:R.191, A:R.191, A:Q.324 COA.21: 17 residues within 4Å: Chain B: S.42, T.43, V.45, A.82, G.83, G.84, V.86, K.87, L.130, G.131, P.156, E.157, L.160, R.191, F.320, Q.324 Ligands: GOL.20 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:L.130 Hydrogen bonds: B:G.84, B:V.86, B:K.87, B:K.87, B:R.191 Salt bridges: B:K.87 pi-Stacking: B:F.320 COA.30: 18 residues within 4Å: Chain C: Q.18, C.92, M.127, Q.149, R.210, T.213, L.218, L.221, A.224, F.225, G.254, G.255, S.257, S.258, I.260, F.330, H.359, L.361 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:A.224, C:F.225 Hydrogen bonds: C:Q.149, C:Q.175, C:R.210, C:R.210, C:H.359 Water bridges: C:S.258 Salt bridges: C:K.19 pi-Cation interactions: C:R.210, C:R.210 COA.37: 17 residues within 4Å: Chain D: Q.18, K.19, C.92, M.127, Q.149, R.210, T.213, L.218, L.221, G.254, G.255, S.257, S.258, I.260, F.330, H.359, L.361 8 PLIP interactions: 8 interactions with chain D Hydrophobic interactions: D:I.260 Hydrogen bonds: D:Q.175, D:R.210, D:T.213, D:S.258 Salt bridges: D:K.19, D:K.19 pi-Cation interactions: D:R.210

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.31: 4 residues within 4Å: Chain B: Q.645 Chain C: H.243, W.244, I.298 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain C Hydrogen bonds: B:Q.645 Water bridges: B:Q.645 Salt bridges: C:K.336 pi-Stacking: C:W.244, C:W.244, C:W.244, C:W.244 ADP.38: 2 residues within 4Å: Chain A: Q.645 Chain D: W.244 4 PLIP interactions: 4 interactions with chain D pi-Stacking: D:W.244, D:W.244, D:W.244, D:W.244

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Venkatesan, R. et al., Structure of Mycobacterial Beta-Oxidation Trifunctional Enzyme Reveals its Altered Assembly and Putative Substrate Channeling Pathway. Acs Chem.Biol. (2013)

Release Date

2013-03-27

Peptides

FATTY ACID BETA-OXIDATION COMPLEX ALPHA-CHAIN FADB: AB
FATTY ACID BETA-OXIDATION COMPLEX BETA-CHAIN FADA: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

FATTY ACID BETA-OXIDATION COMPLEX ALPHA-CHAIN FADB

FATTY ACID BETA-OXIDATION COMPLEX BETA-CHAIN FADA

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