SMTL ID : 3hyl.1

Crystal Structure of Transketolase from Bacillus anthracis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.16 Å

Oligo State

homo-dimer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: R.508, A.509, P.511, D.614 Chain B: D.660 Ligands: FMT.3 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Water bridges: A:N.512, A:N.512, A:V.513, B:D.660, B:D.660 Hydrogen bonds: B:D.660 GOL.2: 5 residues within 4Å: Chain A: Q.200, E.261, K.262, R.422, Y.425 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.200, A:Q.200, A:Y.425

11 x FMT: FORMIC ACID(Non-functional Binders)

FMT.3: 7 residues within 4Å: Chain A: L.507, R.508, M.510, N.512, V.513, D.614 Ligands: GOL.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.512 Water bridges: A:V.513, A:D.614, A:D.614 FMT.4: 5 residues within 4Å: Chain A: Y.129, A.447, L.478, P.479 Ligands: FMT.5 1 PLIP interactions: 1 interactions with chain A Water bridges: A:A.447 FMT.5: 5 residues within 4Å: Chain A: M.476, Q.477, T.535, N.536 Ligands: FMT.4 No protein-ligand interaction detected (PLIP) FMT.6: 4 residues within 4Å: Chain A: T.643, F.644, H.647 Ligands: FMT.13 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.643, A:T.643 Water bridges: A:T.643, A:G.645 FMT.7: 6 residues within 4Å: Chain A: R.117, Q.118, S.121, T.123, P.124 Chain B: S.665 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.117, A:S.121, A:S.121 Water bridges: A:G.120, B:S.665 FMT.13: 5 residues within 4Å: Chain A: D.660 Chain B: R.508, A.509, P.511 Ligands: FMT.6 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:D.660 Water bridges: B:N.512, B:N.512, B:N.512 FMT.14: 6 residues within 4Å: Chain B: G.180, D.181, G.182, I.213, S.214 Ligands: MG.16 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:D.181, B:D.181, B:D.181, B:G.182 Water bridges: B:D.183, B:N.211, B:N.211 FMT.18: 2 residues within 4Å: Chain B: E.228, K.232 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.232 FMT.19: 3 residues within 4Å: Chain B: E.364, G.365, E.367 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.364, B:G.365 Water bridges: B:R.529, B:R.529 FMT.20: 9 residues within 4Å: Chain B: T.381, D.487, R.517, P.518, V.542, L.543, T.544, G.585, S.586 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.381, B:T.544, B:S.586 FMT.21: 3 residues within 4Å: Chain B: R.240, E.268, R.270 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.268 Water bridges: B:S.210, B:R.270, B:R.270

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

PEG.8: 3 residues within 4Å: Chain A: E.46, K.47, Q.118 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.46, A:Q.118 PEG.11: 7 residues within 4Å: Chain A: D.229, K.232, A.233 Chain B: S.226, D.229, A.233 Ligands: PEG.12 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.229 PEG.12: 8 residues within 4Å: Chain A: K.232, A.233, Y.234, G.235, W.236, R.263 Chain B: S.224 Ligands: PEG.11 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:W.236, A:R.263, B:S.224 PEG.15: 5 residues within 4Å: Chain B: Y.129, Q.477, L.478, P.479, T.535 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.129, B:T.535

2 x MG: MAGNESIUM ION(Non-covalent)

MG.9: 4 residues within 4Å: Chain A: D.181, N.211, I.213 Ligands: CL.10 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.181, A:I.213, H2O.8, H2O.8 MG.16: 4 residues within 4Å: Chain B: D.181, N.211, I.213 Ligands: FMT.14 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.181, B:I.213, H2O.18, H2O.18

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.10: 4 residues within 4Å: Chain A: D.181, G.182, I.213 Ligands: MG.9 Ligand excluded by PLIP

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

SO4.17: 5 residues within 4Å: Chain B: Q.200, E.261, K.262, R.422, Y.425 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.200 Water bridges: B:Q.200

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Maltseva, N. et al., Crystal Structure of Transketolase from Bacillus anthracis. To be Published

Release Date

2009-06-30

Peptides

Transketolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Transketolase

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