SMTL ID : 2x5k.1

Structure of an active site mutant of the D-Erythrose-4-Phosphate Dehydrogenase from E. coli

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.37 Å

Oligo State

homo-tetramer

Ligands

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 1 residues within 4Å: Chain A: W.59 No protein-ligand interaction detected (PLIP) GOL.2: 3 residues within 4Å: Chain A: D.169, A.170, K.253 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.169 GOL.7: 3 residues within 4Å: Chain B: R.26, I.275, D.328 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.26 Water bridges: B:R.26, B:R.325, B:R.325 GOL.8: 5 residues within 4Å: Chain B: R.4, R.89, E.90, L.91, G.92 1 PLIP interactions: 1 interactions with chain B Water bridges: B:G.92 GOL.19: 2 residues within 4Å: Chain D: A.58, W.59 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:A.58 GOL.20: 4 residues within 4Å: Chain D: L.38, A.39, D.40, H.79 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:H.79 Water bridges: D:D.40

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 2 residues within 4Å: Chain A: V.102, Y.103 No protein-ligand interaction detected (PLIP) EDO.9: 1 residues within 4Å: Chain B: W.59 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:W.59 EDO.15: 3 residues within 4Å: Chain C: R.4, R.89, E.90 No protein-ligand interaction detected (PLIP) EDO.16: 1 residues within 4Å: Chain C: W.59 No protein-ligand interaction detected (PLIP) EDO.21: 2 residues within 4Å: Chain D: P.254, K.256 No protein-ligand interaction detected (PLIP)

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.4: 3 residues within 4Å: Chain A: A.42 Chain C: L.281 Chain D: L.198 1 PLIP interactions: 1 interactions with chain A Water bridges: A:H.46

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

CL.5: 4 residues within 4Å: Chain A: R.12, T.52 Chain D: R.202, A.203 Ligand excluded by PLIP CL.10: 5 residues within 4Å: Chain B: R.12, T.52, H.186 Chain C: R.202, A.203 Ligand excluded by PLIP CL.18: 3 residues within 4Å: Chain B: R.202, A.203 Chain C: T.52 Ligand excluded by PLIP

4 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.6: 2 residues within 4Å: Chain A: Q.269, H.273 No protein-ligand interaction detected (PLIP) PGE.13: 4 residues within 4Å: Chain B: E.107, E.110, A.111, A.114 2 PLIP interactions: 2 interactions with chain B Water bridges: B:E.110, B:E.110 PGE.14: 3 residues within 4Å: Chain B: V.102, Y.103, H.108 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.103 Water bridges: B:H.108, B:H.108, B:H.108 PGE.17: 7 residues within 4Å: Chain C: G.101, V.102, G.104, S.105, H.124, G.126, S.127 No protein-ligand interaction detected (PLIP)

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

PEG.11: 3 residues within 4Å: Chain B: R.62, E.64, F.69 No protein-ligand interaction detected (PLIP) PEG.12: 3 residues within 4Å: Chain B: A.42 Chain C: L.198 Chain D: P.282 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Moniot, S. et al., Structural Characterization of Erythrose-4- Phosphate Dehydrogenase from Escherichia Coli: Peculiar Features When Compared to Phosphorylating Gapdhs. To be Published

Release Date

2011-02-16

Peptides

D-ERYTHROSE-4-PHOSPHATE DEHYDROGENASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
O

B
P

C
Q

D
R

D-ERYTHROSE-4-PHOSPHATE DEHYDROGENASE