SMTL ID : 5vjd.1

Class II fructose-1,6-bisphosphate aldolase of Escherichia coli with DHAP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

4 x NA: SODIUM ION(Non-functional Binders)

NA.1: 6 residues within 4Å: Chain A: V.225, H.226, G.227, G.265, S.267 Ligands: 13P.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.227, A:G.265 Water bridges: A:V.225 NA.3: 9 residues within 4Å: Chain A: Q.59, H.107, D.109, M.142, E.172, V.262, H.264, K.284, N.286 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:H.107, A:D.109, A:E.172, A:H.264, A:K.284, A:N.286 NA.5: 6 residues within 4Å: Chain B: V.225, H.226, G.227, G.265, S.267 Ligands: 13P.8 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.227, B:G.265 Water bridges: B:V.225 NA.7: 8 residues within 4Å: Chain B: Q.59, H.107, D.109, M.142, E.172, H.264, K.284, N.286 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:Q.59, B:Q.59, B:H.107, B:D.109, B:H.264, B:K.284, B:N.286

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 6 residues within 4Å: Chain A: H.110, T.178, H.226, H.264, N.286 Ligands: 13P.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.110, A:H.226, A:H.264, H2O.13 ZN.6: 6 residues within 4Å: Chain B: H.110, T.178, H.226, H.264, N.286 Ligands: 13P.8 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.110, B:H.226, B:H.264, H2O.30

2 x 13P: 1,3-DIHYDROXYACETONEPHOSPHATE(Non-covalent)

13P.4: 18 residues within 4Å: Chain A: N.35, Q.59, D.109, H.110, V.225, H.226, G.227, H.264, G.265, G.266, S.267, N.286, I.287, D.288, T.289, D.290 Ligands: NA.1, ZN.2 14 PLIP interactions: 13 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:D.109, A:G.227, A:G.227, A:G.265, A:G.266, A:S.267, A:S.267, A:N.286, A:D.288, A:T.289, A:T.289, A:T.289 Water bridges: A:N.35, B:K.325 13P.8: 19 residues within 4Å: Chain A: K.325 Chain B: N.35, Q.59, D.109, H.110, V.225, H.226, G.227, H.264, G.265, G.266, S.267, N.286, I.287, D.288, T.289, D.290 Ligands: NA.5, ZN.6 13 PLIP interactions: 12 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.109, B:G.227, B:G.227, B:G.265, B:G.266, B:S.267, B:S.267, B:S.267, B:N.286, B:D.288, B:T.289, B:T.289 Water bridges: A:K.325

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jacques, B. et al., Active site remodeling during the catalytic cycle in metal-dependent fructose-1,6-bisphosphate aldolases. J. Biol. Chem. (2018)

Release Date

2018-04-11

Peptides

Fructose-bisphosphate aldolase class 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Fructose-bisphosphate aldolase class 2

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