SMTL ID : 5ud0.1

Class II fructose-1,6-bisphosphate aldolase E149A variant of Helicobacter pylori with cleavage products

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

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

NA.1: 9 residues within 4Å: Chain A: Q.47, H.80, D.82, H.83, M.102, E.132, H.210, K.251, N.253 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.82, A:D.82, A:H.83, A:H.210, A:K.251, A:N.253 NA.3: 9 residues within 4Å: Chain B: Q.47, H.80, D.82, H.83, M.102, E.132, H.210, K.251, N.253 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:H.80, B:E.132, B:H.210, B:K.251, B:N.253

3 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain A: H.83, M.102, E.134, H.180, H.210 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.83, A:E.134, A:H.180, A:H.210, H2O.4 ZN.4: 5 residues within 4Å: Chain B: H.83, H.180, H.210 Ligands: ZN.5, 13P.7 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.83, B:H.180, B:H.210, H2O.8 ZN.5: 8 residues within 4Å: Chain B: H.83, H.180, H.210, G.211, N.253 Ligands: ZN.4, 13P.7, G3H.8 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.83, B:H.180, B:H.210

1 x CA: CALCIUM ION(Non-covalent)

CA.6: 4 residues within 4Å: Chain B: H.83, D.104, S.106, E.134 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.104, B:S.106, B:E.134, H2O.13, H2O.13

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

13P.7: 19 residues within 4Å: Chain B: N.23, Q.47, D.82, H.83, H.180, G.181, K.184, H.210, G.211, A.212, S.213, N.253, T.254, D.255, T.256, D.257 Ligands: ZN.4, ZN.5, G3H.8 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:Q.47, B:D.82, B:G.181, B:G.211, B:A.212, B:S.213, B:S.213, B:S.213, B:N.253, B:D.255, B:T.256, B:T.256, B:T.256 Salt bridges: B:K.184

1 x G3H: GLYCERALDEHYDE-3-PHOSPHATE(Non-covalent)

G3H.8: 11 residues within 4Å: Chain A: R.280 Chain B: N.23, S.49, A.52, D.82, H.83, H.180, D.255, R.259 Ligands: ZN.5, 13P.7 12 PLIP interactions: 10 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.49, B:S.49, B:D.255 Water bridges: B:N.23, B:N.23, B:E.50, B:E.50, B:H.180, B:R.259, A:R.280 Salt bridges: B:R.259, A:R.280

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: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Fructose-bisphosphate aldolase

Related Entries With Identical Sequence