SMTL ID : 3c52.1

Class II fructose-1,6-bisphosphate aldolase from helicobacter pylori in complex with phosphoglycolohydroxamic acid, a competitive inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.83, H.180, H.210 Ligands: PGH.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.83, A:H.180, A:H.210 ZN.5: 4 residues within 4Å: Chain B: H.83, H.180, H.210 Ligands: PGH.8 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.83, B:H.180, B:H.210

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 3 residues within 4Å: Chain A: D.104, S.106, E.134 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.104, A:S.106, H2O.1, H2O.10 CA.6: 4 residues within 4Å: Chain B: D.104, S.106, E.134, L.138 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.104, B:S.106, B:E.134

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

NA.3: 8 residues within 4Å: Chain A: Q.47, H.80, D.82, M.102, E.132, H.210, K.251, N.253 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.210, A:K.251, A:N.253 NA.7: 8 residues within 4Å: Chain B: Q.47, H.80, D.82, M.102, E.132, H.210, K.251, N.253 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.82, B:D.82, B:K.251, B:N.253

2 x PGH: PHOSPHOGLYCOLOHYDROXAMIC ACID(Non-covalent)

PGH.4: 15 residues within 4Å: Chain A: 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 Ligands: ZN.1 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:N.23, A:Q.47, A:G.181, A:G.211, A:A.212, A:S.213, A:N.253, A:D.255, A:T.256 Water bridges: A:N.23, A:D.82 Salt bridges: A:K.184 PGH.8: 15 residues within 4Å: Chain B: 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 Ligands: ZN.5 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:Q.47, B:G.181, B:G.211, B:G.211, B:A.212, B:S.213, B:N.253, B:D.255, B:T.256, B:T.256 Salt bridges: B:K.184

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fonvielle, M. et al., Synthesis and Biochemical Evaluation of Selective Inhibitors of Class II Fructose Bisphosphate Aldolases: Towards New Synthetic Antibiotics. Chemistry (2008)

Release Date

2008-08-26

Peptides

Fructose-bisphosphate aldolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Fructose-bisphosphate aldolase

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