SMTL ID : 7ocn.1

Crystal structure of the bifunctional mannitol-1-phosphate dehydrogenase/phosphatase MtlD from Acinetobacter baumannii

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: D.16, D.18, E.175, D.176 Ligands: SO4.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.16, A:D.18, A:D.176 MG.5: 5 residues within 4Å: Chain A: L.373, K.375, D.411, T.412, Q.524 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.412, H2O.1, H2O.2 MG.9: 7 residues within 4Å: Chain B: D.16, D.18, E.25, G.54, E.175, D.176, S.177 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.16, B:D.18, B:E.175, B:D.176

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

SO4.2: 7 residues within 4Å: Chain A: D.16, S.119, K.151, S.177, N.179, G.180 Ligands: MG.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.119, A:S.119, A:S.177, A:G.180 Salt bridges: A:K.151 SO4.4: 5 residues within 4Å: Chain A: N.374, K.375, R.613, K.614, R.620 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:R.613, A:K.614, A:R.620 SO4.11: 4 residues within 4Å: Chain B: N.374, R.613, K.614, R.620 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.374 Salt bridges: B:R.613, B:K.614, B:R.620 SO4.12: 4 residues within 4Å: Chain B: G.253, A.254, K.420, R.609 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.254 Salt bridges: B:R.609

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

EDO.3: 2 residues within 4Å: Chain A: G.253, A.254 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.254 EDO.8: 2 residues within 4Å: Chain B: N.670, R.678 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.678

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

CL.6: 3 residues within 4Å: Chain A: V.627, R.630, H.631 Ligand excluded by PLIP CL.13: 4 residues within 4Å: Chain B: G.99, Q.102, N.243, Q.244 Ligand excluded by PLIP CL.14: 4 residues within 4Å: Chain B: Y.547, E.548, S.549, V.552 Ligand excluded by PLIP CL.15: 2 residues within 4Å: Chain B: R.428, R.431 Ligand excluded by PLIP

1 x BR: BROMIDE ION(Non-covalent)

BR.7: 4 residues within 4Å: Chain A: G.99, Q.102, N.243, Q.244 Ligand excluded by PLIP

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.10: 11 residues within 4Å: Chain A: I.130, N.133, Y.135, K.136 Chain B: R.298, L.421, N.425, Q.429, K.433, I.489, H.492 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:N.133, A:K.136 Salt bridges: B:R.298, B:K.433

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tam, H.K. et al., Unidirectional mannitol synthesis of Acinetobacter baumannii MtlD is facilitated by the helix-loop-helix-mediated dimer formation. Proc.Natl.Acad.Sci.USA (2022)

Release Date

2022-04-20

Peptides

HAD hydrolase, family IA, variant 3: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

HAD hydrolase, family IA, variant 3

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