SMTL ID : 6e85.1

1.25 Angstrom Resolution Crystal Structure of 4-hydroxythreonine-4-phosphate Dehydrogenase from Klebsiella pneumoniae.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.25 Å

Oligo State

homo-dimer

Ligands

2 x NI: NICKEL (II) ION(Non-covalent)

NI.1: 3 residues within 4Å: Chain A: H.171, H.270 Chain B: H.215 6 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: A:H.171, A:H.270, B:H.215, H2O.7, H2O.10, H2O.29 NI.6: 3 residues within 4Å: Chain A: H.215 Chain B: H.171, H.270 6 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: A:H.215, B:H.171, B:H.270, H2O.25, H2O.28, H2O.29

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.2: 9 residues within 4Å: Chain A: P.250, D.251, T.252, V.253, F.254, M.255 Chain B: I.275, K.278, L.279 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.254, A:M.255 FMT.7: 4 residues within 4Å: Chain B: Y.202, R.206, Y.262, D.263 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Y.202, B:R.206, B:D.263 Water bridges: B:K.164, B:K.164, B:Y.202

1 x POP: PYROPHOSPHATE 2-(Non-covalent)

POP.3: 3 residues within 4Å: Chain A: R.195, M.237, K.240 7 PLIP interactions: 7 interactions with chain A Water bridges: A:E.187, A:R.195, A:R.195, A:R.195 Salt bridges: A:R.195, A:K.240, A:K.240

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

SO4.4: 3 residues within 4Å: Chain A: G.302, T.303, A.304 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.302, A:T.303, A:T.303, A:A.304 Water bridges: A:T.303, A:F.305 SO4.8: 3 residues within 4Å: Chain B: G.302, T.303, A.304 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.302, B:G.302, B:T.303, B:A.304 Water bridges: B:F.305, B:F.305 SO4.9: 3 residues within 4Å: Chain B: H.141, T.142, R.296 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:T.142, B:T.142 Water bridges: B:T.123, B:H.141, B:H.141, B:H.141, B:H.141, B:H.141, B:N.287, B:R.296, B:S.298 Salt bridges: B:H.141, B:R.296 SO4.10: 2 residues within 4Å: Chain B: R.90, Q.95 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:A.96 Water bridges: B:R.90, B:R.90 Salt bridges: B:R.90

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

CL.5: 2 residues within 4Å: Chain A: R.199, I.295 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Inniss, N.L. et al., A Structural Systems Biology Approach to High-Risk CG23 Klebsiella pneumoniae. Microbiol Resour Announc (2023)

Release Date

2018-08-08

Peptides

D-threonate 4-phosphate dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

D-threonate 4-phosphate dehydrogenase