SMTL ID : 4n0w.2 (1 other biounit)

X-ray crystal structure of a serine hydroxymethyltransferase from Burkholderia cenocepacia with covalently attached pyridoxal phosphate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)

PLP.1: 16 residues within 4Å: Chain A: S.107, G.108, S.109, H.136, T.138, S.185, D.210, A.212, H.213, T.236, H.238, K.239 Chain B: Y.65, G.269, G.270 Ligands: SO4.2 15 PLIP interactions: 12 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:H.136, A:A.212, A:K.239 Hydrogen bonds: A:S.107, A:G.108, A:S.109, A:H.213, B:Y.65, B:G.269, B:G.270 Water bridges: A:S.109, A:T.234 Salt bridges: A:H.238, A:K.239 pi-Stacking: A:H.136 PLP.3: 16 residues within 4Å: Chain A: Y.65, G.269, G.270 Chain B: S.107, G.108, S.109, H.136, T.138, H.139, D.210, A.212, H.213, T.236, H.238, K.239 Ligands: SO4.4 17 PLIP interactions: 13 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:H.136, B:A.212, B:K.239 Hydrogen bonds: B:G.108, B:S.109, B:S.109, B:T.138, B:H.213, B:K.239, A:Y.65, A:Y.65, A:G.269, A:G.270 Water bridges: B:S.109 Salt bridges: B:H.238, B:K.239 pi-Stacking: B:H.136

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

SO4.2: 8 residues within 4Å: Chain A: S.45, H.136, S.185, H.213, K.239, R.370 Chain B: Y.75 Ligands: PLP.1 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:S.45, A:S.185, B:Y.75 Salt bridges: A:H.136, A:H.213, A:K.239, A:R.370 SO4.4: 8 residues within 4Å: Chain A: Y.75 Chain B: S.45, H.136, S.185, H.213, K.239, R.370 Ligands: PLP.3 8 PLIP interactions: 2 interactions with chain A, 6 interactions with chain B Hydrogen bonds: A:Y.75, A:Y.75, B:S.45, B:S.185 Salt bridges: B:H.136, B:H.213, B:K.239, B:R.370

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fairman, J.W. et al., X-ray crystal structure of a serine hydroxymethyltransferase from Burkholderia cenocepacia with covalently attached pyridoxal phosphate. To be Published

Release Date

2013-12-11

Peptides

Serine hydroxymethyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

Serine hydroxymethyltransferase

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