SMTL ID : 4bx2.1

Crystal Structure of murine Chronophin (Pyridoxal Phosphate Phosphatase) in complex with Beryllium trifluoride

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.19 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 7 residues within 4Å: Chain A: D.26, D.28, G.29, V.30, D.235, D.240 Ligands: BEF.2 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.26, A:D.28, A:D.235, H2O.1, H2O.1 MG.5: 8 residues within 4Å: Chain B: D.26, D.28, G.29, V.30, D.235, R.236, D.240 Ligands: BEF.6 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.26, B:D.28, B:D.235, H2O.5, H2O.5

2 x BEF: BERYLLIUM TRIFLUORIDE ION(Covalent)

BEF.2: 10 residues within 4Å: Chain A: D.26, C.27, D.28, V.58, S.59, N.60, N.61, K.210, D.235 Ligands: MG.1 No protein-ligand interaction detected (PLIP) BEF.6: 8 residues within 4Å: Chain B: D.26, C.27, D.28, S.59, N.60, N.61, K.210 Ligands: MG.5 No protein-ligand interaction detected (PLIP)

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 8 residues within 4Å: Chain A: N.61, S.62, R.63, Y.147, H.179, T.187, T.190 Ligands: GOL.4 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:N.61, A:N.61, A:S.62, A:R.63 Water bridges: A:N.61, A:Y.147, A:D.174, A:D.176, A:H.179 GOL.4: 9 residues within 4Å: Chain A: D.28, W.32, G.34, E.35, N.61, R.63, R.64, R.72 Ligands: GOL.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.28, A:W.32, A:G.34, A:N.61, A:R.64, A:R.64 GOL.7: 9 residues within 4Å: Chain B: D.28, N.60, N.61, S.62, R.63, Y.147, D.176, H.179, T.187 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:N.61, B:S.62, B:R.63, B:R.63, B:R.63 Water bridges: B:D.28, B:N.60, B:H.179

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kestler, C. et al., Chronophin Dimerization is Required for Proper Positioning of its Substrate Specificity Loop. J.Biol.Chem. (2014)

Release Date

2013-12-25

Peptides

PYRIDOXAL PHOSPHATE PHOSPHATASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PYRIDOXAL PHOSPHATE PHOSPHATASE

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