SMTL ID : 4kbx.1

Crystal structure of the pyridoxal-5'-phosphate dependent protein yhfx from escherichia coli

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: Y.300, R.302, R.352, Q.354 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.300, A:Q.354 Water bridges: A:Y.300, A:R.352, A:R.352 Salt bridges: A:R.302, A:R.352 SO4.6: 4 residues within 4Å: Chain B: Y.300, R.302, R.352, Q.354 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:Y.300, B:Y.300, B:Q.354 Water bridges: B:R.352, B:R.352 Salt bridges: B:R.302, B:R.352

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 8 residues within 4Å: Chain A: Y.87, A.90, R.94, Q.103, Q.113, D.116, A.117, Q.120 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.103, A:Q.113 GOL.3: 4 residues within 4Å: Chain A: I.15, S.16, F.311, I.318 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.16 Water bridges: A:Q.316 GOL.4: 1 residues within 4Å: Chain A: K.224 No protein-ligand interaction detected (PLIP) GOL.7: 8 residues within 4Å: Chain B: Y.87, A.90, R.94, Q.103, Q.113, D.116, A.117, Q.120 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.103, B:Q.113 GOL.8: 4 residues within 4Å: Chain B: I.15, S.16, F.311, I.318 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.16 Water bridges: B:Q.316 GOL.9: 1 residues within 4Å: Chain B: K.224 No protein-ligand interaction detected (PLIP)

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

CL.5: 3 residues within 4Å: Chain A: T.312, P.313, E.314 Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain B: T.312, P.313, E.314 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fedorov, A.A. et al., Crystal structure of the pyridoxal-5'-phosphate dependent protein yhfx from escherichia coli. To be Published

Release Date

2014-05-21

Peptides

Uncharacterized protein YhfX: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Uncharacterized protein YhfX