SMTL ID : 4j9w.1

Crystal structure of the complex of a hydroxyproline epimerase (TARGET EFI-506499, PSEUDOMONAS FLUORESCENS PF-5) with the inhibitor pyrrole-2-carboxylate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 8 residues within 4Å: Chain A: P.75, R.76, G.77 Chain B: D.30, R.39, S.78, L.81, S.313 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.30, B:D.30, A:G.77 Water bridges: B:R.39, B:S.78, B:S.313 GOL.4: 7 residues within 4Å: Chain A: G.34, S.289, Q.290, F.291, G.308, S.309 Chain B: P.325 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.290, A:S.309 Water bridges: A:G.34, A:G.34 GOL.5: 6 residues within 4Å: Chain B: G.34, S.289, Q.290, F.291, G.308, S.309 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.290, B:S.309 Water bridges: B:G.34

2 x PYC: PYRROLE-2-CARBOXYLATE(Non-covalent)

PYC.2: 10 residues within 4Å: Chain A: L.107, C.110, G.111, H.112, H.230, C.248, D.254, C.258, G.259, T.260 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.107 Hydrogen bonds: A:G.111, A:H.112, A:H.112, A:G.259, A:T.260, A:T.260 Salt bridges: A:H.112 PYC.6: 9 residues within 4Å: Chain B: C.110, G.111, H.112, H.230, C.248, D.254, C.258, G.259, T.260 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:G.111, B:H.112, B:H.112, B:G.259, B:T.260, B:T.260 Salt bridges: B:H.112

2 x NA: SODIUM ION(Non-functional Binders)

NA.3: 2 residues within 4Å: Chain A: D.237, A.240 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.237 NA.7: 2 residues within 4Å: Chain B: D.237, A.240 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:A.240

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vetting, M.W. et al., Crystal structure of the complex of a hydroxyproline epimerase (TARGET EFI-506499, PSEUDOMONAS FLUORESCENS PF-5) with the inhibitor pyrrole-2-carboxylate. To be Published

Release Date

2013-03-13

Peptides

Proline racemase family protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Proline racemase family protein

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