SMTL ID : 4k7x.1

Crystal structure of a 4-hydroxyproline epimerase from burkholderia multivorans, target efi-506479, with bound phosphate, closed domains

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

10 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 10 residues within 4Å: Chain A: C.111, G.112, H.113, G.114, D.255, S.257, C.259, G.260, T.261, F.292 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:G.112, A:H.113, A:S.257, A:G.260, A:T.261, A:T.261, A:T.261 Salt bridges: A:H.113 PO4.2: 4 residues within 4Å: Chain A: R.120, H.123, H.124, L.150 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:R.120, A:H.123, A:H.124 PO4.3: 1 residues within 4Å: Chain A: G.289 1 PLIP interactions: 1 interactions with chain A Water bridges: A:E.240 PO4.4: 3 residues within 4Å: Chain A: A.96, I.128, H.133 3 PLIP interactions: 3 interactions with chain A Water bridges: A:A.95, A:A.96 Salt bridges: A:H.133 PO4.5: 4 residues within 4Å: Chain A: H.241, R.283, V.291, H.293 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.241 Water bridges: A:R.283, A:H.293 Salt bridges: A:H.293 PO4.9: 10 residues within 4Å: Chain B: C.111, G.112, H.113, G.114, D.255, S.257, C.259, G.260, T.261, F.292 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:G.112, B:H.113, B:S.257, B:G.260, B:T.261, B:T.261, B:T.261 Salt bridges: B:H.113 PO4.10: 4 residues within 4Å: Chain B: R.120, H.123, H.124, L.150 3 PLIP interactions: 3 interactions with chain B Salt bridges: B:R.120, B:H.123, B:H.124 PO4.11: 1 residues within 4Å: Chain B: G.289 1 PLIP interactions: 1 interactions with chain B Water bridges: B:E.240 PO4.12: 3 residues within 4Å: Chain B: A.96, I.128, H.133 3 PLIP interactions: 3 interactions with chain B Water bridges: B:A.95, B:A.96 Salt bridges: B:H.133 PO4.13: 4 residues within 4Å: Chain B: H.241, R.283, V.291, H.293 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:H.241 Water bridges: B:R.283, B:H.293 Salt bridges: B:H.293

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

CL.6: 6 residues within 4Å: Chain A: M.24, K.25, I.321, E.322, D.323, R.328 Ligand excluded by PLIP CL.14: 6 residues within 4Å: Chain B: M.24, K.25, I.321, E.322, D.323, R.328 Ligand excluded by PLIP

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 10 residues within 4Å: Chain A: R.161, G.178, D.179, L.189, I.190, S.191, F.235, K.266, C.269, K.275 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.191, A:S.191, A:K.266 Water bridges: A:S.191, A:S.191, A:K.266, A:K.275 GOL.15: 10 residues within 4Å: Chain B: R.161, G.178, D.179, L.189, I.190, S.191, F.235, K.266, C.269, K.275 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:S.191, B:S.191, B:K.266 Water bridges: B:S.191, B:S.191, B:K.266, B:K.275

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

NA.8: 4 residues within 4Å: Chain A: D.238, P.239, H.241, D.242 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.241, A:H.241 Water bridges: A:D.238 NA.16: 4 residues within 4Å: Chain B: D.238, P.239, H.241, D.242 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:H.241 Water bridges: B:D.238, B:D.238, B:E.240, B:H.241

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vetting, M.W. et al., Crystal structure of a 4-hydroxyproline epimerase from burkholderia multivorans, target efi-506479, with bound phosphate, closed domains. To be Published

Release Date

2013-05-01

Peptides

Proline racemase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Proline racemase