SMTL ID : 4ohc.4 (3 other biounits)

Crystal structure of orotate phosphoribosyltransferase (OPRTase) from Burkholderia cenocepacia

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-hexamer

Ligands

7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 6 residues within 4Å: Chain A: N.121, I.124, G.126, H.127, L.128 Chain D: K.55 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.121, A:G.126, A:L.128 EDO.2: 5 residues within 4Å: Chain A: E.81, I.83, D.84, R.133 Chain E: R.61 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain E Hydrogen bonds: A:E.81, A:E.81, A:R.133, E:R.61 EDO.5: 5 residues within 4Å: Chain B: E.81, I.83, D.84, R.133 Chain D: R.61 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:E.81, B:E.81, B:R.133, D:R.61 EDO.8: 5 residues within 4Å: Chain B: R.61 Chain C: E.81, I.83, D.84, R.133 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:E.81, C:D.84, B:R.61 Water bridges: C:D.84, C:R.133 EDO.10: 5 residues within 4Å: Chain C: R.61 Chain D: E.81, I.83, D.84, R.133 4 PLIP interactions: 1 interactions with chain C, 3 interactions with chain D Hydrogen bonds: C:R.61, D:E.81, D:E.81, D:R.133 EDO.13: 5 residues within 4Å: Chain E: E.81, I.83, D.84, R.133 Chain F: R.61 5 PLIP interactions: 4 interactions with chain E, 1 interactions with chain F Hydrogen bonds: E:E.81, E:E.81, F:R.61 Water bridges: E:D.84, E:R.133 EDO.16: 5 residues within 4Å: Chain A: R.61 Chain F: E.81, I.83, D.84, R.133 4 PLIP interactions: 3 interactions with chain F, 1 interactions with chain A Hydrogen bonds: F:E.81, F:D.84, F:R.133, A:R.61

6 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 4 residues within 4Å: Chain A: E.71, R.103 Chain E: R.64, E.68 3 PLIP interactions: 2 interactions with chain E, 1 interactions with chain A Hydrogen bonds: E:E.68 Salt bridges: E:R.64, A:R.103 ACT.4: 4 residues within 4Å: Chain A: R.64, E.68 Chain F: E.71, R.103 2 PLIP interactions: 1 interactions with chain F, 1 interactions with chain A Salt bridges: F:R.103, A:R.64 ACT.6: 4 residues within 4Å: Chain B: E.71, R.103 Chain D: R.64, E.68 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D Salt bridges: B:R.103, D:R.64 ACT.9: 4 residues within 4Å: Chain B: R.64, E.68 Chain C: E.71, R.103 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Salt bridges: B:R.64, C:R.103 ACT.11: 4 residues within 4Å: Chain C: R.64, E.68 Chain D: E.71, R.103 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:R.103 Salt bridges: D:R.103, C:R.64 ACT.14: 4 residues within 4Å: Chain E: E.71, R.103 Chain F: R.64, E.68 2 PLIP interactions: 1 interactions with chain F, 1 interactions with chain E Salt bridges: F:R.64, E:R.103

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

NA.7: 3 residues within 4Å: Chain B: N.121, I.124, E.125 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:I.124, B:E.125 NA.12: 3 residues within 4Å: Chain D: N.121, I.124, E.125 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:I.124, D:E.125 Water bridges: D:N.121 NA.15: 3 residues within 4Å: Chain E: N.121, I.124, E.125 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:I.124, E:E.125 NA.17: 3 residues within 4Å: Chain F: N.121, I.124, E.125 2 PLIP interactions: 2 interactions with chain F Hydrogen bonds: F:I.124, F:I.124

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lukacs, C.M. et al., Crystal structure of orotate phosphoribosyltransferase (OPRTase) from Burkholderia cenocepacia. To be Published

Release Date

2014-02-05

Peptides

Orotate phosphoribosyltransferase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Orotate phosphoribosyltransferase

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