SMTL ID : 1u60.3 (3 other biounits)

MCSG APC5046 Probable glutaminase ybaS

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.61 Å

Oligo State

homo-tetramer

Ligands

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

EDO.1: 1 residues within 4Å: Chain A: K.294 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.294 EDO.2: 5 residues within 4Å: Chain A: K.88, G.179, Y.180, Y.182 Ligands: EDO.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.88, A:K.88 EDO.3: 3 residues within 4Å: Chain A: D.87, K.88 Ligands: EDO.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.88 EDO.4: 4 residues within 4Å: Chain A: F.98, V.262, G.287 Ligands: FMT.7 No protein-ligand interaction detected (PLIP) EDO.5: 5 residues within 4Å: Chain A: D.59, R.61, N.201, I.203, E.204 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.59, A:R.61, A:N.201, A:E.204 Water bridges: A:S.58 EDO.6: 3 residues within 4Å: Chain A: P.37, Q.39, L.40 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.39 EDO.9: 3 residues within 4Å: Chain B: N.128, Q.134, R.138 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.134 EDO.10: 6 residues within 4Å: Chain B: E.65, E.161, N.168, Y.192, T.193, C.196 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.117, B:T.193 Water bridges: B:Y.29, B:E.65, B:N.117 EDO.15: 3 residues within 4Å: Chain C: R.224, L.226, Q.227 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:Q.227 Water bridges: C:V.225, C:Q.227, C:A.228 EDO.18: 6 residues within 4Å: Chain D: E.65, E.161, N.168, Y.192, T.193, C.196 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:N.117, D:T.193 Water bridges: D:Y.29, D:E.65 EDO.19: 4 residues within 4Å: Chain D: F.98, V.262, G.287 Ligands: FMT.21 No protein-ligand interaction detected (PLIP) EDO.20: 3 residues within 4Å: Chain D: Q.25, N.26, D.28 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:D.28

9 x FMT: FORMIC ACID(Non-functional Binders)

FMT.7: 4 residues within 4Å: Chain A: Q.25, N.26, D.284 Ligands: EDO.4 No protein-ligand interaction detected (PLIP) FMT.8: 2 residues within 4Å: Chain A: F.32, L.199 No protein-ligand interaction detected (PLIP) FMT.11: 3 residues within 4Å: Chain B: A.178, G.179 Ligands: FMT.12 No protein-ligand interaction detected (PLIP) FMT.12: 4 residues within 4Å: Chain B: G.179, Y.180, Y.182 Ligands: FMT.11 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.179 Water bridges: B:K.88 FMT.13: 5 residues within 4Å: Chain B: N.99, S.100, V.101, I.102 Chain C: E.105 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.99, B:V.101, B:I.102 FMT.14: 5 residues within 4Å: Chain B: N.22, G.23, G.24, P.282, R.291 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.22, B:G.23 Water bridges: B:G.38, B:R.291 FMT.16: 2 residues within 4Å: Chain C: N.51, V.52 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:V.52 Water bridges: C:Y.53 FMT.17: 4 residues within 4Å: Chain C: N.22, G.23, G.24, R.291 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:N.22, C:G.23, C:G.24, C:R.291 FMT.21: 4 residues within 4Å: Chain D: S.66, Y.244, V.262 Ligands: EDO.19 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:S.66, D:S.66, D:Y.244 Water bridges: D:V.262

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brown, G. et al., Functional and structural characterization of four glutaminases from Escherichia coli and Bacillus subtilis. Biochemistry (2008)

Release Date

2004-09-07

Peptides

Probable glutaminase ybaS: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Probable glutaminase ybaS

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