SMTL ID : 1ss4.2 (1 other biounit)

Crystal Structure of the Glyoxalase Family Protein APC24694 from Bacillus cereus

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.84 Å

Oligo State

homo-tetramer

Ligands

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

ACT.1: 6 residues within 4Å: Chain A: W.46, A.47, V.50, T.51, Q.56, I.60 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Water bridges: B:Y.135 Hydrophobic interactions: A:W.46, A:V.50 Hydrogen bonds: A:Q.56 ACT.10: 6 residues within 4Å: Chain C: W.46, A.47, V.50, T.51, Q.56, I.60 4 PLIP interactions: 1 interactions with chain D, 3 interactions with chain C Water bridges: D:Y.135 Hydrophobic interactions: C:W.46, C:V.50 Hydrogen bonds: C:Q.56

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

NA.2: 3 residues within 4Å: Chain A: D.85 Chain C: D.85 Ligands: NA.11 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:D.85 Water bridges: A:D.85, C:D.85 NA.11: 3 residues within 4Å: Chain A: D.85 Chain C: D.85 Ligands: NA.2 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:D.85 Water bridges: A:D.85, C:D.85

2 x CIT: CITRIC ACID(Non-functional Binders)

CIT.3: 4 residues within 4Å: Chain A: Y.131 Chain B: N.14, M.62 Ligands: FMT.9 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Y.131, B:N.14 Water bridges: A:R.98 CIT.12: 4 residues within 4Å: Chain C: Y.131 Chain D: N.14, M.62 Ligands: FMT.18 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:N.14 Water bridges: C:R.98

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

FMT.4: 3 residues within 4Å: Chain A: V.91, V.121, R.137 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.137 Water bridges: A:V.91 FMT.7: 6 residues within 4Å: Chain A: H.86, A.89, A.93 Chain B: A.84, D.85, H.86 1 PLIP interactions: 1 interactions with chain C Water bridges: C:D.85 FMT.8: 2 residues within 4Å: Chain B: V.121, R.137 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.137 Water bridges: B:V.91 FMT.9: 2 residues within 4Å: Ligands: CIT.3, GSH.6 No protein-ligand interaction detected (PLIP) FMT.13: 3 residues within 4Å: Chain C: V.91, V.121, R.137 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:R.137 Water bridges: C:V.91 FMT.16: 6 residues within 4Å: Chain C: H.86, A.89, A.93 Chain D: A.84, D.85, H.86 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain D Water bridges: A:D.85 Hydrogen bonds: D:H.86 FMT.17: 2 residues within 4Å: Chain D: V.121, R.137 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:R.137 Water bridges: D:V.91 FMT.18: 2 residues within 4Å: Ligands: CIT.12, GSH.15 No protein-ligand interaction detected (PLIP)

2 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 2 residues within 4Å: Chain B: R.132, E.148 No protein-ligand interaction detected (PLIP) MG.14: 2 residues within 4Å: Chain D: R.132, E.148 No protein-ligand interaction detected (PLIP)

2 x GSH: GLUTATHIONE(Non-covalent)

GSH.6: 6 residues within 4Å: Chain A: Y.127 Chain B: R.39, A.40, N.41, E.59 Ligands: FMT.9 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:Y.127, B:N.41, B:E.59 Water bridges: B:R.39 GSH.15: 6 residues within 4Å: Chain C: Y.127 Chain D: R.39, A.40, N.41, E.59 Ligands: FMT.18 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:N.41, C:Y.127 Water bridges: D:R.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, Y. et al., Crystal Structure of the Glyoxalase Family Protein APC24694 from Bacillus cereus. To be Published

Release Date

2004-08-03

Peptides

Glyoxalase family protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Glyoxalase family protein

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