SMTL ID : 2poc.1

The crystal structure of isomerase domain of glucosamine-6-phosphate synthase from Candida albicans

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

4 x BG6: 6-O-phosphono-beta-D-glucopyranose(Non-covalent)

BG6.1: 9 residues within 4Å: Chain A: C.58, G.59, T.60, S.61, S.105, Q.106, S.107, T.110, E.246 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:T.60, A:T.60, A:S.61, A:Q.106, A:S.107, A:T.110, A:E.246 Water bridges: A:T.60, A:S.61, A:Q.106, A:S.107, A:S.107, A:S.107, A:S.113, A:S.158 BG6.4: 9 residues within 4Å: Chain B: C.58, G.59, T.60, S.61, S.105, Q.106, S.107, T.110, E.246 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:T.60, B:T.60, B:T.60, B:S.61, B:S.61, B:Q.106, B:S.107, B:T.110, B:T.110, B:T.110, B:E.246 Water bridges: B:Q.106, B:S.113 BG6.8: 9 residues within 4Å: Chain C: C.58, G.59, T.60, S.61, S.105, Q.106, S.107, T.110, E.246 14 PLIP interactions: 14 interactions with chain C Hydrogen bonds: C:T.60, C:T.60, C:S.61, C:Q.106, C:S.107, C:T.110, C:T.110, C:E.246, C:E.246 Water bridges: C:T.60, C:S.61, C:S.61, C:Q.106, C:S.113 BG6.12: 9 residues within 4Å: Chain D: C.58, G.59, T.60, S.61, S.105, Q.106, S.107, T.110, E.246 14 PLIP interactions: 14 interactions with chain D Hydrogen bonds: D:T.60, D:T.60, D:T.60, D:S.61, D:S.61, D:S.61, D:Q.106, D:S.107, D:T.110, D:E.246 Water bridges: D:C.58, D:Q.106, D:S.113, D:S.158

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

NA.2: 4 residues within 4Å: Chain A: S.139, R.140, T.142 Ligands: UD1.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.139 NA.6: 4 residues within 4Å: Chain B: S.139, R.140, T.142 Ligands: UD1.7 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.142 NA.10: 4 residues within 4Å: Chain C: S.139, R.140, T.142 Ligands: UD1.11 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.139, C:T.142 NA.13: 4 residues within 4Å: Chain D: S.139, R.140, T.142 Ligands: UD1.14 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:S.139, D:T.142

4 x UD1: URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE(Non-covalent)

UD1.3: 14 residues within 4Å: Chain A: R.27, G.38, G.39, G.129, V.131, V.134, S.139, T.142, H.143, C.144, G.145, V.146, H.147 Ligands: NA.2 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:V.134 Hydrogen bonds: A:G.38, A:G.39, A:T.142, A:T.142, A:G.145, A:G.145, A:H.147 Water bridges: A:R.27, A:R.27, A:R.27, A:G.38, A:W.43, A:H.147, A:H.147 Salt bridges: A:R.27, A:R.27, A:H.147 UD1.7: 14 residues within 4Å: Chain B: R.27, G.38, G.39, G.129, V.131, V.134, S.139, T.142, H.143, C.144, G.145, V.146, H.147 Ligands: NA.6 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:V.134 Hydrogen bonds: B:G.38, B:G.39, B:T.142, B:T.142, B:G.145, B:G.145, B:H.147 Water bridges: B:R.27, B:R.27, B:R.27, B:W.43 Salt bridges: B:R.27, B:R.27, B:H.147 UD1.11: 13 residues within 4Å: Chain C: R.27, G.38, G.39, G.129, V.131, S.139, T.142, H.143, C.144, G.145, V.146, H.147 Ligands: NA.10 14 PLIP interactions: 14 interactions with chain C Hydrogen bonds: C:R.27, C:G.39, C:T.142, C:T.142, C:G.145, C:G.145, C:H.147, C:H.147 Water bridges: C:G.38, C:G.38, C:W.43, C:N.149 Salt bridges: C:R.27, C:H.147 UD1.14: 14 residues within 4Å: Chain D: R.27, G.38, G.39, G.129, V.131, V.134, S.139, T.142, H.143, C.144, G.145, V.146, H.147 Ligands: NA.13 15 PLIP interactions: 15 interactions with chain D Hydrophobic interactions: D:V.134 Hydrogen bonds: D:G.39, D:T.142, D:T.142, D:G.145, D:G.145, D:H.147 Water bridges: D:R.27, D:R.27, D:G.38, D:G.38, D:N.149 Salt bridges: D:R.27, D:R.27, D:H.147

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

ACT.5: 5 residues within 4Å: Chain A: K.245 Chain B: V.255, L.260, G.263, I.264 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:V.255, B:L.260 Hydrogen bonds: B:I.264 Salt bridges: A:K.245 ACT.9: 5 residues within 4Å: Chain C: V.255, L.260, G.263, I.264 Chain D: K.245 6 PLIP interactions: 5 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:L.260 Hydrogen bonds: C:I.264 Water bridges: C:L.260, C:G.263, C:L.265 Salt bridges: D:K.245

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Raczynska, J. et al., The Crystal and Solution Studies of Glucosamine-6-phosphate Synthase from Candida albicans. J.Mol.Biol. (2007)

Release Date

2007-09-11

Peptides

isomerase domain of glutamine-fructose-6-phosphate transaminase (isomerizing): ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

isomerase domain of glutamine-fructose-6-phosphate transaminase (isomerizing)

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