SMTL ID : 1rhy.1 (1 other biounit)

Crystal structure of Imidazole Glycerol Phosphate Dehydratase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-trimer

Ligands

3 x HG: MERCURY (II) ION(Non-covalent)

HG.1: 2 residues within 4Å: Chain A: T.38, C.62 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:C.62, A:C.62 HG.8: 2 residues within 4Å: Chain B: T.38, C.62 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:C.62, B:C.62 HG.15: 2 residues within 4Å: Chain C: T.38, C.62 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:C.62, C:C.62

6 x EMC: ETHYL MERCURY ION(Non-covalent)

EMC.2: 4 residues within 4Å: Chain A: F.122, M.123, C.124, Q.146 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:C.124 EMC.3: 4 residues within 4Å: Chain A: T.38, C.62, A.74, C.77 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:C.77 EMC.9: 4 residues within 4Å: Chain B: F.122, M.123, C.124, Q.146 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:C.124 EMC.10: 4 residues within 4Å: Chain B: T.38, C.62, A.74, C.77 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:C.77 EMC.16: 4 residues within 4Å: Chain C: F.122, M.123, C.124, Q.146 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:C.124 EMC.17: 4 residues within 4Å: Chain C: T.38, C.62, A.74, C.77 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:C.77

9 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 5 residues within 4Å: Chain A: R.97, Y.98 Chain C: K.52, H.53, K.175 9 PLIP interactions: 5 interactions with chain A, 4 interactions with chain C Water bridges: A:R.97, A:R.97, A:R.97, A:R.97, C:K.175 Salt bridges: A:R.97, C:K.52, C:H.53, C:K.175 SO4.5: 4 residues within 4Å: Chain A: R.130, N.165, N.166, H.167 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.166, A:N.166, A:H.167 Salt bridges: A:R.130, A:H.167 SO4.6: 4 residues within 4Å: Chain A: N.35, V.36, S.37, Q.61 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.35, A:Q.61 SO4.11: 5 residues within 4Å: Chain A: K.52, H.53, K.175 Chain B: R.97, Y.98 9 PLIP interactions: 5 interactions with chain B, 4 interactions with chain A Water bridges: B:R.97, B:R.97, B:R.97, B:R.97, A:K.175 Salt bridges: B:R.97, A:K.52, A:H.53, A:K.175 SO4.12: 4 residues within 4Å: Chain B: R.130, N.165, N.166, H.167 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.166, B:N.166, B:H.167 Salt bridges: B:R.130, B:H.167 SO4.13: 4 residues within 4Å: Chain B: N.35, V.36, S.37, Q.61 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.35, B:Q.61 Water bridges: B:D.44 SO4.18: 5 residues within 4Å: Chain B: K.52, H.53, K.175 Chain C: R.97, Y.98 9 PLIP interactions: 4 interactions with chain B, 5 interactions with chain C Water bridges: B:K.175, C:R.97, C:R.97, C:R.97, C:R.97 Salt bridges: B:K.52, B:H.53, B:K.175, C:R.97 SO4.19: 4 residues within 4Å: Chain C: R.130, N.165, N.166, H.167 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:N.166, C:N.166, C:H.167 Salt bridges: C:R.130, C:H.167 SO4.20: 4 residues within 4Å: Chain C: N.35, V.36, S.37, Q.61 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:N.35, C:Q.61 Water bridges: C:D.44

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 2 residues within 4Å: Chain A: T.11, T.12 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.11 GOL.14: 2 residues within 4Å: Chain B: T.11, T.12 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.11 GOL.21: 2 residues within 4Å: Chain C: T.11, T.12 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:T.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sinha, S.C. et al., Crystal structure of imidazole glycerol-phosphate dehydratase: duplication of an unusual fold. J.Biol.Chem. (2004)

Release Date

2004-05-04

Peptides

Imidazole glycerol phosphate dehydratase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Imidazole glycerol phosphate dehydratase

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