SMTL ID : 1gvf.1

Structure of tagatose-1,6-bisphosphate aldolase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-tetramer

Ligands

4 x PGH: PHOSPHOGLYCOLOHYDROXAMIC ACID(Non-covalent)

PGH.1: 16 residues within 4Å: Chain A: N.24, D.82, H.83, A.179, H.180, G.181, H.208, G.209, A.210, S.211, N.230, V.231, A.232, T.233 Ligands: ZN.2, NA.3 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:N.24, A:A.179, A:G.181, A:G.209, A:S.211, A:S.211, A:N.230, A:A.232, A:T.233 Water bridges: A:N.24, A:N.24, A:V.231 PGH.10: 16 residues within 4Å: Chain B: N.24, D.82, H.83, A.179, H.180, G.181, H.208, G.209, A.210, S.211, N.230, V.231, A.232, T.233 Ligands: ZN.11, NA.12 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:G.181, B:G.209, B:G.209, B:A.210, B:S.211, B:N.230, B:A.232, B:T.233, B:T.233 Water bridges: B:D.82, B:D.82, B:V.231 PGH.21: 16 residues within 4Å: Chain C: N.24, D.82, H.83, A.179, H.180, G.181, H.208, G.209, A.210, S.211, N.230, V.231, A.232, T.233 Ligands: ZN.22, NA.23 12 PLIP interactions: 12 interactions with chain C Hydrogen bonds: C:N.24, C:A.179, C:G.181, C:G.209, C:S.211, C:S.211, C:N.230, C:A.232, C:T.233 Water bridges: C:N.24, C:N.24, C:V.231 PGH.30: 16 residues within 4Å: Chain D: N.24, D.82, H.83, A.179, H.180, G.181, H.208, G.209, A.210, S.211, N.230, V.231, A.232, T.233 Ligands: ZN.31, NA.32 12 PLIP interactions: 12 interactions with chain D Hydrogen bonds: D:G.181, D:G.209, D:G.209, D:A.210, D:S.211, D:N.230, D:A.232, D:T.233, D:T.233 Water bridges: D:D.82, D:D.82, D:V.231

4 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: H.83, H.180, H.208 Ligands: PGH.1 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.83, A:H.180, A:H.208 ZN.11: 4 residues within 4Å: Chain B: H.83, H.180, H.208 Ligands: PGH.10 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.83, B:H.180, B:H.208 ZN.22: 4 residues within 4Å: Chain C: H.83, H.180, H.208 Ligands: PGH.21 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:H.83, C:H.180, C:H.208 ZN.31: 4 residues within 4Å: Chain D: H.83, H.180, H.208 Ligands: PGH.30 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:H.83, D:H.180, D:H.208

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

NA.3: 7 residues within 4Å: Chain A: A.179, H.180, G.181, Y.183, G.209, S.211 Ligands: PGH.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.179 NA.12: 7 residues within 4Å: Chain B: A.179, H.180, G.181, Y.183, G.209, S.211 Ligands: PGH.10 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.181, B:Y.183 NA.23: 7 residues within 4Å: Chain C: A.179, H.180, G.181, Y.183, G.209, S.211 Ligands: PGH.21 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:G.181 NA.32: 7 residues within 4Å: Chain D: A.179, H.180, G.181, Y.183, G.209, S.211 Ligands: PGH.30 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:Y.183, D:Y.183

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

EDO.4: 7 residues within 4Å: Chain A: S.2, S.70, T.71, M.75 Chain B: H.95 Ligands: EDO.16, EDO.17 Ligand excluded by PLIP EDO.5: 7 residues within 4Å: Chain A: L.9, P.44, V.45, M.75, P.76, L.77, A.78 Ligand excluded by PLIP EDO.6: 4 residues within 4Å: Chain A: D.190, Q.192, R.193, E.196 Ligand excluded by PLIP EDO.7: 4 residues within 4Å: Chain A: Q.32, E.36, Y.73, R.261 Ligand excluded by PLIP EDO.8: 4 residues within 4Å: Chain A: Y.63, H.95, A.96, G.97 Ligand excluded by PLIP EDO.9: 6 residues within 4Å: Chain A: L.9, D.12, Y.18, P.44, R.283, I.284 Ligand excluded by PLIP EDO.13: 5 residues within 4Å: Chain B: P.44, V.45, P.76, L.77, A.78 Ligand excluded by PLIP EDO.14: 6 residues within 4Å: Chain B: S.2, S.70, T.71, N.74, M.75, P.76 Ligand excluded by PLIP EDO.15: 4 residues within 4Å: Chain B: Y.63, H.95, A.96, G.97 Ligand excluded by PLIP EDO.16: 7 residues within 4Å: Chain A: N.74, P.76 Chain B: H.95, F.123, Q.127 Ligands: EDO.4, EDO.17 Ligand excluded by PLIP EDO.17: 4 residues within 4Å: Chain A: N.74 Chain B: H.95 Ligands: EDO.4, EDO.16 Ligand excluded by PLIP EDO.18: 5 residues within 4Å: Chain B: S.106, F.108, P.109, R.137, A.152 Ligand excluded by PLIP EDO.19: 3 residues within 4Å: Chain B: V.114, K.115, K.118 Ligand excluded by PLIP EDO.20: 2 residues within 4Å: Chain B: D.122, F.123 Ligand excluded by PLIP EDO.24: 7 residues within 4Å: Chain C: S.2, S.70, T.71, M.75 Chain D: H.95 Ligands: EDO.36, EDO.37 Ligand excluded by PLIP EDO.25: 7 residues within 4Å: Chain C: L.9, P.44, V.45, M.75, P.76, L.77, A.78 Ligand excluded by PLIP EDO.26: 4 residues within 4Å: Chain C: D.190, Q.192, R.193, E.196 Ligand excluded by PLIP EDO.27: 4 residues within 4Å: Chain C: Q.32, E.36, Y.73, R.261 Ligand excluded by PLIP EDO.28: 4 residues within 4Å: Chain C: Y.63, H.95, A.96, G.97 Ligand excluded by PLIP EDO.29: 6 residues within 4Å: Chain C: L.9, D.12, Y.18, P.44, R.283, I.284 Ligand excluded by PLIP EDO.33: 5 residues within 4Å: Chain D: P.44, V.45, P.76, L.77, A.78 Ligand excluded by PLIP EDO.34: 6 residues within 4Å: Chain D: S.2, S.70, T.71, N.74, M.75, P.76 Ligand excluded by PLIP EDO.35: 4 residues within 4Å: Chain D: Y.63, H.95, A.96, G.97 Ligand excluded by PLIP EDO.36: 7 residues within 4Å: Chain C: N.74, P.76 Chain D: H.95, F.123, Q.127 Ligands: EDO.24, EDO.37 Ligand excluded by PLIP EDO.37: 4 residues within 4Å: Chain C: N.74 Chain D: H.95 Ligands: EDO.24, EDO.36 Ligand excluded by PLIP EDO.38: 5 residues within 4Å: Chain D: S.106, F.108, P.109, R.137, A.152 Ligand excluded by PLIP EDO.39: 3 residues within 4Å: Chain D: V.114, K.115, K.118 Ligand excluded by PLIP EDO.40: 2 residues within 4Å: Chain D: D.122, F.123 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hall, D.R. et al., Structure of Tagatose-1,6-Bisphosphate Aldolase; Insight Into Chiral Discrimination, Mechanism and Specificity of Class II Aldolases. J.Biol.Chem. (2002)

Release Date

2002-06-18

Peptides

TAGATOSE-BISPHOSPHATE ALDOLASE AGAY: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

TAGATOSE-BISPHOSPHATE ALDOLASE AGAY