SMTL ID : 2v9m.1 (1 other biounit)

L-RHAMNULOSE-1-PHOSPHATE ALDOLASE FROM ESCHERICHIA COLI (MUTANT A87M- T109F-E192A)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

homo-tetramer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain A: H.141, H.143, H.212 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.141, A:H.143, A:H.212, H2O.10, H2O.16 ZN.3: 2 residues within 4Å: Chain A: D.157 Ligands: CIT.4 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.157, A:D.157 ZN.9: 3 residues within 4Å: Chain B: H.141, H.143, H.212 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.141, B:H.143, B:H.212, H2O.26, H2O.32 ZN.11: 2 residues within 4Å: Chain B: D.157 Ligands: CIT.12 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.157, B:D.157 ZN.17: 3 residues within 4Å: Chain C: H.141, H.143, H.212 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:H.141, C:H.143, C:H.212, H2O.42, H2O.48 ZN.19: 2 residues within 4Å: Chain C: D.157 Ligands: CIT.20 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:D.157, C:D.157 ZN.25: 3 residues within 4Å: Chain D: H.141, H.143, H.212 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:H.141, D:H.143, D:H.212, H2O.58, H2O.64 ZN.27: 2 residues within 4Å: Chain D: D.157 Ligands: CIT.28 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:D.157, D:D.157

4 x CA: CALCIUM ION(Non-covalent)

CA.2: 3 residues within 4Å: Chain A: E.200, H.204 Ligands: CIT.4 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.200, A:H.204, H2O.13, H2O.16, H2O.16 CA.10: 3 residues within 4Å: Chain B: E.200, H.204 Ligands: CIT.12 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:E.200, B:H.204, H2O.29, H2O.32, H2O.32 CA.18: 3 residues within 4Å: Chain C: E.200, H.204 Ligands: CIT.20 5 PLIP interactions: 2 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:E.200, C:H.204, H2O.45, H2O.48, H2O.48 CA.26: 3 residues within 4Å: Chain D: E.200, H.204 Ligands: CIT.28 5 PLIP interactions: 2 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:E.200, D:H.204, H2O.61, H2O.64, H2O.65

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

CIT.4: 8 residues within 4Å: Chain A: D.157, T.158, A.159, H.204, L.268, S.270 Ligands: CA.2, ZN.3 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:T.158, A:L.268 Hydrogen bonds: A:T.158, A:A.159, A:S.270, A:S.270 Water bridges: A:T.158, A:S.270 Salt bridges: A:H.204 CIT.12: 8 residues within 4Å: Chain B: D.157, T.158, A.159, H.204, L.268, S.270 Ligands: CA.10, ZN.11 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:T.158, B:L.268 Hydrogen bonds: B:T.158, B:A.159, B:S.270, B:S.270 Water bridges: B:T.158, B:S.270 Salt bridges: B:H.204 CIT.20: 8 residues within 4Å: Chain C: D.157, T.158, A.159, H.204, L.268, S.270 Ligands: CA.18, ZN.19 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:T.158, C:L.268 Hydrogen bonds: C:T.158, C:A.159, C:S.270, C:S.270 Water bridges: C:T.158, C:S.270 Salt bridges: C:H.204 CIT.28: 8 residues within 4Å: Chain D: D.157, T.158, A.159, H.204, L.268, S.270 Ligands: CA.26, ZN.27 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:T.158, D:L.268 Hydrogen bonds: D:T.158, D:A.159, D:S.270, D:S.270 Water bridges: D:T.158, D:S.270 Salt bridges: D:H.204

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

EDO.5: 5 residues within 4Å: Chain A: D.222 Chain B: G.76, K.77, F.78, N.81 Ligand excluded by PLIP EDO.6: 5 residues within 4Å: Chain A: K.23, W.25, N.146, E.232, Q.236 Ligand excluded by PLIP EDO.7: 2 residues within 4Å: Chain A: D.96, S.97 Ligand excluded by PLIP EDO.8: 9 residues within 4Å: Chain A: Y.242, S.243, G.245 Chain C: S.243, M.244, G.245 Ligands: EDO.16, EDO.24, EDO.32 Ligand excluded by PLIP EDO.13: 5 residues within 4Å: Chain B: D.222 Chain D: G.76, K.77, F.78, N.81 Ligand excluded by PLIP EDO.14: 5 residues within 4Å: Chain B: K.23, W.25, N.146, E.232, Q.236 Ligand excluded by PLIP EDO.15: 2 residues within 4Å: Chain B: D.96, S.97 Ligand excluded by PLIP EDO.16: 9 residues within 4Å: Chain A: S.243, M.244, G.245 Chain B: Y.242, S.243, G.245 Ligands: EDO.8, EDO.24, EDO.32 Ligand excluded by PLIP EDO.21: 5 residues within 4Å: Chain A: G.76, K.77, F.78, N.81 Chain C: D.222 Ligand excluded by PLIP EDO.22: 5 residues within 4Å: Chain C: K.23, W.25, N.146, E.232, Q.236 Ligand excluded by PLIP EDO.23: 2 residues within 4Å: Chain C: D.96, S.97 Ligand excluded by PLIP EDO.24: 9 residues within 4Å: Chain C: Y.242, S.243, G.245 Chain D: S.243, M.244, G.245 Ligands: EDO.8, EDO.16, EDO.32 Ligand excluded by PLIP EDO.29: 5 residues within 4Å: Chain C: G.76, K.77, F.78, N.81 Chain D: D.222 Ligand excluded by PLIP EDO.30: 5 residues within 4Å: Chain D: K.23, W.25, N.146, E.232, Q.236 Ligand excluded by PLIP EDO.31: 2 residues within 4Å: Chain D: D.96, S.97 Ligand excluded by PLIP EDO.32: 9 residues within 4Å: Chain B: S.243, M.244, G.245 Chain D: Y.242, S.243, G.245 Ligands: EDO.8, EDO.16, EDO.24 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Grueninger, D. et al., Designed Protein-Protein Association. Science (2008)

Release Date

2008-01-15

Peptides

RHAMNULOSE-1-PHOSPHATE ALDOLASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

RHAMNULOSE-1-PHOSPHATE ALDOLASE

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