- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.20 Å
- Oligo State
- homo-dimer
- Ligands
- 10 x GOL: GLYCEROL(Non-functional Binders)
- 6 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)
MES.6: 12 residues within 4Å:- Chain A: S.112, Y.215, D.314, G.316, F.317, W.331, I.343, G.344, I.345, Y.370, H.375
- Ligands: GOL.5
7 PLIP interactions:7 interactions with chain A- Hydrogen bonds: A:S.112, A:Y.215, A:I.345
- Water bridges: A:S.112, A:I.343, A:Q.348
- Salt bridges: A:D.314
MES.7: 7 residues within 4Å:- Chain A: Y.13, P.30, R.33, W.34, H.38
- Chain B: R.99, G.101
3 PLIP interactions:1 interactions with chain A, 2 interactions with chain B- Salt bridges: A:H.38, B:R.99
- Water bridges: B:R.99
MES.8: 6 residues within 4Å:- Chain A: Q.69, L.70, P.71, D.72, R.76, D.384
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:D.72
- Water bridges: A:R.76
- Salt bridges: A:R.76, A:D.384
MES.20: 12 residues within 4Å:- Chain B: S.112, Y.215, D.314, G.316, F.317, W.331, I.343, G.344, I.345, Y.370, H.375
- Ligands: GOL.19
8 PLIP interactions:8 interactions with chain B- Hydrogen bonds: B:S.112, B:Y.215, B:Y.215, B:I.345
- Water bridges: B:S.112, B:I.343, B:Q.348
- Salt bridges: B:D.314
MES.21: 7 residues within 4Å:- Chain A: R.99, G.101
- Chain B: Y.13, P.30, R.33, W.34, H.38
3 PLIP interactions:2 interactions with chain A, 1 interactions with chain B- Water bridges: A:R.99
- Salt bridges: A:R.99, B:H.38
MES.22: 6 residues within 4Å:- Chain B: Q.69, L.70, P.71, D.72, R.76, D.384
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:D.72, B:D.72
- Water bridges: B:R.76, B:D.384
- Salt bridges: B:R.76, B:D.384
- 6 x SO4: SULFATE ION(Non-functional Binders)
SO4.9: 1 residues within 4Å:- Chain A: R.205
3 PLIP interactions:3 interactions with chain A- Water bridges: A:R.205, A:R.205
- Salt bridges: A:R.205
SO4.10: 5 residues within 4Å:- Chain A: R.107, R.251, D.252
- Chain B: R.251
- Ligands: SO4.24
9 PLIP interactions:4 interactions with chain A, 5 interactions with chain B- Hydrogen bonds: A:D.252, A:D.252
- Salt bridges: A:R.107, A:R.251, B:R.251
- Water bridges: B:R.107, B:R.107, B:R.251, B:R.251
SO4.11: 1 residues within 4Å:- Chain A: R.293
2 PLIP interactions:2 interactions with chain A- Water bridges: A:R.293
- Salt bridges: A:R.293
SO4.23: 1 residues within 4Å:- Chain B: R.205
3 PLIP interactions:3 interactions with chain B- Water bridges: B:R.205, B:R.205
- Salt bridges: B:R.205
SO4.24: 5 residues within 4Å:- Chain A: R.251
- Chain B: R.107, R.251, D.252
- Ligands: SO4.10
9 PLIP interactions:4 interactions with chain B, 5 interactions with chain A- Hydrogen bonds: B:D.252, B:D.252
- Salt bridges: B:R.107, B:R.251, A:R.251
- Water bridges: A:R.107, A:R.107, A:R.251, A:R.251
SO4.25: 1 residues within 4Å:- Chain B: R.293
2 PLIP interactions:2 interactions with chain B- Water bridges: B:R.293
- Salt bridges: B:R.293
- 6 x NA: SODIUM ION(Non-functional Binders)
NA.12: 5 residues within 4Å:- Chain A: G.123, D.127, V.295, S.296, W.299
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:D.127, A:S.296, A:S.296
- Water bridges: A:S.296
NA.13: 3 residues within 4Å:- Chain A: Q.178, D.181
- Chain B: Q.27
4 PLIP interactions:1 interactions with chain B, 3 interactions with chain A- Hydrogen bonds: B:Q.27, A:Q.178, A:D.181, A:D.181
NA.14: 5 residues within 4Å:- Chain A: D.285, G.286, V.288, R.293, E.297
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.293, A:E.297
NA.26: 5 residues within 4Å:- Chain B: G.123, D.127, V.295, S.296, W.299
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:G.123, B:D.127, B:S.296
- Water bridges: B:S.296
NA.27: 3 residues within 4Å:- Chain A: Q.27
- Chain B: Q.178, D.181
5 PLIP interactions:3 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:Q.27
- Water bridges: A:D.24, A:Q.27, B:Q.178, B:D.181
NA.28: 5 residues within 4Å:- Chain B: D.285, G.286, V.288, R.293, E.297
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:D.285, B:R.293
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Negoro, S. et al., Structural, kinetic and theoretical analyses of hydrolase mutants altering in the directionality and equilibrium point of reversible amide-synthetic/hydrolytic reaction. To be Published
- Release Date
- 2013-10-16
- Peptides
- 6-aminohexanoate-dimer hydrolase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
XB
X
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.20 Å
- Oligo State
- homo-dimer
- Ligands
- 10 x GOL: GLYCEROL(Non-functional Binders)
- 6 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)
- 6 x SO4: SULFATE ION(Non-functional Binders)
- 6 x NA: SODIUM ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Negoro, S. et al., Structural, kinetic and theoretical analyses of hydrolase mutants altering in the directionality and equilibrium point of reversible amide-synthetic/hydrolytic reaction. To be Published
- Release Date
- 2013-10-16
- Peptides
- 6-aminohexanoate-dimer hydrolase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
XB
X