- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.55 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NA: SODIUM ION(Non-functional Binders)
- 2 x SO4: SULFATE ION(Non-functional Binders)
SO4.2: 5 residues within 4Å:- Chain A: P.173, Q.178, R.182, S.187, R.190
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:Q.178, A:S.187, A:S.187
- Salt bridges: A:R.182, A:R.190
SO4.11: 5 residues within 4Å:- Chain B: P.173, Q.178, R.182, S.187, R.190
6 PLIP interactions:1 interactions with chain A, 5 interactions with chain B- Water bridges: A:D.24
- Hydrogen bonds: B:Q.178, B:S.187, B:S.187
- Salt bridges: B:R.182, B:R.190
- 2 x ACA: 6-AMINOHEXANOIC ACID(Non-covalent)
ACA.3: 11 residues within 4Å:- Chain A: M.111, A.112, K.115, D.181, W.186, Y.215, S.217, N.266, G.344, I.345
- Ligands: GOL.6
8 PLIP interactions:8 interactions with chain A- Hydrophobic interactions: A:A.112, A:W.186, A:I.345
- Hydrogen bonds: A:A.112, A:D.181, A:I.345
- Water bridges: A:H.180
- Salt bridges: A:K.115
ACA.12: 11 residues within 4Å:- Chain B: M.111, A.112, K.115, D.181, W.186, Y.215, S.217, N.266, G.344, I.345
- Ligands: GOL.15
8 PLIP interactions:8 interactions with chain B- Hydrophobic interactions: B:A.112, B:W.186, B:I.345
- Hydrogen bonds: B:A.112, B:D.181, B:Y.215, B:I.345
- Salt bridges: B:K.115
- 8 x GOL: GLYCEROL(Non-functional Binders)
GOL.4: 7 residues within 4Å:- Chain A: D.159, Q.161, G.306, G.307, S.308, T.327, R.328
8 PLIP interactions:8 interactions with chain A- Hydrogen bonds: A:D.159, A:Q.161, A:S.308, A:S.308, A:T.327, A:R.328, A:R.328
- Water bridges: A:R.302
GOL.5: 6 residues within 4Å:- Chain A: R.107, D.250, R.251, D.252
- Chain B: R.251
- Ligands: GOL.14
9 PLIP interactions:6 interactions with chain A, 3 interactions with chain B- Hydrogen bonds: A:R.107, A:R.107, A:R.251, A:D.252, A:D.252, B:R.251
- Water bridges: A:D.252, B:R.50, B:R.107
GOL.6: 9 residues within 4Å:- Chain A: A.112, Y.215, W.331, I.343, G.344, I.345, H.375
- Ligands: ACA.3, GOL.7
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:I.343
- Water bridges: A:Y.215
GOL.7: 8 residues within 4Å:- Chain A: D.314, G.316, F.317, W.331, I.343, Y.370, H.375
- Ligands: GOL.6
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:G.316, A:Y.370
- Water bridges: A:H.375, A:N.379
GOL.13: 7 residues within 4Å:- Chain B: D.159, Q.161, G.306, G.307, S.308, T.327, R.328
8 PLIP interactions:8 interactions with chain B- Hydrogen bonds: B:D.159, B:Q.161, B:S.308, B:S.308, B:T.327, B:R.328, B:R.328
- Water bridges: B:R.302
GOL.14: 6 residues within 4Å:- Chain A: R.251
- Chain B: R.107, D.250, R.251, D.252
- Ligands: GOL.5
8 PLIP interactions:3 interactions with chain A, 5 interactions with chain B- Hydrogen bonds: A:R.251, B:R.107, B:R.107, B:R.251, B:D.252, B:D.252
- Water bridges: A:R.50, A:R.107
GOL.15: 9 residues within 4Å:- Chain B: A.112, Y.215, W.331, I.343, G.344, I.345, H.375
- Ligands: ACA.12, GOL.16
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:Y.215, B:I.343
GOL.16: 8 residues within 4Å:- Chain B: D.314, G.316, F.317, W.331, I.343, Y.370, H.375
- Ligands: GOL.15
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:G.316
- Water bridges: B:H.375, B:N.379
- 4 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)
MES.8: 7 residues within 4Å:- Chain A: Y.13, P.30, R.33, W.34, H.38
- Chain B: R.99, G.101
5 PLIP interactions:3 interactions with chain B, 2 interactions with chain A- Water bridges: B:R.99, B:R.99, A:W.34
- Salt bridges: B:R.99, A:H.38
MES.9: 6 residues within 4Å:- Chain A: Q.69, L.70, P.71, D.72, R.76, D.384
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:D.72
- Salt bridges: A:R.76, A:D.384
MES.17: 7 residues within 4Å:- Chain A: R.99, G.101
- Chain B: Y.13, P.30, R.33, W.34, H.38
5 PLIP interactions:3 interactions with chain A, 2 interactions with chain B- Water bridges: A:R.99, A:R.99, B:W.34
- Salt bridges: A:R.99, B:H.38
MES.18: 6 residues within 4Å:- Chain B: Q.69, L.70, P.71, D.72, R.76, D.384
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:D.72, B:D.72
- Water bridges: B:D.384
- Salt bridges: B:R.76, B:D.384
- 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
AB
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.55 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NA: SODIUM ION(Non-functional Binders)
- 2 x SO4: SULFATE ION(Non-functional Binders)
- 2 x ACA: 6-AMINOHEXANOIC ACID(Non-covalent)
- 8 x GOL: GLYCEROL(Non-functional Binders)
- 4 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)
- 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
AB
A