- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.70 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x ZN: ZINC ION(Non-covalent)
- 8 x K: POTASSIUM ION(Non-covalent)
K.2: 6 residues within 4Å:- Chain A: D.180, D.182, H.184, G.186, S.203, L.204
5 PLIP interactions:5 interactions with chain A- Metal complexes: A:D.180, A:D.182, A:H.184, A:S.203, A:L.204
K.3: 5 residues within 4Å:- Chain A: W.193, D.196, V.199, T.201, Y.228
5 PLIP interactions:3 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:D.196, A:V.199, A:Y.228, H2O.13, H2O.13
K.9: 7 residues within 4Å:- Chain B: D.180, D.182, H.184, G.186, S.203, L.204, H.205
5 PLIP interactions:5 interactions with chain B- Metal complexes: B:D.180, B:D.182, B:H.184, B:S.203, B:L.204
K.10: 5 residues within 4Å:- Chain B: W.193, D.196, V.199, T.201, Y.228
5 PLIP interactions:3 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:D.196, B:V.199, B:Y.228, H2O.29, H2O.29
K.16: 6 residues within 4Å:- Chain C: D.180, D.182, H.184, G.186, S.203, L.204
5 PLIP interactions:5 interactions with chain C- Metal complexes: C:D.180, C:D.182, C:H.184, C:S.203, C:L.204
K.17: 5 residues within 4Å:- Chain C: W.193, D.196, V.199, T.201, Y.228
5 PLIP interactions:3 interactions with chain C, 2 Ligand-Water interactions- Metal complexes: C:D.196, C:V.199, C:Y.228, H2O.48, H2O.48
K.23: 7 residues within 4Å:- Chain D: D.180, D.182, H.184, G.186, S.203, L.204, H.205
5 PLIP interactions:5 interactions with chain D- Metal complexes: D:D.180, D:D.182, D:H.184, D:S.203, D:L.204
K.24: 5 residues within 4Å:- Chain D: W.193, D.196, V.199, T.201, Y.228
5 PLIP interactions:3 interactions with chain D, 2 Ligand-Water interactions- Metal complexes: D:D.196, D:V.199, D:Y.228, H2O.64, H2O.65
- 4 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)
1PE.4: 5 residues within 4Å:- Chain A: E.174, R.175, P.197, N.224, Y.228
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:E.174, A:R.175
- Water bridges: A:R.175
1PE.11: 5 residues within 4Å:- Chain B: E.174, R.175, P.197, N.224, Y.228
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:N.224
- Water bridges: B:Y.228
1PE.18: 5 residues within 4Å:- Chain C: E.174, R.175, P.197, N.224, Y.228
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:E.174, C:R.175
- Water bridges: C:R.175
1PE.25: 5 residues within 4Å:- Chain D: E.174, R.175, P.197, N.224, Y.228
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:N.224
- Water bridges: D:Y.228
- 12 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.5: 1 residues within 4Å:- Chain A: R.357
No protein-ligand interaction detected (PLIP)PEG.6: 2 residues within 4Å:- Chain A: P.63, A.65
No protein-ligand interaction detected (PLIP)PEG.7: 2 residues within 4Å:- Chain A: D.285, H.341
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:H.341
PEG.12: 1 residues within 4Å:- Chain B: R.357
No protein-ligand interaction detected (PLIP)PEG.13: 6 residues within 4Å:- Chain B: Q.190, D.191, W.194, D.213, S.214, E.219
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:D.213
- Water bridges: B:D.191, B:D.191
PEG.14: 2 residues within 4Å:- Chain B: T.129, E.131
No protein-ligand interaction detected (PLIP)PEG.19: 1 residues within 4Å:- Chain C: R.357
No protein-ligand interaction detected (PLIP)PEG.20: 2 residues within 4Å:- Chain C: P.63, A.65
No protein-ligand interaction detected (PLIP)PEG.21: 2 residues within 4Å:- Chain C: D.285, H.341
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:H.341
PEG.26: 1 residues within 4Å:- Chain D: R.357
No protein-ligand interaction detected (PLIP)PEG.27: 6 residues within 4Å:- Chain D: Q.190, D.191, W.194, D.213, S.214, E.219
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:D.213
- Water bridges: D:D.191, D:D.191
PEG.28: 2 residues within 4Å:- Chain D: T.129, E.131
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Meyners, C. et al., The thermodynamic signature of ligand binding to histone deacetylase-like amidohydrolases is most sensitive to the flexibility in the L2-loop lining the active site pocket. Biochim. Biophys. Acta (2017)
- Release Date
- 2017-04-12
- Peptides
- HISTONE DEACETYLASE-LIKE AMIDOHYDROLASE: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.70 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x ZN: ZINC ION(Non-covalent)
- 8 x K: POTASSIUM ION(Non-covalent)
- 4 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)
- 12 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Meyners, C. et al., The thermodynamic signature of ligand binding to histone deacetylase-like amidohydrolases is most sensitive to the flexibility in the L2-loop lining the active site pocket. Biochim. Biophys. Acta (2017)
- Release Date
- 2017-04-12
- Peptides
- HISTONE DEACETYLASE-LIKE AMIDOHYDROLASE: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B