- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.10 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x FE: FE (III) ION(Non-covalent)
- 2 x AKR: ACRYLIC ACID(Non-covalent)
AKR.3: 11 residues within 4Å:- Chain A: T.265, L.267, D.295, D.297, D.307, D.377
- Chain B: M.92, W.95
- Ligands: FE.1, FE.2, GOL.8
4 PLIP interactions:1 interactions with chain B, 3 interactions with chain A- Hydrophobic interactions: B:W.95, A:T.265
- Hydrogen bonds: A:D.377
- Water bridges: A:D.295
AKR.4: 10 residues within 4Å:- Chain A: M.92, W.95
- Chain B: L.267, D.295, D.297, D.307, D.377
- Ligands: FE.6, FE.7, GOL.9
1 PLIP interactions:1 interactions with chain A- Hydrophobic interactions: A:W.95
- 4 x GOL: GLYCEROL(Non-functional Binders)
GOL.5: 6 residues within 4Å:- Chain A: D.143, R.144
- Chain B: A.383, K.387, V.389, Y.393
5 PLIP interactions:3 interactions with chain B, 2 interactions with chain A- Water bridges: B:V.389, B:V.389, B:S.392
- Hydrogen bonds: A:R.144, A:R.144
GOL.8: 11 residues within 4Å:- Chain A: C.368, H.371, D.377, L.381, E.406
- Chain B: W.95, Y.117, F.142, D.143
- Ligands: FE.1, AKR.3
3 PLIP interactions:1 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:E.406, B:D.143
- Water bridges: B:Y.117
GOL.9: 10 residues within 4Å:- Chain A: W.95, Y.117, F.142, D.143
- Chain B: C.368, H.371, D.377, L.381, E.406
- Ligands: AKR.4
5 PLIP interactions:2 interactions with chain A, 3 interactions with chain B- Hydrogen bonds: A:Y.117, A:D.143, B:D.377, B:D.377, B:E.406
GOL.10: 7 residues within 4Å:- Chain A: L.381, A.383, K.387, V.389, Y.393
- Chain B: D.143, R.144
4 PLIP interactions:2 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:Y.393, B:R.144
- Water bridges: A:V.389, B:R.144
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Wang, P. et al., Structural and molecular basis for the novel catalytic mechanism and evolution of DddP, an abundant peptidase-like bacterial Dimethylsulfoniopropionate lyase: a new enzyme from an old fold. Mol.Microbiol. (2015)
- Release Date
- 2015-08-05
- Peptides
- Peptidase M24: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
BB
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.10 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x FE: FE (III) ION(Non-covalent)
- 2 x AKR: ACRYLIC ACID(Non-covalent)
- 4 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Wang, P. et al., Structural and molecular basis for the novel catalytic mechanism and evolution of DddP, an abundant peptidase-like bacterial Dimethylsulfoniopropionate lyase: a new enzyme from an old fold. Mol.Microbiol. (2015)
- Release Date
- 2015-08-05
- Peptides
- Peptidase M24: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
BB
D