- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.93 Å
- Oligo State
- monomer
- Ligands
- 14 x PE5: 3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL(Non-covalent)
- 22 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.4: 5 residues within 4Å:- Chain A: P.158, H.171, N.172, A.174
- Ligands: EDO.17
Ligand excluded by PLIPEDO.5: 0 residues within 4Å:- (No contacts)
Ligand excluded by PLIPEDO.7: 5 residues within 4Å:- Chain A: D.17, P.18, L.19, R.249, R.263
Ligand excluded by PLIPEDO.9: 4 residues within 4Å:- Chain A: K.142, L.143, D.144
- Ligands: EDO.26
Ligand excluded by PLIPEDO.10: 3 residues within 4Å:- Chain A: D.283, D.284, R.303
Ligand excluded by PLIPEDO.11: 4 residues within 4Å:- Chain A: N.291, F.339, E.503, E.504
Ligand excluded by PLIPEDO.12: 7 residues within 4Å:- Chain A: D.418, Y.439, R.472, T.491, I.492, G.495, K.497
Ligand excluded by PLIPEDO.13: 5 residues within 4Å:- Chain A: T.178, Q.180, D.181
- Ligands: EDO.17, EDO.29
Ligand excluded by PLIPEDO.15: 3 residues within 4Å:- Chain A: I.177, L.233, R.234
Ligand excluded by PLIPEDO.16: 7 residues within 4Å:- Chain A: E.65, M.66, K.68, L.71, S.74, V.75, H.76
Ligand excluded by PLIPEDO.17: 6 residues within 4Å:- Chain A: S.173, A.174, D.181
- Ligands: EDO.4, EDO.13, EDO.29
Ligand excluded by PLIPEDO.18: 6 residues within 4Å:- Chain A: K.336, S.342, E.394, E.429, P.431
- Ligands: EDO.35
Ligand excluded by PLIPEDO.19: 6 residues within 4Å:- Chain A: Y.161, V.162, H.382, G.413, R.506, S.509
Ligand excluded by PLIPEDO.25: 2 residues within 4Å:- Chain A: I.433, Q.434
Ligand excluded by PLIPEDO.26: 9 residues within 4Å:- Chain A: K.103, T.104, K.105, L.143, D.144, A.201, F.202, P.203
- Ligands: EDO.9
Ligand excluded by PLIPEDO.27: 4 residues within 4Å:- Chain A: L.71, L.253, P.254
- Ligands: EDO.28
Ligand excluded by PLIPEDO.28: 5 residues within 4Å:- Chain A: Q.240, P.254, N.255, G.256
- Ligands: EDO.27
Ligand excluded by PLIPEDO.29: 7 residues within 4Å:- Chain A: N.172, S.173, Q.180, D.181, N.184
- Ligands: EDO.13, EDO.17
Ligand excluded by PLIPEDO.30: 2 residues within 4Å:- Chain A: K.486, S.489
Ligand excluded by PLIPEDO.31: 3 residues within 4Å:- Chain A: S.191, D.192, A.193
Ligand excluded by PLIPEDO.33: 6 residues within 4Å:- Chain A: H.264, T.266, S.272, N.317, S.320, S.321
Ligand excluded by PLIPEDO.35: 8 residues within 4Å:- Chain A: K.336, H.390, F.393, E.394, T.396, P.431, H.432
- Ligands: EDO.18
Ligand excluded by PLIP- 3 x NA: SODIUM ION(Non-functional Binders)
NA.34: 2 residues within 4Å:- Chain A: D.284, Q.285
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:D.284
NA.38: 3 residues within 4Å:- Chain A: E.175, E.214, Q.517
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.517, A:Q.517
NA.43: 2 residues within 4Å:- Chain A: N.300, N.302
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:N.300, A:N.300, A:N.302
- 1 x FE: FE (III) ION(Non-covalent)
- 2 x CA: CALCIUM ION(Non-covalent)
CA.40: 6 residues within 4Å:- Chain A: D.151, D.209, D.210, D.380
- Ligands: FE.39, PO4.42
5 PLIP interactions:5 interactions with chain A- Metal complexes: A:D.151, A:D.151, A:D.209, A:D.210, A:D.380
CA.41: 5 residues within 4Å:- Chain A: D.210, H.211, N.215, N.216
- Ligands: PO4.42
3 PLIP interactions:1 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:D.210, H2O.9, H2O.12
- 1 x PO4: PHOSPHATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Rodriguez, F. et al., Crystal Structure of the Bacillus Subtilis Phosphodiesterase Phod Reveals an Iron and Calcium-Containing Active Site. J.Biol.Chem. (2014)
- Release Date
- 2012-04-18
- Peptides
- ALKALINE PHOSPHATASE D: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.93 Å
- Oligo State
- monomer
- Ligands
- 14 x PE5: 3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL(Non-covalent)
- 22 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 3 x NA: SODIUM ION(Non-functional Binders)
- 1 x FE: FE (III) ION(Non-covalent)
- 2 x CA: CALCIUM ION(Non-covalent)
- 1 x PO4: PHOSPHATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Rodriguez, F. et al., Crystal Structure of the Bacillus Subtilis Phosphodiesterase Phod Reveals an Iron and Calcium-Containing Active Site. J.Biol.Chem. (2014)
- Release Date
- 2012-04-18
- Peptides
- ALKALINE PHOSPHATASE D: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A