- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.70 Å
- Oligo State
- monomer
- Ligands
- 18 x ACT: ACETATE ION(Non-functional Binders)
- 13 x GOL: GLYCEROL(Non-functional Binders)
GOL.3: 8 residues within 4Å:- Chain A: W.10, P.11, R.205, G.219, N.220, G.222, L.223
- Ligands: GOL.10
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:N.220, A:G.222, A:G.222
- Water bridges: A:N.220
GOL.6: 7 residues within 4Å:- Chain A: R.89, L.92, R.95, I.107, V.108, D.109, V.110
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:R.95, A:D.109, A:V.110
- Water bridges: A:R.89
GOL.8: 4 residues within 4Å:- Chain A: K.330, D.331, I.332, R.365
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:D.331, A:D.331, A:I.332, A:R.365
GOL.9: 3 residues within 4Å:- Chain A: R.180, K.188, K.192
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:R.180, A:R.180, A:K.188, A:K.192
GOL.10: 8 residues within 4Å:- Chain A: N.220, I.246, E.247, R.396, M.472, T.490
- Ligands: GOL.3, L4D.31
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:N.220, A:N.220, A:E.247, A:R.396
- Water bridges: A:E.247
GOL.12: 7 residues within 4Å:- Chain A: N.220, E.221, G.222, D.350, L.352, S.353, R.396
10 PLIP interactions:10 interactions with chain A- Hydrogen bonds: A:N.220, A:E.221, A:G.222, A:S.353, A:R.396
- Water bridges: A:N.220, A:G.222, A:D.350, A:D.350, A:S.353
GOL.14: 8 residues within 4Å:- Chain A: V.273, N.274, K.275, K.276, D.291, S.308, Q.309, Y.310
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:K.275, A:K.275, A:K.276, A:Y.310
- Water bridges: A:V.273, A:Q.309
GOL.19: 4 residues within 4Å:- Chain A: P.296, N.302, L.303, G.304
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:N.302, A:L.303, A:G.304
- Water bridges: A:A.301, A:L.305, A:L.305
GOL.22: 8 residues within 4Å:- Chain A: S.31, M.32, K.39, A.486, E.491, I.492, P.493, E.495
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:S.31, A:K.39, A:E.491
- Water bridges: A:F.28, A:R.140, A:I.492
GOL.26: 4 residues within 4Å:- Chain A: R.89, P.144, F.147, H.150
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:R.89, A:H.150
- Water bridges: A:S.145, A:F.147
GOL.32: 3 residues within 4Å:- Chain A: F.419, Q.423, P.429
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:Q.423
GOL.33: 3 residues within 4Å:- Chain A: D.227, T.228, R.231
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:T.228
- Water bridges: A:D.227, A:D.227
GOL.34: 2 residues within 4Å:- Chain A: R.386, D.387
1 PLIP interactions:1 interactions with chain A- Water bridges: A:R.386
- 2 x SO4: SULFATE ION(Non-functional Binders)
SO4.4: 4 residues within 4Å:- Chain A: A.440, T.441, H.442, D.443
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:T.441, A:H.442, A:D.443
- Water bridges: A:D.443, A:D.443
SO4.5: 4 residues within 4Å:- Chain A: F.147, K.148, N.149, K.157
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:N.149
- Water bridges: A:F.147, A:H.150, A:K.157
- Salt bridges: A:K.157
- 1 x L4D: {(S)-N-(2-{methyl[(pyridin-2-yl-kappaN)methyl]amino-kappaN}ethyl)-N-[(pyridin-2-yl-kappaN)methyl]glycinato-kappa~2~N,O}iron(2+)(Non-covalent)
L4D.31: 12 residues within 4Å:- Chain A: Y.22, T.23, M.27, R.97, W.100, R.137, W.398, Y.402, H.416, T.490
- Ligands: GOL.10, ACT.24
12 PLIP interactions:10 interactions with chain A, 2 Ligand-Water interactions,- Hydrophobic interactions: A:Y.22, A:T.23, A:T.490
- Salt bridges: A:R.137
- pi-Cation interactions: A:W.100, A:W.100, A:W.100, A:R.137, A:W.398, A:W.398
- Metal complexes: H2O.26, H2O.26
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Esmieu, C. et al., An artificial oxygenase built from scratch: substrate binding site identified using a docking approach. Angew.Chem.Int.Ed.Engl. (2013)
- Release Date
- 2013-04-17
- Peptides
- Nickel-binding periplasmic protein: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.70 Å
- Oligo State
- monomer
- Ligands
- 18 x ACT: ACETATE ION(Non-functional Binders)
- 13 x GOL: GLYCEROL(Non-functional Binders)
- 2 x SO4: SULFATE ION(Non-functional Binders)
- 1 x L4D: {(S)-N-(2-{methyl[(pyridin-2-yl-kappaN)methyl]amino-kappaN}ethyl)-N-[(pyridin-2-yl-kappaN)methyl]glycinato-kappa~2~N,O}iron(2+)(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Esmieu, C. et al., An artificial oxygenase built from scratch: substrate binding site identified using a docking approach. Angew.Chem.Int.Ed.Engl. (2013)
- Release Date
- 2013-04-17
- Peptides
- Nickel-binding periplasmic protein: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A