- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.30 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x GOL: GLYCEROL(Non-functional Binders)
- 7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.2: 4 residues within 4Å:- Chain A: I.465, N.466, D.467
- Chain C: H.36
1 PLIP interactions:1 interactions with chain C- Water bridges: C:E.76
EDO.3: 3 residues within 4Å:- Chain A: R.542
- Chain D: P.31, E.32
4 PLIP interactions:2 interactions with chain A, 2 interactions with chain D- Hydrogen bonds: A:R.542, D:E.32
- Water bridges: A:Y.538, D:A.30
EDO.6: 4 residues within 4Å:- Chain B: K.73, G.74, Y.78
- Chain D: H.441
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:K.73, B:Y.78
- Water bridges: B:K.73
EDO.7: 3 residues within 4Å:- Chain B: R.542
- Chain C: P.31, E.32
4 PLIP interactions:2 interactions with chain B, 2 interactions with chain C- Hydrogen bonds: B:R.542, C:E.32
- Water bridges: B:E.541, C:A.30
EDO.10: 3 residues within 4Å:- Chain B: P.31, E.32
- Chain C: R.542
3 PLIP interactions:1 interactions with chain C, 2 interactions with chain B- Hydrogen bonds: C:R.542, B:E.32
- Water bridges: B:A.30
EDO.12: 3 residues within 4Å:- Chain A: P.31, E.32
- Chain D: R.542
3 PLIP interactions:2 interactions with chain D, 1 interactions with chain A- Hydrogen bonds: D:R.542, A:E.32
- Water bridges: D:Y.538
EDO.14: 4 residues within 4Å:- Chain B: H.441
- Chain D: K.73, G.74, Y.78
2 PLIP interactions:1 interactions with chain B, 1 interactions with chain D- Hydrogen bonds: B:H.441, D:G.74
- 4 x HDD: CIS-HEME D HYDROXYCHLORIN GAMMA-SPIROLACTONE(Non-covalent)
HDD.4: 24 residues within 4Å:- Chain A: R.125, I.126, V.127, H.128, R.165, G.184, F.185, V.199, G.200, N.201, F.206, F.214, I.274, H.275, F.391, L.407, G.410, R.411, S.414, Y.415, T.418, Q.419, R.422
- Chain D: D.118
25 PLIP interactions:24 interactions with chain A, 1 Ligand-Water interactions- Hydrophobic interactions: A:R.125, A:H.128, A:V.199, A:N.201, A:F.206, A:F.214, A:F.214, A:F.214, A:F.214, A:L.407, A:L.407, A:R.411, A:Y.415, A:Y.415
- Hydrogen bonds: A:Q.419
- Water bridges: A:R.165
- Salt bridges: A:R.125, A:R.165, A:R.422
- pi-Stacking: A:H.128, A:F.206, A:F.214
- pi-Cation interactions: A:R.411
- Metal complexes: A:Y.415, H2O.21
HDD.8: 24 residues within 4Å:- Chain B: R.125, I.126, V.127, H.128, R.165, G.184, F.185, V.199, G.200, N.201, F.206, F.214, I.274, H.275, F.391, L.407, G.410, R.411, S.414, Y.415, T.418, Q.419, R.422
- Chain C: D.118
24 PLIP interactions:23 interactions with chain B, 1 Ligand-Water interactions- Hydrophobic interactions: B:R.125, B:H.128, B:V.199, B:N.201, B:F.206, B:F.214, B:F.214, B:F.214, B:F.214, B:L.407, B:L.407, B:R.411, B:Y.415, B:Y.415
- Hydrogen bonds: B:Q.419
- Water bridges: B:R.165
- Salt bridges: B:R.125, B:R.165, B:R.422
- pi-Stacking: B:H.128, B:F.214
- pi-Cation interactions: B:R.411
- Metal complexes: B:Y.415, H2O.54
HDD.11: 24 residues within 4Å:- Chain B: D.118
- Chain C: R.125, I.126, V.127, H.128, R.165, G.184, F.185, V.199, G.200, N.201, F.206, F.214, I.274, H.275, F.391, L.407, G.410, R.411, S.414, Y.415, T.418, Q.419, R.422
25 PLIP interactions:24 interactions with chain C, 1 Ligand-Water interactions- Hydrophobic interactions: C:R.125, C:H.128, C:V.199, C:N.201, C:F.206, C:F.214, C:F.214, C:F.214, C:F.214, C:L.407, C:L.407, C:R.411, C:Y.415, C:Y.415
- Hydrogen bonds: C:Q.419
- Water bridges: C:R.165
- Salt bridges: C:R.125, C:R.165, C:R.422
- pi-Stacking: C:H.128, C:F.206, C:F.214
- pi-Cation interactions: C:R.411
- Metal complexes: C:Y.415, H2O.80
HDD.15: 24 residues within 4Å:- Chain A: D.118
- Chain D: R.125, I.126, V.127, H.128, R.165, G.184, F.185, V.199, G.200, N.201, F.206, F.214, I.274, H.275, F.391, L.407, G.410, R.411, S.414, Y.415, T.418, Q.419, R.422
26 PLIP interactions:25 interactions with chain D, 1 Ligand-Water interactions- Hydrophobic interactions: D:R.125, D:H.128, D:V.199, D:N.201, D:F.206, D:F.206, D:F.214, D:F.214, D:F.214, D:F.214, D:L.407, D:L.407, D:R.411, D:Y.415, D:Y.415
- Hydrogen bonds: D:Q.419
- Water bridges: D:R.165
- Salt bridges: D:R.125, D:R.165, D:R.422
- pi-Stacking: D:H.128, D:F.206, D:F.214
- pi-Cation interactions: D:R.411
- Metal complexes: D:Y.415, H2O.115
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Grzechowiak, M. et al., Serendipitous crystallization of E. coli HPII catalase, a sequel to "the tale usually not told". Acta Biochim.Pol. (2021)
- Release Date
- 2020-10-07
- Peptides
- Catalase HPII: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.30 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x GOL: GLYCEROL(Non-functional Binders)
- 7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 4 x HDD: CIS-HEME D HYDROXYCHLORIN GAMMA-SPIROLACTONE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Grzechowiak, M. et al., Serendipitous crystallization of E. coli HPII catalase, a sequel to "the tale usually not told". Acta Biochim.Pol. (2021)
- Release Date
- 2020-10-07
- Peptides
- Catalase HPII: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D