- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.20 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)
- 8 x ACT: ACETATE ION(Non-functional Binders)
ACT.2: 7 residues within 4Å:- Chain A: V.143, A.144, D.155, V.156, F.181, I.192, V.195
7 PLIP interactions:7 interactions with chain A- Hydrophobic interactions: A:V.143, A:F.181, A:I.192, A:V.195
- Hydrogen bonds: A:V.156
- Water bridges: A:D.155, A:D.155
ACT.3: 8 residues within 4Å:- Chain A: N.176, N.234, P.237, H.242, M.243, K.273, A.274, I.558
7 PLIP interactions:7 interactions with chain A- Hydrophobic interactions: A:P.237, A:I.558
- Hydrogen bonds: A:N.176
- Water bridges: A:N.234, A:N.234, A:N.234, A:D.244
ACT.10: 7 residues within 4Å:- Chain B: V.143, A.144, D.155, V.156, F.181, I.192, V.195
7 PLIP interactions:7 interactions with chain B- Hydrophobic interactions: B:V.143, B:F.181, B:I.192, B:V.195
- Hydrogen bonds: B:V.156
- Water bridges: B:D.155, B:D.155
ACT.11: 8 residues within 4Å:- Chain B: N.176, N.234, P.237, H.242, M.243, K.273, A.274, I.558
6 PLIP interactions:6 interactions with chain B- Hydrophobic interactions: B:P.237, B:I.558
- Hydrogen bonds: B:N.176, B:D.244
- Water bridges: B:N.234, B:N.234
ACT.20: 7 residues within 4Å:- Chain C: V.143, A.144, D.155, V.156, F.181, I.192, V.195
5 PLIP interactions:5 interactions with chain C- Hydrophobic interactions: C:V.143, C:F.181, C:I.192, C:V.195
- Hydrogen bonds: C:V.156
ACT.21: 8 residues within 4Å:- Chain C: N.176, N.234, P.237, H.242, M.243, K.273, A.274, I.558
7 PLIP interactions:7 interactions with chain C- Hydrophobic interactions: C:P.237, C:I.558
- Hydrogen bonds: C:N.176
- Water bridges: C:N.234, C:N.234, C:D.244, C:D.244
ACT.31: 6 residues within 4Å:- Chain D: V.143, A.144, D.155, V.156, F.181, V.195
4 PLIP interactions:4 interactions with chain D- Hydrophobic interactions: D:V.143, D:F.181, D:V.195
- Hydrogen bonds: D:V.156
ACT.32: 8 residues within 4Å:- Chain D: N.176, N.234, P.237, H.242, M.243, K.273, A.274, I.558
8 PLIP interactions:8 interactions with chain D- Hydrophobic interactions: D:P.237, D:I.558
- Hydrogen bonds: D:N.176, D:N.234, D:D.244
- Water bridges: D:N.234, D:N.234, D:N.234
- 3 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
PGE.4: 6 residues within 4Å:- Chain A: T.600, D.611, Q.612, A.616, D.618, A.621
7 PLIP interactions:7 interactions with chain A- Hydrogen bonds: A:D.618
- Water bridges: A:N.288, A:K.598, A:Q.612, A:A.616, A:A.617, A:T.620
PGE.13: 3 residues within 4Å:- Chain B: T.600, Q.612, A.621
2 PLIP interactions:2 interactions with chain B- Water bridges: B:N.288, B:Q.612
PGE.33: 7 residues within 4Å:- Chain A: F.635, S.651, Q.652, T.655, R.659
- Chain D: Q.652, R.659
5 PLIP interactions:4 interactions with chain D, 1 interactions with chain A- Hydrogen bonds: D:R.659, D:R.659, A:R.659
- Water bridges: D:S.651, D:S.651
- 6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.5: 3 residues within 4Å:- Chain A: D.477, T.546, Y.547
No protein-ligand interaction detected (PLIP)PEG.6: 3 residues within 4Å:- Chain A: Y.438, L.439, K.441
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:K.441
- Water bridges: A:K.441
PEG.14: 7 residues within 4Å:- Chain B: T.655, Y.658, R.659, I.677, G.678, V.679
- Ligands: 1PE.12
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:R.659
PEG.23: 2 residues within 4Å:- Chain C: Y.323, G.324
No protein-ligand interaction detected (PLIP)PEG.24: 3 residues within 4Å:- Chain C: T.600, D.611, Q.612
No protein-ligand interaction detected (PLIP)PEG.25: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)- 9 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.7: 4 residues within 4Å:- Chain A: F.338, L.484, N.551, V.552
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:E.337, A:N.551, A:V.552
EDO.15: 2 residues within 4Å:- Chain B: Y.438, K.441
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:K.441
EDO.16: 3 residues within 4Å:- Chain B: F.338, L.484, N.551
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:N.551, B:V.552
EDO.26: 3 residues within 4Å:- Chain C: R.409, V.414, W.426
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:R.409, C:V.414, C:V.414
- Water bridges: C:P.410, C:G.413
EDO.27: 4 residues within 4Å:- Chain C: S.198, D.200, N.201
- Chain D: I.431
2 PLIP interactions:1 interactions with chain B, 1 interactions with chain C- Water bridges: B:Q.294
- Hydrogen bonds: C:N.201
EDO.28: 3 residues within 4Å:- Chain C: D.477, T.546, Y.547
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:D.477
- Water bridges: C:Y.547
EDO.34: 3 residues within 4Å:- Chain D: Y.658, R.659, I.677
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:R.659, D:I.677
EDO.35: 3 residues within 4Å:- Chain D: Y.438, L.439, K.441
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:K.441
EDO.36: 4 residues within 4Å:- Chain D: Q.321, F.325, D.326, T.474
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:F.325
- 6 x EOH: ETHANOL(Non-functional Binders)
EOH.8: 2 residues within 4Å:- Chain A: E.317, G.460
No protein-ligand interaction detected (PLIP)EOH.17: 3 residues within 4Å:- Chain B: R.252, E.317, G.460
No protein-ligand interaction detected (PLIP)EOH.18: 2 residues within 4Å:- Chain B: L.708, E.709
2 PLIP interactions:2 interactions with chain B- Hydrophobic interactions: B:E.709
- Water bridges: B:L.708
EOH.38: 3 residues within 4Å:- Chain B: E.45
- Chain D: R.409, W.426
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:R.409
EOH.39: 4 residues within 4Å:- Chain D: T.480, H.549, N.551
- Ligands: EOH.40
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:H.549, D:N.551
EOH.40: 4 residues within 4Å:- Chain D: E.337, F.338, V.552
- Ligands: EOH.39
2 PLIP interactions:2 interactions with chain D- Hydrophobic interactions: D:F.338
- Hydrogen bonds: D:V.552
- 1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)
- 1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- 2 x O: OXYGEN ATOM(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Zarate-Romero, A. et al., X-ray driven reduction of Cpd I of Catalase-3 from N. crassa reveals differential sensitivity of active sites and formation of ferrous state. Arch.Biochem.Biophys. (2019)
- Release Date
- 2019-05-01
- Peptides
- Catalase-3: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.20 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)
- 8 x ACT: ACETATE ION(Non-functional Binders)
- 3 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 9 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 6 x EOH: ETHANOL(Non-functional Binders)
- 1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)
- 1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- 2 x O: OXYGEN ATOM(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Zarate-Romero, A. et al., X-ray driven reduction of Cpd I of Catalase-3 from N. crassa reveals differential sensitivity of active sites and formation of ferrous state. Arch.Biochem.Biophys. (2019)
- Release Date
- 2019-05-01
- Peptides
- Catalase-3: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D