- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.37 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x HEC: HEME C(Covalent)
- 33 x ZN: ZINC ION(Non-functional Binders)(Non-covalent)
ZN.2: 4 residues within 4Å:- Ligands: 80M.3, ZN.34, ZN.46, PO4.47
No protein-ligand interaction detected (PLIP)ZN.5: 4 residues within 4Å:- Chain A: K.27, H.38, T.107, E.108
4 PLIP interactions:3 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:H.38, A:E.108, A:E.108, H2O.1
ZN.6: 3 residues within 4Å:- Ligands: 80M.4, ZN.28, PO4.32
No protein-ligand interaction detected (PLIP)ZN.7: 2 residues within 4Å:- Chain A: E.2, E.93
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:E.2, A:E.93, A:E.93
ZN.9: 4 residues within 4Å:- Ligands: 80M.10, ZN.16, ZN.18, PO4.30
No protein-ligand interaction detected (PLIP)ZN.12: 4 residues within 4Å:- Chain B: K.27, H.38, T.107, E.108
4 PLIP interactions:3 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:H.38, B:E.108, B:E.108, H2O.2
ZN.13: 3 residues within 4Å:- Chain B: E.2, E.93
- Ligands: PO4.49
1 PLIP interactions:1 interactions with chain B- Metal complexes: B:E.93
ZN.14: 4 residues within 4Å:- Ligands: 80M.11, ZN.15, ZN.44, PO4.49
No protein-ligand interaction detected (PLIP)ZN.15: 5 residues within 4Å:- Chain B: T.74
- Ligands: 80M.11, ZN.14, ZN.45, PO4.49
No protein-ligand interaction detected (PLIP)ZN.16: 4 residues within 4Å:- Ligands: ZN.9, 80M.10, ZN.17, PO4.30
No protein-ligand interaction detected (PLIP)ZN.17: 5 residues within 4Å:- Chain C: H.44
- Ligands: 80M.10, ZN.16, ZN.18, PO4.30
2 PLIP interactions:1 interactions with chain C, 1 Ligand-Water interactions- Metal complexes: C:H.44, H2O.2
ZN.18: 4 residues within 4Å:- Ligands: ZN.9, 80M.10, ZN.17, PO4.30
No protein-ligand interaction detected (PLIP)ZN.20: 4 residues within 4Å:- Ligands: ZN.21, ZN.23, 80M.24, PO4.31
No protein-ligand interaction detected (PLIP)ZN.21: 4 residues within 4Å:- Ligands: ZN.20, ZN.22, 80M.24, PO4.31
No protein-ligand interaction detected (PLIP)ZN.22: 4 residues within 4Å:- Ligands: ZN.21, ZN.23, 80M.24, PO4.31
No protein-ligand interaction detected (PLIP)ZN.23: 4 residues within 4Å:- Ligands: ZN.20, ZN.22, 80M.24, PO4.31
No protein-ligand interaction detected (PLIP)ZN.25: 4 residues within 4Å:- Chain C: K.27, H.38, T.107, E.108
5 PLIP interactions:3 interactions with chain C, 2 Ligand-Water interactions- Metal complexes: C:H.38, C:E.108, C:E.108, H2O.2, H2O.2
ZN.26: 3 residues within 4Å:- Chain C: E.2, E.93
- Ligands: PO4.32
2 PLIP interactions:2 interactions with chain C- Metal complexes: C:E.2, C:E.93
ZN.27: 4 residues within 4Å:- Chain C: E.71
- Ligands: 80M.4, ZN.29, PO4.32
No protein-ligand interaction detected (PLIP)ZN.28: 4 residues within 4Å:- Ligands: 80M.4, ZN.6, ZN.29, PO4.32
No protein-ligand interaction detected (PLIP)ZN.29: 5 residues within 4Å:- Chain C: T.74
- Ligands: 80M.4, ZN.27, ZN.28, PO4.32
No protein-ligand interaction detected (PLIP)ZN.33: 5 residues within 4Å:- Chain D: H.44
- Ligands: 80M.3, ZN.34, ZN.46, PO4.47
2 PLIP interactions:1 interactions with chain D, 1 Ligand-Water interactions- Metal complexes: D:H.44, H2O.3
ZN.34: 4 residues within 4Å:- Ligands: ZN.2, 80M.3, ZN.33, PO4.47
No protein-ligand interaction detected (PLIP)ZN.36: 4 residues within 4Å:- Ligands: ZN.38, ZN.39, 80M.40, PO4.48
No protein-ligand interaction detected (PLIP)ZN.37: 4 residues within 4Å:- Ligands: ZN.38, ZN.39, 80M.40, PO4.48
No protein-ligand interaction detected (PLIP)ZN.38: 4 residues within 4Å:- Ligands: ZN.36, ZN.37, 80M.40, PO4.48
No protein-ligand interaction detected (PLIP)ZN.39: 4 residues within 4Å:- Ligands: ZN.36, ZN.37, 80M.40, PO4.48
No protein-ligand interaction detected (PLIP)ZN.41: 4 residues within 4Å:- Chain D: K.27, H.38, T.107, E.108
4 PLIP interactions:3 interactions with chain D, 1 Ligand-Water interactions- Metal complexes: D:H.38, D:E.108, D:E.108, H2O.3
ZN.42: 2 residues within 4Å:- Chain D: E.2, E.93
2 PLIP interactions:2 interactions with chain D- Metal complexes: D:E.93, D:E.93
ZN.43: 1 residues within 4Å:- Chain D: E.49
2 PLIP interactions:2 interactions with chain D- Metal complexes: D:E.49, D:E.49
ZN.44: 3 residues within 4Å:- Ligands: 80M.11, ZN.14, PO4.49
No protein-ligand interaction detected (PLIP)ZN.45: 3 residues within 4Å:- Ligands: 80M.11, ZN.15, PO4.49
No protein-ligand interaction detected (PLIP)ZN.46: 4 residues within 4Å:- Ligands: ZN.2, 80M.3, ZN.33, PO4.47
No protein-ligand interaction detected (PLIP)- 6 x 80M: sulfonato-thiacalix[4]arene(Non-covalent)
80M.3: 15 residues within 4Å:- Chain A: S.7, A.8, K.9, K.10, A.12
- Chain D: H.44, N.61, V.62, L.63, N.68
- Ligands: ZN.2, ZN.33, ZN.34, ZN.46, PO4.47
10 PLIP interactions:4 interactions with chain D, 6 interactions with chain A- Hydrogen bonds: D:N.61, D:L.63, D:N.68, A:A.8, A:K.9
- Water bridges: D:H.44
- Hydrophobic interactions: A:K.9
- Salt bridges: A:K.9, A:K.9, A:K.9
80M.4: 16 residues within 4Å:- Chain A: E.71, T.74, N.75, K.78, K.91
- Chain C: E.71, T.74, N.75, K.78, Y.79, K.91
- Ligands: ZN.6, ZN.27, ZN.28, ZN.29, PO4.32
12 PLIP interactions:8 interactions with chain C, 4 interactions with chain A- Hydrophobic interactions: C:E.71, C:T.74, C:N.75, C:K.78
- Hydrogen bonds: C:N.75, C:K.78, A:T.74, A:N.75
- Salt bridges: C:K.78, C:K.91, A:K.78, A:K.91
80M.10: 14 residues within 4Å:- Chain B: S.7, A.8, K.9, K.10
- Chain C: H.44, N.61, V.62, L.63, N.68
- Ligands: ZN.9, ZN.16, ZN.17, ZN.18, PO4.30
13 PLIP interactions:6 interactions with chain C, 7 interactions with chain B- Hydrophobic interactions: C:L.63
- Hydrogen bonds: C:H.44, C:N.61, C:L.63, C:L.63, C:N.68, B:S.7, B:A.8, B:K.9
- Salt bridges: B:K.9, B:K.9, B:K.10, B:K.16
80M.11: 14 residues within 4Å:- Chain B: E.71, T.74, N.75, K.78, K.91
- Chain D: E.71, T.74, N.75, K.78
- Ligands: ZN.14, ZN.15, ZN.44, ZN.45, PO4.49
11 PLIP interactions:7 interactions with chain B, 4 interactions with chain D- Hydrophobic interactions: B:E.71, B:T.74
- Hydrogen bonds: B:E.71, B:N.75, D:T.74, D:N.75
- Salt bridges: B:K.78, B:K.78, B:K.91, D:K.78
- Water bridges: D:K.78
80M.24: 9 residues within 4Å:- Chain C: S.7, A.8, K.9, A.12
- Ligands: ZN.20, ZN.21, ZN.22, ZN.23, PO4.31
7 PLIP interactions:7 interactions with chain C- Hydrophobic interactions: C:K.9
- Hydrogen bonds: C:S.7, C:K.9
- Water bridges: C:K.9, C:K.9
- Salt bridges: C:K.9, C:K.9
80M.40: 9 residues within 4Å:- Chain D: S.7, A.8, K.9, A.12
- Ligands: ZN.36, ZN.37, ZN.38, ZN.39, PO4.48
6 PLIP interactions:6 interactions with chain D- Hydrophobic interactions: D:K.9
- Hydrogen bonds: D:A.8, D:K.9
- Salt bridges: D:K.9, D:K.9, D:K.10
- 6 x PO4: PHOSPHATE ION(Non-functional Binders)
PO4.30: 6 residues within 4Å:- Chain C: H.44
- Ligands: ZN.9, 80M.10, ZN.16, ZN.17, ZN.18
1 PLIP interactions:1 interactions with chain C- Salt bridges: C:H.44
PO4.31: 5 residues within 4Å:- Ligands: ZN.20, ZN.21, ZN.22, ZN.23, 80M.24
No protein-ligand interaction detected (PLIP)PO4.32: 9 residues within 4Å:- Chain C: E.2, E.93, R.96
- Ligands: 80M.4, ZN.6, ZN.26, ZN.27, ZN.28, ZN.29
1 PLIP interactions:1 interactions with chain C- Salt bridges: C:R.96
PO4.47: 6 residues within 4Å:- Chain D: H.44
- Ligands: ZN.2, 80M.3, ZN.33, ZN.34, ZN.46
1 PLIP interactions:1 interactions with chain D- Salt bridges: D:H.44
PO4.48: 5 residues within 4Å:- Ligands: ZN.36, ZN.37, ZN.38, ZN.39, 80M.40
No protein-ligand interaction detected (PLIP)PO4.49: 9 residues within 4Å:- Chain B: E.2, E.93, R.96
- Ligands: 80M.11, ZN.13, ZN.14, ZN.15, ZN.44, ZN.45
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:R.96
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Flood, R.J. et al., Protein Frameworks with Thiacalixarene and Zinc. Cryst.Growth Des. (2022)
- Release Date
- 2022-03-02
- Peptides
- Cytochrome c iso-1: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.37 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x HEC: HEME C(Covalent)
- 33 x ZN: ZINC ION(Non-functional Binders)(Non-covalent)
- 6 x 80M: sulfonato-thiacalix[4]arene(Non-covalent)
- 6 x PO4: PHOSPHATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Flood, R.J. et al., Protein Frameworks with Thiacalixarene and Zinc. Cryst.Growth Des. (2022)
- Release Date
- 2022-03-02
- Peptides
- Cytochrome c iso-1: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D