- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.20 Å
- Oligo State
- homo-12-mer
- Ligands
- 6 x SO4: SULFATE ION(Non-functional Binders)
- 18 x FE: FE (III) ION(Non-covalent)
FE.2: 3 residues within 4Å:- Chain A: D.79, E.83
- Chain B: H.52
5 PLIP interactions:3 interactions with chain A, 1 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: A:D.79, A:D.79, A:E.83, B:H.52, H2O.2
FE.5: 3 residues within 4Å:- Chain A: H.52
- Chain B: D.79, E.83
5 PLIP interactions:3 interactions with chain B, 1 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: B:D.79, B:D.79, B:E.83, A:H.52, H2O.3
FE.6: 5 residues within 4Å:- Chain B: E.154
- Chain F: E.154
- Chain J: E.154
- Ligands: FE.20, FE.34
3 PLIP interactions:1 interactions with chain F, 1 interactions with chain J, 1 interactions with chain B- Metal complexes: F:E.154, J:E.154, B:E.154
FE.8: 3 residues within 4Å:- Chain C: D.79, E.83
- Chain D: H.52
5 PLIP interactions:3 interactions with chain C, 1 interactions with chain D, 1 Ligand-Water interactions- Metal complexes: C:D.79, C:D.79, C:E.83, D:H.52, H2O.8
FE.9: 3 residues within 4Å:- Chain A: E.154
- Chain C: E.154
- Chain H: E.154
5 PLIP interactions:1 interactions with chain C, 1 interactions with chain A, 1 interactions with chain H, 2 Ligand-Water interactions- Metal complexes: C:E.154, A:E.154, H:E.154, H2O.6, H2O.19
FE.12: 3 residues within 4Å:- Chain C: H.52
- Chain D: D.79, E.83
5 PLIP interactions:3 interactions with chain D, 1 interactions with chain C, 1 Ligand-Water interactions- Metal complexes: D:D.79, D:D.79, D:E.83, C:H.52, H2O.10
FE.16: 3 residues within 4Å:- Chain E: D.79, E.83
- Chain F: H.52
5 PLIP interactions:3 interactions with chain E, 1 interactions with chain F, 1 Ligand-Water interactions- Metal complexes: E:D.79, E:D.79, E:E.83, F:H.52, H2O.12
FE.19: 3 residues within 4Å:- Chain E: H.52
- Chain F: D.79, E.83
5 PLIP interactions:1 interactions with chain E, 3 interactions with chain F, 1 Ligand-Water interactions- Metal complexes: E:H.52, F:D.79, F:D.79, F:E.83, H2O.14
FE.20: 5 residues within 4Å:- Chain B: E.154
- Chain F: E.154
- Chain J: E.154
- Ligands: FE.6, FE.34
3 PLIP interactions:1 interactions with chain B, 1 interactions with chain F, 1 interactions with chain J- Metal complexes: B:E.154, F:E.154, J:E.154
FE.22: 3 residues within 4Å:- Chain G: D.79, E.83
- Chain H: H.52
5 PLIP interactions:3 interactions with chain G, 1 interactions with chain H, 1 Ligand-Water interactions- Metal complexes: G:D.79, G:D.79, G:E.83, H:H.52, H2O.18
FE.23: 3 residues within 4Å:- Chain E: E.154
- Chain G: E.154
- Chain L: E.154
5 PLIP interactions:1 interactions with chain E, 1 interactions with chain G, 1 interactions with chain L, 2 Ligand-Water interactions- Metal complexes: E:E.154, G:E.154, L:E.154, H2O.16, H2O.29
FE.26: 3 residues within 4Å:- Chain G: H.52
- Chain H: D.79, E.83
5 PLIP interactions:3 interactions with chain H, 1 interactions with chain G, 1 Ligand-Water interactions- Metal complexes: H:D.79, H:D.79, H:E.83, G:H.52, H2O.20
FE.30: 3 residues within 4Å:- Chain I: D.79, E.83
- Chain J: H.52
5 PLIP interactions:1 interactions with chain J, 3 interactions with chain I, 1 Ligand-Water interactions- Metal complexes: J:H.52, I:D.79, I:D.79, I:E.83, H2O.22
FE.33: 3 residues within 4Å:- Chain I: H.52
- Chain J: D.79, E.83
5 PLIP interactions:1 interactions with chain I, 3 interactions with chain J, 1 Ligand-Water interactions- Metal complexes: I:H.52, J:D.79, J:D.79, J:E.83, H2O.24
FE.34: 5 residues within 4Å:- Chain B: E.154
- Chain F: E.154
- Chain J: E.154
- Ligands: FE.6, FE.20
3 PLIP interactions:1 interactions with chain B, 1 interactions with chain F, 1 interactions with chain J- Metal complexes: B:E.154, F:E.154, J:E.154
FE.36: 3 residues within 4Å:- Chain K: D.79, E.83
- Chain L: H.52
5 PLIP interactions:1 interactions with chain L, 3 interactions with chain K, 1 Ligand-Water interactions- Metal complexes: L:H.52, K:D.79, K:D.79, K:E.83, H2O.28
FE.37: 3 residues within 4Å:- Chain D: E.154
- Chain I: E.154
- Chain K: E.154
5 PLIP interactions:1 interactions with chain D, 1 interactions with chain K, 1 interactions with chain I, 2 Ligand-Water interactions- Metal complexes: D:E.154, K:E.154, I:E.154, H2O.9, H2O.27
FE.40: 3 residues within 4Å:- Chain K: H.52
- Chain L: D.79, E.83
5 PLIP interactions:3 interactions with chain L, 1 interactions with chain K, 1 Ligand-Water interactions- Metal complexes: L:D.79, L:D.79, L:E.83, K:H.52, H2O.31
- 12 x MG: MAGNESIUM ION(Non-covalent)
MG.3: 3 residues within 4Å:- Chain A: H.168
- Chain C: Q.86
- Chain D: E.56
2 PLIP interactions:1 interactions with chain A, 1 interactions with chain D- Metal complexes: A:H.168, D:E.56
MG.7: 3 residues within 4Å:- Chain B: H.168
- Chain E: E.56
- Chain F: Q.86
2 PLIP interactions:1 interactions with chain E, 1 interactions with chain B- Metal complexes: E:E.56, B:H.168
MG.10: 5 residues within 4Å:- Chain C: H.164, H.168
- Chain G: E.56
- Chain H: Q.86, A.87
2 PLIP interactions:1 interactions with chain H, 1 Ligand-Water interactions- Metal complexes: H:Q.86, H2O.7
MG.13: 3 residues within 4Å:- Chain D: H.168
- Chain I: Q.86
- Chain J: E.56
3 PLIP interactions:1 interactions with chain D, 1 interactions with chain J, 1 Ligand-Water interactions- Metal complexes: D:H.168, J:E.56, H2O.10
MG.17: 3 residues within 4Å:- Chain E: H.168
- Chain G: Q.86
- Chain H: E.56
2 PLIP interactions:1 interactions with chain H, 1 interactions with chain E- Metal complexes: H:E.56, E:H.168
MG.21: 3 residues within 4Å:- Chain F: H.168
- Chain I: E.56
- Chain J: Q.86
2 PLIP interactions:1 interactions with chain I, 1 interactions with chain F- Metal complexes: I:E.56, F:H.168
MG.24: 5 residues within 4Å:- Chain G: H.164, H.168
- Chain K: E.56
- Chain L: Q.86, A.87
2 PLIP interactions:1 interactions with chain L, 1 Ligand-Water interactions- Metal complexes: L:Q.86, H2O.17
MG.27: 3 residues within 4Å:- Chain A: Q.86
- Chain B: E.56
- Chain H: H.168
3 PLIP interactions:1 interactions with chain B, 1 interactions with chain H, 1 Ligand-Water interactions- Metal complexes: B:E.56, H:H.168, H2O.20
MG.31: 3 residues within 4Å:- Chain I: H.168
- Chain K: Q.86
- Chain L: E.56
2 PLIP interactions:1 interactions with chain L, 1 interactions with chain I- Metal complexes: L:E.56, I:H.168
MG.35: 3 residues within 4Å:- Chain A: E.56
- Chain B: Q.86
- Chain J: H.168
2 PLIP interactions:1 interactions with chain A, 1 interactions with chain J- Metal complexes: A:E.56, J:H.168
MG.38: 5 residues within 4Å:- Chain C: E.56
- Chain D: Q.86, A.87
- Chain K: H.164, H.168
2 PLIP interactions:1 interactions with chain D, 1 Ligand-Water interactions- Metal complexes: D:Q.86, H2O.28
MG.41: 3 residues within 4Å:- Chain E: Q.86
- Chain F: E.56
- Chain L: H.168
3 PLIP interactions:1 interactions with chain F, 1 interactions with chain L, 1 Ligand-Water interactions- Metal complexes: F:E.56, L:H.168, H2O.31
- 6 x NA: SODIUM ION(Non-functional Binders)
NA.11: 8 residues within 4Å:- Chain C: E.59, V.176
- Chain G: E.59, V.176
- Chain K: E.59, V.176
- Ligands: NA.25, NA.39
4 PLIP interactions:1 interactions with chain G, 1 interactions with chain K, 2 interactions with chain C- Hydrogen bonds: G:E.59, K:E.59, C:E.59, C:E.59
NA.14: 3 residues within 4Å:- Chain A: E.59
- Chain D: E.59
- Chain J: E.59
3 PLIP interactions:2 interactions with chain J, 1 interactions with chain A- Hydrogen bonds: J:E.59, J:E.59, A:E.59
NA.25: 8 residues within 4Å:- Chain C: E.59, V.176
- Chain G: E.59, V.176
- Chain K: E.59, V.176
- Ligands: NA.11, NA.39
4 PLIP interactions:1 interactions with chain G, 1 interactions with chain K, 2 interactions with chain C- Hydrogen bonds: G:E.59, K:E.59, C:E.59, C:E.59
NA.28: 3 residues within 4Å:- Chain B: E.59
- Chain E: E.59
- Chain H: E.59
3 PLIP interactions:2 interactions with chain B, 1 interactions with chain E- Hydrogen bonds: B:E.59, B:E.59, E:E.59
NA.39: 8 residues within 4Å:- Chain C: E.59, V.176
- Chain G: E.59, V.176
- Chain K: E.59, V.176
- Ligands: NA.11, NA.25
4 PLIP interactions:1 interactions with chain K, 2 interactions with chain C, 1 interactions with chain G- Hydrogen bonds: K:E.59, C:E.59, C:E.59, G:E.59
NA.42: 3 residues within 4Å:- Chain F: E.59
- Chain I: E.59
- Chain L: E.59
3 PLIP interactions:2 interactions with chain F, 1 interactions with chain I- Hydrogen bonds: F:E.59, F:E.59, I:E.59
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Zeth, K. et al., Iron-oxo clusters biomineralizing on protein surfaces: structural analysis of Halobacterium salinarum DpsA in its low- and high-iron states. Proc.Natl.Acad.Sci.USA (2004)
- Release Date
- 2004-10-19
- Peptides
- Iron-rich dpsA-homolog protein: ABCDEFGHIJKL
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
AF
BG
CH
DI
AJ
BK
CL
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.20 Å
- Oligo State
- homo-12-mer
- Ligands
- 6 x SO4: SULFATE ION(Non-functional Binders)
- 18 x FE: FE (III) ION(Non-covalent)
- 12 x MG: MAGNESIUM ION(Non-covalent)
- 6 x NA: SODIUM ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Zeth, K. et al., Iron-oxo clusters biomineralizing on protein surfaces: structural analysis of Halobacterium salinarum DpsA in its low- and high-iron states. Proc.Natl.Acad.Sci.USA (2004)
- Release Date
- 2004-10-19
- Peptides
- Iron-rich dpsA-homolog protein: ABCDEFGHIJKL
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
AF
BG
CH
DI
AJ
BK
CL
D