- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.05 Å
- Oligo State
- homo-12-mer
- Ligands
- 12 x FE: FE (III) ION(Non-covalent)
- 18 x FE2: FE (II) ION(Non-functional Binders)(Non-covalent)
FE2.2: 1 residues within 4Å:- Ligands: FE2.3
No protein-ligand interaction detected (PLIP)FE2.3: 6 residues within 4Å:- Chain A: D.138, H.141
- Chain C: D.138, H.141
- Chain F: D.138
- Ligands: FE2.2
3 PLIP interactions:1 interactions with chain F, 1 interactions with chain A, 1 interactions with chain C- Metal complexes: F:D.138, A:D.138, C:D.138
FE2.10: 2 residues within 4Å:- Chain A: D.138
- Chain F: D.138
No protein-ligand interaction detected (PLIP)FE2.12: 2 residues within 4Å:- Ligands: FE2.26, FE2.40
No protein-ligand interaction detected (PLIP)FE2.13: 11 residues within 4Å:- Chain D: D.138, H.141
- Chain H: D.138, H.141
- Chain L: D.138, H.141
- Ligands: FE2.14, FE2.27, FE2.28, FE2.41, FE2.42
5 PLIP interactions:1 interactions with chain D, 2 interactions with chain L, 2 interactions with chain H- Metal complexes: D:D.138, L:D.138, L:D.138, H:D.138, H:D.138
FE2.14: 5 residues within 4Å:- Ligands: FE2.13, FE2.27, FE2.28, FE2.41, FE2.42
No protein-ligand interaction detected (PLIP)FE2.16: 1 residues within 4Å:- Ligands: FE2.17
No protein-ligand interaction detected (PLIP)FE2.17: 6 residues within 4Å:- Chain E: D.138, H.141
- Chain G: D.138, H.141
- Chain J: D.138
- Ligands: FE2.16
3 PLIP interactions:1 interactions with chain J, 1 interactions with chain G, 1 interactions with chain E- Metal complexes: J:D.138, G:D.138, E:D.138
FE2.24: 2 residues within 4Å:- Chain E: D.138
- Chain J: D.138
No protein-ligand interaction detected (PLIP)FE2.26: 2 residues within 4Å:- Ligands: FE2.12, FE2.40
No protein-ligand interaction detected (PLIP)FE2.27: 11 residues within 4Å:- Chain D: D.138, H.141
- Chain H: D.138, H.141
- Chain L: D.138, H.141
- Ligands: FE2.13, FE2.14, FE2.28, FE2.41, FE2.42
5 PLIP interactions:2 interactions with chain D, 2 interactions with chain H, 1 interactions with chain L- Metal complexes: D:D.138, D:D.138, H:D.138, H:D.138, L:D.138
FE2.28: 5 residues within 4Å:- Ligands: FE2.13, FE2.14, FE2.27, FE2.41, FE2.42
No protein-ligand interaction detected (PLIP)FE2.30: 1 residues within 4Å:- Ligands: FE2.31
No protein-ligand interaction detected (PLIP)FE2.31: 6 residues within 4Å:- Chain B: D.138
- Chain I: D.138, H.141
- Chain K: D.138, H.141
- Ligands: FE2.30
3 PLIP interactions:1 interactions with chain K, 1 interactions with chain I, 1 interactions with chain B- Metal complexes: K:D.138, I:D.138, B:D.138
FE2.38: 2 residues within 4Å:- Chain B: D.138
- Chain I: D.138
No protein-ligand interaction detected (PLIP)FE2.40: 2 residues within 4Å:- Ligands: FE2.12, FE2.26
No protein-ligand interaction detected (PLIP)FE2.41: 11 residues within 4Å:- Chain D: D.138, H.141
- Chain H: D.138, H.141
- Chain L: D.138, H.141
- Ligands: FE2.13, FE2.14, FE2.27, FE2.28, FE2.42
5 PLIP interactions:2 interactions with chain L, 2 interactions with chain H, 1 interactions with chain D- Metal complexes: L:D.138, L:D.138, H:D.138, H:D.138, D:D.138
FE2.42: 5 residues within 4Å:- Ligands: FE2.13, FE2.14, FE2.27, FE2.28, FE2.41
No protein-ligand interaction detected (PLIP)- 6 x MG: MAGNESIUM ION(Non-covalent)
MG.4: 8 residues within 4Å:- Chain A: N.48, D.51
- Chain E: N.48, D.51
- Chain I: N.48, D.51
- Ligands: MG.18, MG.32
3 PLIP interactions:1 interactions with chain E, 1 interactions with chain I, 1 interactions with chain A- Metal complexes: E:D.51, I:D.51, A:D.51
MG.7: 6 residues within 4Å:- Chain B: N.48, D.51
- Chain C: N.48, D.51
- Chain L: N.48, D.51
3 PLIP interactions:1 interactions with chain L, 1 interactions with chain B, 1 interactions with chain C- Metal complexes: L:D.51, B:D.51, C:D.51
MG.18: 8 residues within 4Å:- Chain A: N.48, D.51
- Chain E: N.48, D.51
- Chain I: N.48, D.51
- Ligands: MG.4, MG.32
3 PLIP interactions:1 interactions with chain I, 1 interactions with chain E, 1 interactions with chain A- Metal complexes: I:D.51, E:D.51, A:D.51
MG.21: 6 residues within 4Å:- Chain D: N.48, D.51
- Chain F: N.48, D.51
- Chain G: N.48, D.51
3 PLIP interactions:1 interactions with chain D, 1 interactions with chain G, 1 interactions with chain F- Metal complexes: D:D.51, G:D.51, F:D.51
MG.32: 8 residues within 4Å:- Chain A: N.48, D.51
- Chain E: N.48, D.51
- Chain I: N.48, D.51
- Ligands: MG.4, MG.18
3 PLIP interactions:1 interactions with chain A, 1 interactions with chain I, 1 interactions with chain E- Metal complexes: A:D.51, I:D.51, E:D.51
MG.35: 6 residues within 4Å:- Chain H: N.48, D.51
- Chain J: N.48, D.51
- Chain K: N.48, D.51
3 PLIP interactions:1 interactions with chain J, 1 interactions with chain H, 1 interactions with chain K- Metal complexes: J:D.51, H:D.51, K:D.51
- 6 x CL: CHLORIDE ION(Non-functional Binders)
CL.5: 8 residues within 4Å:- Chain A: R.50, L.54
- Chain E: R.50, L.54
- Chain I: R.50, L.54
- Ligands: CL.19, CL.33
Ligand excluded by PLIPCL.8: 6 residues within 4Å:- Chain B: R.50, L.54
- Chain C: R.50, L.54
- Chain L: R.50, L.54
Ligand excluded by PLIPCL.19: 8 residues within 4Å:- Chain A: R.50, L.54
- Chain E: R.50, L.54
- Chain I: R.50, L.54
- Ligands: CL.5, CL.33
Ligand excluded by PLIPCL.22: 6 residues within 4Å:- Chain D: R.50, L.54
- Chain F: R.50, L.54
- Chain G: R.50, L.54
Ligand excluded by PLIPCL.33: 8 residues within 4Å:- Chain A: R.50, L.54
- Chain E: R.50, L.54
- Chain I: R.50, L.54
- Ligands: CL.5, CL.19
Ligand excluded by PLIPCL.36: 6 residues within 4Å:- Chain H: R.50, L.54
- Chain J: R.50, L.54
- Chain K: R.50, L.54
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Williams, S.M. et al., Flexible aspartates propel iron to the ferroxidation sites along pathways stabilized by a conserved arginine in Dps proteins from Mycobacterium smegmatis. Metallomics (2017)
- Release Date
- 2017-08-09
- Peptides
- Putative starvation-induced DNA protecting protein/Ferritin and Dps: 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 2.05 Å
- Oligo State
- homo-12-mer
- Ligands
- 12 x FE: FE (III) ION(Non-covalent)
- 18 x FE2: FE (II) ION(Non-functional Binders)(Non-covalent)
- 6 x MG: MAGNESIUM ION(Non-covalent)
- 6 x CL: CHLORIDE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Williams, S.M. et al., Flexible aspartates propel iron to the ferroxidation sites along pathways stabilized by a conserved arginine in Dps proteins from Mycobacterium smegmatis. Metallomics (2017)
- Release Date
- 2017-08-09
- Peptides
- Putative starvation-induced DNA protecting protein/Ferritin and Dps: ABCDEFGHIJKL
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
AF
BG
CH
DI
AJ
BK
CL
D