- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- homo-24-mer
- Ligands
- 60 x FE: FE (III) ION(Non-covalent)(Non-functional Binders)
- 48 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)
IPA.4: 6 residues within 4Å:- Chain A: D.120, I.123, K.124
- Chain C: I.123
- Ligands: IPA.5, IPA.12
Ligand excluded by PLIPIPA.5: 6 residues within 4Å:- Chain A: I.123
- Chain X: D.120, I.123, K.124
- Ligands: IPA.4, IPA.12
Ligand excluded by PLIPIPA.6: 6 residues within 4Å:- Chain A: S.112, I.115, N.116, V.138, H.142
- Chain C: A.129
Ligand excluded by PLIPIPA.9: 6 residues within 4Å:- Chain B: S.112, I.115, N.116, V.138, H.142
- Chain P: A.129
Ligand excluded by PLIPIPA.12: 6 residues within 4Å:- Chain C: D.120, I.123, K.124
- Chain X: I.123
- Ligands: IPA.4, IPA.5
Ligand excluded by PLIPIPA.13: 7 residues within 4Å:- Chain C: S.112, I.115, N.116, V.138, Q.141, H.142
- Chain X: A.129
Ligand excluded by PLIPIPA.17: 6 residues within 4Å:- Chain D: D.120, I.123, K.124
- Chain E: I.123
- Ligands: IPA.18, IPA.24
Ligand excluded by PLIPIPA.18: 6 residues within 4Å:- Chain D: I.123
- Chain T: D.120, I.123, K.124
- Ligands: IPA.17, IPA.24
Ligand excluded by PLIPIPA.19: 7 residues within 4Å:- Chain D: S.112, I.115, N.116, V.138, Q.141, H.142
- Chain E: A.129
Ligand excluded by PLIPIPA.24: 6 residues within 4Å:- Chain E: D.120, I.123, K.124
- Chain T: I.123
- Ligands: IPA.17, IPA.18
Ligand excluded by PLIPIPA.25: 7 residues within 4Å:- Chain E: S.112, I.115, N.116, V.138, Q.141, H.142
- Chain T: A.129
Ligand excluded by PLIPIPA.30: 7 residues within 4Å:- Chain F: S.112, I.115, N.116, V.138, Q.141, H.142
- Chain M: A.129
Ligand excluded by PLIPIPA.34: 6 residues within 4Å:- Chain G: D.120, I.123, K.124
- Chain I: I.123
- Ligands: IPA.35, IPA.42
Ligand excluded by PLIPIPA.35: 6 residues within 4Å:- Chain G: I.123
- Chain R: D.120, I.123, K.124
- Ligands: IPA.34, IPA.42
Ligand excluded by PLIPIPA.36: 6 residues within 4Å:- Chain G: S.112, I.115, N.116, V.138, H.142
- Chain I: A.129
Ligand excluded by PLIPIPA.39: 6 residues within 4Å:- Chain H: S.112, I.115, N.116, V.138, H.142
- Chain V: A.129
Ligand excluded by PLIPIPA.42: 6 residues within 4Å:- Chain I: D.120, I.123, K.124
- Chain R: I.123
- Ligands: IPA.34, IPA.35
Ligand excluded by PLIPIPA.43: 7 residues within 4Å:- Chain I: S.112, I.115, N.116, V.138, Q.141, H.142
- Chain R: A.129
Ligand excluded by PLIPIPA.47: 6 residues within 4Å:- Chain J: D.120, I.123, K.124
- Chain K: I.123
- Ligands: IPA.48, IPA.54
Ligand excluded by PLIPIPA.48: 6 residues within 4Å:- Chain J: I.123
- Chain N: D.120, I.123, K.124
- Ligands: IPA.47, IPA.54
Ligand excluded by PLIPIPA.49: 7 residues within 4Å:- Chain J: S.112, I.115, N.116, V.138, Q.141, H.142
- Chain K: A.129
Ligand excluded by PLIPIPA.54: 6 residues within 4Å:- Chain K: D.120, I.123, K.124
- Chain N: I.123
- Ligands: IPA.47, IPA.48
Ligand excluded by PLIPIPA.55: 7 residues within 4Å:- Chain K: S.112, I.115, N.116, V.138, Q.141, H.142
- Chain N: A.129
Ligand excluded by PLIPIPA.60: 7 residues within 4Å:- Chain L: S.112, I.115, N.116, V.138, Q.141, H.142
- Chain S: A.129
Ligand excluded by PLIPIPA.64: 6 residues within 4Å:- Chain M: D.120, I.123, K.124
- Chain O: I.123
- Ligands: IPA.65, IPA.72
Ligand excluded by PLIPIPA.65: 6 residues within 4Å:- Chain F: D.120, I.123, K.124
- Chain M: I.123
- Ligands: IPA.64, IPA.72
Ligand excluded by PLIPIPA.66: 6 residues within 4Å:- Chain M: S.112, I.115, N.116, V.138, H.142
- Chain O: A.129
Ligand excluded by PLIPIPA.69: 6 residues within 4Å:- Chain J: A.129
- Chain N: S.112, I.115, N.116, V.138, H.142
Ligand excluded by PLIPIPA.72: 6 residues within 4Å:- Chain F: I.123
- Chain O: D.120, I.123, K.124
- Ligands: IPA.64, IPA.65
Ligand excluded by PLIPIPA.73: 7 residues within 4Å:- Chain F: A.129
- Chain O: S.112, I.115, N.116, V.138, Q.141, H.142
Ligand excluded by PLIPIPA.77: 6 residues within 4Å:- Chain P: D.120, I.123, K.124
- Chain Q: I.123
- Ligands: IPA.78, IPA.84
Ligand excluded by PLIPIPA.78: 6 residues within 4Å:- Chain B: D.120, I.123, K.124
- Chain P: I.123
- Ligands: IPA.77, IPA.84
Ligand excluded by PLIPIPA.79: 7 residues within 4Å:- Chain P: S.112, I.115, N.116, V.138, Q.141, H.142
- Chain Q: A.129
Ligand excluded by PLIPIPA.84: 6 residues within 4Å:- Chain B: I.123
- Chain Q: D.120, I.123, K.124
- Ligands: IPA.77, IPA.78
Ligand excluded by PLIPIPA.85: 7 residues within 4Å:- Chain B: A.129
- Chain Q: S.112, I.115, N.116, V.138, Q.141, H.142
Ligand excluded by PLIPIPA.90: 7 residues within 4Å:- Chain G: A.129
- Chain R: S.112, I.115, N.116, V.138, Q.141, H.142
Ligand excluded by PLIPIPA.94: 6 residues within 4Å:- Chain S: D.120, I.123, K.124
- Chain U: I.123
- Ligands: IPA.95, IPA.102
Ligand excluded by PLIPIPA.95: 6 residues within 4Å:- Chain L: D.120, I.123, K.124
- Chain S: I.123
- Ligands: IPA.94, IPA.102
Ligand excluded by PLIPIPA.96: 6 residues within 4Å:- Chain S: S.112, I.115, N.116, V.138, H.142
- Chain U: A.129
Ligand excluded by PLIPIPA.99: 6 residues within 4Å:- Chain D: A.129
- Chain T: S.112, I.115, N.116, V.138, H.142
Ligand excluded by PLIPIPA.102: 6 residues within 4Å:- Chain L: I.123
- Chain U: D.120, I.123, K.124
- Ligands: IPA.94, IPA.95
Ligand excluded by PLIPIPA.103: 7 residues within 4Å:- Chain L: A.129
- Chain U: S.112, I.115, N.116, V.138, Q.141, H.142
Ligand excluded by PLIPIPA.107: 6 residues within 4Å:- Chain V: D.120, I.123, K.124
- Chain W: I.123
- Ligands: IPA.108, IPA.114
Ligand excluded by PLIPIPA.108: 6 residues within 4Å:- Chain H: D.120, I.123, K.124
- Chain V: I.123
- Ligands: IPA.107, IPA.114
Ligand excluded by PLIPIPA.109: 7 residues within 4Å:- Chain V: S.112, I.115, N.116, V.138, Q.141, H.142
- Chain W: A.129
Ligand excluded by PLIPIPA.114: 6 residues within 4Å:- Chain H: I.123
- Chain W: D.120, I.123, K.124
- Ligands: IPA.107, IPA.108
Ligand excluded by PLIPIPA.115: 7 residues within 4Å:- Chain H: A.129
- Chain W: S.112, I.115, N.116, V.138, Q.141, H.142
Ligand excluded by PLIPIPA.120: 7 residues within 4Å:- Chain A: A.129
- Chain X: S.112, I.115, N.116, V.138, Q.141, H.142
Ligand excluded by PLIP- 12 x GOL: GLYCEROL(Non-functional Binders)
GOL.16: 10 residues within 4Å:- Chain C: M.32, S.35, N.36, Y.65, I.87
- Chain D: M.32, S.35, N.36, Y.65, I.87
7 PLIP interactions:5 interactions with chain D, 2 interactions with chain C- Hydrogen bonds: D:S.35, D:S.35, D:N.36, D:N.36, C:S.35, C:S.35
- Water bridges: D:Y.65
GOL.23: 8 residues within 4Å:- Chain B: M.32, S.35, N.36, Y.65
- Chain E: M.32, S.35, N.36, Y.65
8 PLIP interactions:4 interactions with chain B, 4 interactions with chain E- Hydrogen bonds: B:S.35, B:S.35, B:N.36, E:S.35, E:S.35
- Water bridges: B:Y.65, E:Y.65, E:Y.65
GOL.29: 8 residues within 4Å:- Chain A: M.32, S.35, N.36, Y.65
- Chain F: M.32, S.35, N.36, Y.65
4 PLIP interactions:2 interactions with chain F, 2 interactions with chain A- Hydrogen bonds: F:S.35, F:N.36, A:S.35, A:S.35
GOL.46: 10 residues within 4Å:- Chain I: M.32, S.35, N.36, Y.65, I.87
- Chain J: M.32, S.35, N.36, Y.65, I.87
7 PLIP interactions:5 interactions with chain J, 2 interactions with chain I- Hydrogen bonds: J:S.35, J:S.35, J:N.36, J:N.36, I:S.35, I:S.35
- Water bridges: J:Y.65
GOL.53: 8 residues within 4Å:- Chain H: M.32, S.35, N.36, Y.65
- Chain K: M.32, S.35, N.36, Y.65
8 PLIP interactions:4 interactions with chain H, 4 interactions with chain K- Hydrogen bonds: H:S.35, H:S.35, H:N.36, K:S.35, K:S.35
- Water bridges: H:Y.65, K:Y.65, K:Y.65
GOL.59: 8 residues within 4Å:- Chain G: M.32, S.35, N.36, Y.65
- Chain L: M.32, S.35, N.36, Y.65
4 PLIP interactions:2 interactions with chain L, 2 interactions with chain G- Hydrogen bonds: L:S.35, L:N.36, G:S.35, G:S.35
GOL.76: 10 residues within 4Å:- Chain O: M.32, S.35, N.36, Y.65, I.87
- Chain P: M.32, S.35, N.36, Y.65, I.87
7 PLIP interactions:5 interactions with chain P, 2 interactions with chain O- Hydrogen bonds: P:S.35, P:S.35, P:N.36, P:N.36, O:S.35, O:S.35
- Water bridges: P:Y.65
GOL.83: 8 residues within 4Å:- Chain N: M.32, S.35, N.36, Y.65
- Chain Q: M.32, S.35, N.36, Y.65
8 PLIP interactions:4 interactions with chain N, 4 interactions with chain Q- Hydrogen bonds: N:S.35, N:S.35, N:N.36, Q:S.35, Q:S.35
- Water bridges: N:Y.65, Q:Y.65, Q:Y.65
GOL.89: 8 residues within 4Å:- Chain M: M.32, S.35, N.36, Y.65
- Chain R: M.32, S.35, N.36, Y.65
4 PLIP interactions:2 interactions with chain R, 2 interactions with chain M- Hydrogen bonds: R:S.35, R:N.36, M:S.35, M:S.35
GOL.106: 10 residues within 4Å:- Chain U: M.32, S.35, N.36, Y.65, I.87
- Chain V: M.32, S.35, N.36, Y.65, I.87
7 PLIP interactions:5 interactions with chain V, 2 interactions with chain U- Hydrogen bonds: V:S.35, V:S.35, V:N.36, V:N.36, U:S.35, U:S.35
- Water bridges: V:Y.65
GOL.113: 8 residues within 4Å:- Chain T: M.32, S.35, N.36, Y.65
- Chain W: M.32, S.35, N.36, Y.65
8 PLIP interactions:4 interactions with chain W, 4 interactions with chain T- Hydrogen bonds: W:S.35, W:S.35, T:S.35, T:S.35, T:N.36
- Water bridges: W:Y.65, W:Y.65, T:Y.65
GOL.119: 8 residues within 4Å:- Chain S: M.32, S.35, N.36, Y.65
- Chain X: M.32, S.35, N.36, Y.65
4 PLIP interactions:2 interactions with chain X, 2 interactions with chain S- Hydrogen bonds: X:S.35, X:N.36, S:S.35, S:S.35
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Kim, K.H. et al., Structural basis for the iron uptake mechanism of Helicobacter pylori ferritin. To be Published
- Release Date
- 2009-01-13
- Peptides
- Ferritin: ABCDEFGHIJKLMNOPQRSTUVWX
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
FG
AH
BI
CJ
DK
EL
FM
AN
BO
CP
DQ
ER
FS
AT
BU
CV
DW
EX
F
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- homo-24-mer
- Ligands
- 60 x FE: FE (III) ION(Non-covalent)(Non-functional Binders)
- 48 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)
- 12 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Kim, K.H. et al., Structural basis for the iron uptake mechanism of Helicobacter pylori ferritin. To be Published
- Release Date
- 2009-01-13
- Peptides
- Ferritin: ABCDEFGHIJKLMNOPQRSTUVWX
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
FG
AH
BI
CJ
DK
EL
FM
AN
BO
CP
DQ
ER
FS
AT
BU
CV
DW
EX
F