- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.35 Å
- Oligo State
- homo-24-mer
- Ligands
- 24 x FE: FE (III) ION(Non-covalent)
- 45 x SO4: SULFATE ION(Non-functional Binders)
SO4.2: 2 residues within 4Å:- Chain A: N.4, R.5
Ligand excluded by PLIPSO4.3: 5 residues within 4Å:- Chain A: K.114
- Chain I: K.114
- Chain Q: K.114
- Ligands: SO4.31, SO4.59
Ligand excluded by PLIPSO4.6: 6 residues within 4Å:- Chain B: K.50, S.162, S.163, T.164, G.165
- Ligands: FEC.4
Ligand excluded by PLIPSO4.7: 2 residues within 4Å:- Chain C: K.114
- Chain W: K.114
Ligand excluded by PLIPSO4.9: 3 residues within 4Å:- Chain C: K.50, S.163, T.164
Ligand excluded by PLIPSO4.11: 6 residues within 4Å:- Chain D: K.50, S.162, S.163, T.164, G.165
- Ligands: FEC.13
Ligand excluded by PLIPSO4.12: 2 residues within 4Å:- Chain D: S.144, N.148
Ligand excluded by PLIPSO4.14: 3 residues within 4Å:- Chain D: K.114
- Chain E: K.114
- Chain H: K.114
Ligand excluded by PLIPSO4.16: 3 residues within 4Å:- Chain E: K.50, T.164, G.165
Ligand excluded by PLIPSO4.17: 2 residues within 4Å:- Chain E: N.4, R.5
Ligand excluded by PLIPSO4.18: 2 residues within 4Å:- Chain E: S.144, N.148
Ligand excluded by PLIPSO4.21: 6 residues within 4Å:- Chain F: K.50, S.162, S.163, T.164, G.165
- Ligands: FEC.19
Ligand excluded by PLIPSO4.22: 5 residues within 4Å:- Chain F: K.114
- Chain N: K.114
- Chain V: K.114
- Ligands: SO4.50, SO4.78
Ligand excluded by PLIPSO4.24: 4 residues within 4Å:- Chain G: K.50, S.163, T.164, G.165
Ligand excluded by PLIPSO4.27: 5 residues within 4Å:- Chain H: K.50, S.163, T.164, G.165
- Ligands: FEC.25
Ligand excluded by PLIPSO4.30: 2 residues within 4Å:- Chain I: N.4, R.5
Ligand excluded by PLIPSO4.31: 5 residues within 4Å:- Chain A: K.114
- Chain I: K.114
- Chain Q: K.114
- Ligands: SO4.3, SO4.59
Ligand excluded by PLIPSO4.34: 6 residues within 4Å:- Chain J: K.50, S.162, S.163, T.164, G.165
- Ligands: FEC.32
Ligand excluded by PLIPSO4.35: 2 residues within 4Å:- Chain G: K.114
- Chain K: K.114
Ligand excluded by PLIPSO4.37: 3 residues within 4Å:- Chain K: K.50, S.163, T.164
Ligand excluded by PLIPSO4.39: 6 residues within 4Å:- Chain L: K.50, S.162, S.163, T.164, G.165
- Ligands: FEC.41
Ligand excluded by PLIPSO4.40: 2 residues within 4Å:- Chain L: S.144, N.148
Ligand excluded by PLIPSO4.42: 3 residues within 4Å:- Chain L: K.114
- Chain M: K.114
- Chain P: K.114
Ligand excluded by PLIPSO4.44: 3 residues within 4Å:- Chain M: K.50, T.164, G.165
Ligand excluded by PLIPSO4.45: 2 residues within 4Å:- Chain M: N.4, R.5
Ligand excluded by PLIPSO4.46: 2 residues within 4Å:- Chain M: S.144, N.148
Ligand excluded by PLIPSO4.49: 6 residues within 4Å:- Chain N: K.50, S.162, S.163, T.164, G.165
- Ligands: FEC.47
Ligand excluded by PLIPSO4.50: 5 residues within 4Å:- Chain F: K.114
- Chain N: K.114
- Chain V: K.114
- Ligands: SO4.22, SO4.78
Ligand excluded by PLIPSO4.52: 4 residues within 4Å:- Chain O: K.50, S.163, T.164, G.165
Ligand excluded by PLIPSO4.55: 5 residues within 4Å:- Chain P: K.50, S.163, T.164, G.165
- Ligands: FEC.53
Ligand excluded by PLIPSO4.58: 2 residues within 4Å:- Chain Q: N.4, R.5
Ligand excluded by PLIPSO4.59: 5 residues within 4Å:- Chain A: K.114
- Chain I: K.114
- Chain Q: K.114
- Ligands: SO4.3, SO4.31
Ligand excluded by PLIPSO4.62: 6 residues within 4Å:- Chain R: K.50, S.162, S.163, T.164, G.165
- Ligands: FEC.60
Ligand excluded by PLIPSO4.63: 2 residues within 4Å:- Chain O: K.114
- Chain S: K.114
Ligand excluded by PLIPSO4.65: 3 residues within 4Å:- Chain S: K.50, S.163, T.164
Ligand excluded by PLIPSO4.67: 6 residues within 4Å:- Chain T: K.50, S.162, S.163, T.164, G.165
- Ligands: FEC.69
Ligand excluded by PLIPSO4.68: 2 residues within 4Å:- Chain T: S.144, N.148
Ligand excluded by PLIPSO4.70: 3 residues within 4Å:- Chain T: K.114
- Chain U: K.114
- Chain X: K.114
Ligand excluded by PLIPSO4.72: 3 residues within 4Å:- Chain U: K.50, T.164, G.165
Ligand excluded by PLIPSO4.73: 2 residues within 4Å:- Chain U: N.4, R.5
Ligand excluded by PLIPSO4.74: 2 residues within 4Å:- Chain U: S.144, N.148
Ligand excluded by PLIPSO4.77: 6 residues within 4Å:- Chain V: K.50, S.162, S.163, T.164, G.165
- Ligands: FEC.75
Ligand excluded by PLIPSO4.78: 5 residues within 4Å:- Chain F: K.114
- Chain N: K.114
- Chain V: K.114
- Ligands: SO4.22, SO4.50
Ligand excluded by PLIPSO4.80: 4 residues within 4Å:- Chain W: K.50, S.163, T.164, G.165
Ligand excluded by PLIPSO4.83: 5 residues within 4Å:- Chain X: K.50, S.163, T.164, G.165
- Ligands: FEC.81
Ligand excluded by PLIP- 12 x FEC: 1,3,5,8-TETRAMETHYL-PORPHINE-2,4,6,7-TETRAPROPIONIC ACID FERROUS COMPLEX(Non-covalent)
FEC.4: 22 residues within 4Å:- Chain A: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, M.57, R.58, A.60, E.61, S.168, K.169
- Chain B: R.20, Y.35, K.50, I.54, M.57, E.61, A.167, S.168
- Ligands: SO4.6
20 PLIP interactions:11 interactions with chain A, 9 interactions with chain B,- Hydrophobic interactions: A:L.24, A:I.27, A:I.27, A:M.31, A:R.58, A:E.61, B:I.54, B:M.57, B:E.61
- Hydrogen bonds: A:Y.35, A:K.169, B:S.168, B:S.168
- Water bridges: A:R.20, A:N.32, B:T.164, B:T.164
- Salt bridges: A:R.20, B:R.20, B:K.50
FEC.13: 22 residues within 4Å:- Chain C: R.20, H.28, M.31, Y.35, K.50, I.54, M.57, R.58, E.61
- Chain D: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, A.167, S.168, K.169
- Ligands: SO4.11
16 PLIP interactions:9 interactions with chain D, 7 interactions with chain C,- Hydrophobic interactions: D:I.27, D:M.31, D:E.61, C:M.31, C:I.54, C:M.57, C:R.58
- Hydrogen bonds: D:S.168, D:S.168, D:K.169, C:Y.35
- Water bridges: D:T.164, C:N.32
- Salt bridges: D:R.20, D:K.50, C:R.20
FEC.19: 22 residues within 4Å:- Chain E: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, S.168, K.169
- Chain F: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, S.168, K.169
- Ligands: SO4.21
21 PLIP interactions:11 interactions with chain F, 10 interactions with chain E,- Hydrophobic interactions: F:I.27, F:M.31, F:E.61, E:I.27, E:M.31, E:M.57, E:E.61
- Hydrogen bonds: F:Y.35, F:T.164, F:S.168, F:S.168, F:K.169, E:Y.35, E:K.169
- Water bridges: F:R.20, E:R.20, E:N.32
- Salt bridges: F:R.20, F:K.50, E:R.20, E:H.28
FEC.25: 23 residues within 4Å:- Chain G: R.20, I.27, H.28, M.31, Y.35, K.50, I.54, M.57, R.58, E.61, A.167, S.168, K.169
- Chain H: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, S.168
- Ligands: SO4.27
16 PLIP interactions:8 interactions with chain H, 8 interactions with chain G,- Hydrophobic interactions: H:I.27, H:E.61, G:I.27, G:M.31, G:I.54, G:R.58, G:E.61
- Hydrogen bonds: H:S.168, H:S.168, G:Y.35, G:K.169
- Water bridges: H:N.32, H:T.164
- Salt bridges: H:R.20, H:K.50, G:R.20
FEC.32: 22 residues within 4Å:- Chain I: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, M.57, R.58, A.60, E.61, S.168, K.169
- Chain J: R.20, Y.35, K.50, I.54, M.57, E.61, A.167, S.168
- Ligands: SO4.34
20 PLIP interactions:9 interactions with chain J, 11 interactions with chain I,- Hydrophobic interactions: J:I.54, J:M.57, J:E.61, I:L.24, I:I.27, I:I.27, I:M.31, I:R.58, I:E.61
- Hydrogen bonds: J:S.168, J:S.168, I:Y.35, I:K.169
- Water bridges: J:T.164, J:T.164, I:R.20, I:N.32
- Salt bridges: J:R.20, J:K.50, I:R.20
FEC.41: 22 residues within 4Å:- Chain K: R.20, H.28, M.31, Y.35, K.50, I.54, M.57, R.58, E.61
- Chain L: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, A.167, S.168, K.169
- Ligands: SO4.39
16 PLIP interactions:7 interactions with chain K, 9 interactions with chain L,- Hydrophobic interactions: K:M.31, K:I.54, K:M.57, K:R.58, L:I.27, L:M.31, L:E.61
- Hydrogen bonds: K:Y.35, L:Y.35, L:S.168, L:S.168, L:K.169
- Water bridges: K:N.32
- Salt bridges: K:R.20, L:R.20, L:K.50
FEC.47: 22 residues within 4Å:- Chain M: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, S.168, K.169
- Chain N: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, S.168, K.169
- Ligands: SO4.49
22 PLIP interactions:11 interactions with chain N, 11 interactions with chain M,- Hydrophobic interactions: N:I.27, N:M.31, N:E.61, M:I.27, M:M.31, M:M.57, M:E.61
- Hydrogen bonds: N:Y.35, N:T.164, N:S.168, N:S.168, N:K.169, M:Y.35, M:Y.35, M:K.169
- Water bridges: N:R.20, M:R.20, M:N.32
- Salt bridges: N:R.20, N:K.50, M:R.20, M:H.28
FEC.53: 23 residues within 4Å:- Chain O: R.20, I.27, H.28, M.31, Y.35, K.50, I.54, M.57, R.58, E.61, A.167, S.168, K.169
- Chain P: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, S.168
- Ligands: SO4.55
17 PLIP interactions:8 interactions with chain P, 9 interactions with chain O,- Hydrophobic interactions: P:I.27, P:E.61, O:I.27, O:M.31, O:I.54, O:R.58, O:E.61
- Hydrogen bonds: P:Y.35, P:S.168, P:S.168, O:Y.35, O:Y.35, O:K.169
- Water bridges: P:N.32
- Salt bridges: P:R.20, P:K.50, O:R.20
FEC.60: 22 residues within 4Å:- Chain Q: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, M.57, R.58, A.60, E.61, S.168, K.169
- Chain R: R.20, Y.35, K.50, I.54, M.57, E.61, A.167, S.168
- Ligands: SO4.62
19 PLIP interactions:8 interactions with chain R, 11 interactions with chain Q,- Hydrophobic interactions: R:I.54, R:M.57, R:E.61, Q:L.24, Q:I.27, Q:I.27, Q:M.31, Q:R.58, Q:E.61
- Hydrogen bonds: R:Y.35, R:S.168, R:S.168, Q:Y.35, Q:K.169
- Salt bridges: R:R.20, R:K.50, Q:R.20
- Water bridges: Q:R.20, Q:N.32
FEC.69: 22 residues within 4Å:- Chain S: R.20, H.28, M.31, Y.35, K.50, I.54, M.57, R.58, E.61
- Chain T: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, A.167, S.168, K.169
- Ligands: SO4.67
17 PLIP interactions:8 interactions with chain S, 9 interactions with chain T,- Hydrophobic interactions: S:M.31, S:I.54, S:M.57, S:R.58, T:I.27, T:M.31, T:E.61
- Hydrogen bonds: S:Y.35, S:Y.35, T:Y.35, T:S.168, T:S.168, T:K.169
- Water bridges: S:N.32
- Salt bridges: S:R.20, T:R.20, T:K.50
FEC.75: 22 residues within 4Å:- Chain U: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, S.168, K.169
- Chain V: R.20, L.24, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, S.168, K.169
- Ligands: SO4.77
22 PLIP interactions:11 interactions with chain U, 11 interactions with chain V,- Hydrophobic interactions: U:I.27, U:M.31, U:M.57, U:E.61, V:I.27, V:M.31, V:E.61
- Hydrogen bonds: U:Y.35, U:Y.35, U:K.169, V:Y.35, V:T.164, V:S.168, V:S.168, V:K.169
- Water bridges: U:R.20, U:N.32, V:R.20
- Salt bridges: U:R.20, U:H.28, V:R.20, V:K.50
FEC.81: 23 residues within 4Å:- Chain W: R.20, I.27, H.28, M.31, Y.35, K.50, I.54, M.57, R.58, E.61, A.167, S.168, K.169
- Chain X: R.20, I.27, H.28, M.31, Y.35, K.50, M.57, E.61, S.168
- Ligands: SO4.83
16 PLIP interactions:8 interactions with chain W, 8 interactions with chain X,- Hydrophobic interactions: W:I.27, W:M.31, W:I.54, W:R.58, W:E.61, X:I.27, X:E.61
- Hydrogen bonds: W:Y.35, W:K.169, X:Y.35, X:S.168, X:S.168
- Salt bridges: W:R.20, X:R.20, X:K.50
- Water bridges: X:N.32
- 3 x GOL: GLYCEROL(Non-functional Binders)
GOL.28: 7 residues within 4Å:- Chain E: E.104
- Chain H: R.5, R.8, K.9, V.12, G.117, D.118
4 PLIP interactions:4 interactions with chain H- Hydrogen bonds: H:R.5, H:R.5, H:D.118, H:D.118
GOL.56: 7 residues within 4Å:- Chain M: E.104
- Chain P: R.5, R.8, K.9, V.12, G.117, D.118
3 PLIP interactions:3 interactions with chain P- Hydrogen bonds: P:R.5, P:R.5, P:D.118
GOL.84: 7 residues within 4Å:- Chain U: E.104
- Chain X: R.5, R.8, K.9, V.12, G.117, D.118
4 PLIP interactions:4 interactions with chain X- Hydrogen bonds: X:R.5, X:R.5, X:D.118, X:D.118
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Macedo, S. et al., The nature of the di-iron site in the bacterioferritin fromDesulfovibrio desulfuricans. NAT.STRUCT.BIOL. (2003)
- Release Date
- 2003-04-01
- Peptides
- bacterioferritin: ABCDEFGHIJKLMNOPQRSTUVWX
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
CB
DC
ED
FE
KF
LG
OH
PI
CJ
DK
EL
FM
KN
LO
OP
PQ
CR
DS
ET
FU
KV
LW
OX
P
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.35 Å
- Oligo State
- homo-24-mer
- Ligands
- 24 x FE: FE (III) ION(Non-covalent)
- 45 x SO4: SULFATE ION(Non-functional Binders)
- 12 x FEC: 1,3,5,8-TETRAMETHYL-PORPHINE-2,4,6,7-TETRAPROPIONIC ACID FERROUS COMPLEX(Non-covalent)
- 3 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Macedo, S. et al., The nature of the di-iron site in the bacterioferritin fromDesulfovibrio desulfuricans. NAT.STRUCT.BIOL. (2003)
- Release Date
- 2003-04-01
- Peptides
- bacterioferritin: ABCDEFGHIJKLMNOPQRSTUVWX
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
CB
DC
ED
FE
KF
LG
OH
PI
CJ
DK
EL
FM
KN
LO
OP
PQ
CR
DS
ET
FU
KV
LW
OX
P