SMTL ID : 1sq3.1

Crystal structures of a novel open pore ferritin from the hyperthermophilic Archaeon Archaeoglobus fulgidus.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-24-mer

Ligands

72 x FE: FE (III) ION(Non-covalent)

FE.1: 4 residues within 4Å: Chain A: E.19, E.52, H.55 Ligands: FE.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.19, A:E.52, A:H.55, H2O.1 FE.2: 4 residues within 4Å: Chain A: E.52, E.96, E.132 Ligands: FE.1 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.52, A:E.96, A:E.96, A:E.132, H2O.1 FE.3: 4 residues within 4Å: Chain A: E.51, E.128, E.131, E.132 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.51, A:E.128, A:E.131, A:E.132, H2O.1 FE.4: 5 residues within 4Å: Chain B: E.19, E.52, H.55, Q.129 Ligands: FE.5 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.19, B:E.52, B:H.55 FE.5: 5 residues within 4Å: Chain B: E.52, E.96, Q.129, E.132 Ligands: FE.4 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.52, B:E.52, B:E.96, B:E.96, B:E.132 FE.6: 4 residues within 4Å: Chain B: E.51, E.128, E.131, E.132 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.51, B:E.128, B:E.131, B:E.132 FE.7: 5 residues within 4Å: Chain C: E.19, E.52, H.55, Q.129 Ligands: FE.8 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.19, C:E.52, C:H.55, H2O.3 FE.8: 5 residues within 4Å: Chain C: E.52, E.96, Q.129, E.132 Ligands: FE.7 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:E.52, C:E.96, C:E.96, C:E.132 FE.9: 4 residues within 4Å: Chain C: E.51, E.128, E.131, E.132 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.51, C:E.128, C:E.131, C:E.132, H2O.3 FE.10: 5 residues within 4Å: Chain D: E.19, E.52, H.55, Q.129 Ligands: FE.11 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.19, D:E.52, D:H.55, H2O.4 FE.11: 5 residues within 4Å: Chain D: E.52, E.96, Q.129, E.132 Ligands: FE.10 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:E.52, D:E.96, D:E.96, D:E.132 FE.12: 4 residues within 4Å: Chain D: E.51, E.128, E.131, E.132 6 PLIP interactions: 4 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:E.51, D:E.128, D:E.131, D:E.132, H2O.4, H2O.4 FE.13: 5 residues within 4Å: Chain E: E.19, E.52, H.55, Q.129 Ligands: FE.14 4 PLIP interactions: 3 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:E.19, E:E.52, E:H.55, H2O.6 FE.14: 4 residues within 4Å: Chain E: E.52, E.96, E.132 Ligands: FE.13 5 PLIP interactions: 4 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:E.52, E:E.96, E:E.96, E:E.132, H2O.6 FE.15: 4 residues within 4Å: Chain E: E.51, E.128, E.131, E.132 5 PLIP interactions: 4 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:E.51, E:E.128, E:E.131, E:E.132, H2O.5 FE.16: 4 residues within 4Å: Chain F: E.19, E.52, H.55 Ligands: FE.17 4 PLIP interactions: 3 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:E.19, F:E.52, F:H.55, H2O.9 FE.17: 4 residues within 4Å: Chain F: E.52, E.96, E.132 Ligands: FE.16 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:E.52, F:E.96, F:E.96, F:E.132 FE.18: 4 residues within 4Å: Chain F: E.51, E.128, E.131, E.132 5 PLIP interactions: 3 interactions with chain F, 2 Ligand-Water interactions Metal complexes: F:E.51, F:E.128, F:E.132, H2O.8, H2O.9 FE.19: 5 residues within 4Å: Chain G: E.19, E.52, H.55, Q.129 Ligands: FE.20 4 PLIP interactions: 3 interactions with chain G, 1 Ligand-Water interactions Metal complexes: G:E.19, G:E.52, G:H.55, H2O.11 FE.20: 5 residues within 4Å: Chain G: E.52, E.96, Q.129, E.132 Ligands: FE.19 5 PLIP interactions: 5 interactions with chain G Metal complexes: G:E.52, G:E.52, G:E.96, G:E.96, G:E.132 FE.21: 4 residues within 4Å: Chain G: E.51, E.128, E.131, E.132 6 PLIP interactions: 4 interactions with chain G, 2 Ligand-Water interactions Metal complexes: G:E.51, G:E.128, G:E.131, G:E.132, H2O.10, H2O.10 FE.22: 5 residues within 4Å: Chain H: E.19, E.52, H.55, Q.129 Ligands: FE.23 3 PLIP interactions: 3 interactions with chain H Metal complexes: H:E.19, H:E.52, H:H.55 FE.23: 5 residues within 4Å: Chain H: E.52, E.96, Q.129, E.132 Ligands: FE.22 5 PLIP interactions: 5 interactions with chain H Metal complexes: H:E.52, H:E.52, H:E.96, H:E.96, H:E.132 FE.24: 4 residues within 4Å: Chain H: E.51, E.128, E.131, E.132 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:E.51, H:E.128, H:E.131, H:E.132 FE.25: 5 residues within 4Å: Chain I: E.19, E.52, H.55, Q.129 Ligands: FE.26 3 PLIP interactions: 3 interactions with chain I Metal complexes: I:E.19, I:E.52, I:H.55 FE.26: 5 residues within 4Å: Chain I: E.52, E.96, Q.129, E.132 Ligands: FE.25 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:E.52, I:E.96, I:E.96, I:E.132 FE.27: 4 residues within 4Å: Chain I: E.51, E.128, E.131, E.132 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:E.51, I:E.128, I:E.131, I:E.132 FE.28: 5 residues within 4Å: Chain J: E.19, E.52, H.55, Q.129 Ligands: FE.29 3 PLIP interactions: 3 interactions with chain J Metal complexes: J:E.19, J:E.52, J:H.55 FE.29: 5 residues within 4Å: Chain J: E.52, E.96, Q.129, E.132 Ligands: FE.28 4 PLIP interactions: 4 interactions with chain J Metal complexes: J:E.52, J:E.96, J:E.96, J:E.132 FE.30: 4 residues within 4Å: Chain J: E.51, E.128, E.131, E.132 5 PLIP interactions: 4 interactions with chain J, 1 Ligand-Water interactions Metal complexes: J:E.51, J:E.128, J:E.131, J:E.132, H2O.14 FE.31: 4 residues within 4Å: Chain K: E.19, E.52, H.55 Ligands: FE.32 5 PLIP interactions: 3 interactions with chain K, 2 Ligand-Water interactions Metal complexes: K:E.19, K:E.52, K:H.55, H2O.16, H2O.18 FE.32: 4 residues within 4Å: Chain K: E.52, E.96, E.132 Ligands: FE.31 5 PLIP interactions: 4 interactions with chain K, 1 Ligand-Water interactions Metal complexes: K:E.52, K:E.96, K:E.96, K:E.132, H2O.18 FE.33: 4 residues within 4Å: Chain K: E.51, E.128, E.131, E.132 6 PLIP interactions: 4 interactions with chain K, 2 Ligand-Water interactions Metal complexes: K:E.51, K:E.128, K:E.131, K:E.132, H2O.15, H2O.16 FE.34: 5 residues within 4Å: Chain L: E.19, E.52, H.55, Q.129 Ligands: FE.35 4 PLIP interactions: 3 interactions with chain L, 1 Ligand-Water interactions Metal complexes: L:E.19, L:E.52, L:H.55, H2O.18 FE.35: 5 residues within 4Å: Chain L: E.52, E.96, Q.129, E.132 Ligands: FE.34 4 PLIP interactions: 4 interactions with chain L Metal complexes: L:E.52, L:E.96, L:E.96, L:E.132 FE.36: 4 residues within 4Å: Chain L: E.51, E.128, E.131, E.132 5 PLIP interactions: 4 interactions with chain L, 1 Ligand-Water interactions Metal complexes: L:E.51, L:E.128, L:E.131, L:E.132, H2O.20 FE.37: 4 residues within 4Å: Chain M: E.19, E.52, H.55 Ligands: FE.38 4 PLIP interactions: 3 interactions with chain M, 1 Ligand-Water interactions Metal complexes: M:E.19, M:E.52, M:H.55, H2O.21 FE.38: 4 residues within 4Å: Chain M: E.52, E.96, E.132 Ligands: FE.37 5 PLIP interactions: 4 interactions with chain M, 1 Ligand-Water interactions Metal complexes: M:E.52, M:E.96, M:E.96, M:E.132, H2O.21 FE.39: 4 residues within 4Å: Chain M: E.51, E.128, E.131, E.132 5 PLIP interactions: 4 interactions with chain M, 1 Ligand-Water interactions Metal complexes: M:E.51, M:E.128, M:E.131, M:E.132, H2O.21 FE.40: 5 residues within 4Å: Chain N: E.19, E.52, H.55, Q.129 Ligands: FE.41 3 PLIP interactions: 3 interactions with chain N Metal complexes: N:E.19, N:E.52, N:H.55 FE.41: 5 residues within 4Å: Chain N: E.52, E.96, Q.129, E.132 Ligands: FE.40 5 PLIP interactions: 5 interactions with chain N Metal complexes: N:E.52, N:E.52, N:E.96, N:E.96, N:E.132 FE.42: 4 residues within 4Å: Chain N: E.51, E.128, E.131, E.132 4 PLIP interactions: 4 interactions with chain N Metal complexes: N:E.51, N:E.128, N:E.131, N:E.132 FE.43: 5 residues within 4Å: Chain O: E.19, E.52, H.55, Q.129 Ligands: FE.44 4 PLIP interactions: 3 interactions with chain O, 1 Ligand-Water interactions Metal complexes: O:E.19, O:E.52, O:H.55, H2O.23 FE.44: 5 residues within 4Å: Chain O: E.52, E.96, Q.129, E.132 Ligands: FE.43 4 PLIP interactions: 4 interactions with chain O Metal complexes: O:E.52, O:E.96, O:E.96, O:E.132 FE.45: 4 residues within 4Å: Chain O: E.51, E.128, E.131, E.132 5 PLIP interactions: 4 interactions with chain O, 1 Ligand-Water interactions Metal complexes: O:E.51, O:E.128, O:E.131, O:E.132, H2O.23 FE.46: 5 residues within 4Å: Chain P: E.19, E.52, H.55, Q.129 Ligands: FE.47 4 PLIP interactions: 3 interactions with chain P, 1 Ligand-Water interactions Metal complexes: P:E.19, P:E.52, P:H.55, H2O.24 FE.47: 5 residues within 4Å: Chain P: E.52, E.96, Q.129, E.132 Ligands: FE.46 4 PLIP interactions: 4 interactions with chain P Metal complexes: P:E.52, P:E.96, P:E.96, P:E.132 FE.48: 4 residues within 4Å: Chain P: E.51, E.128, E.131, E.132 6 PLIP interactions: 4 interactions with chain P, 2 Ligand-Water interactions Metal complexes: P:E.51, P:E.128, P:E.131, P:E.132, H2O.23, H2O.23 FE.49: 5 residues within 4Å: Chain Q: E.19, E.52, H.55, Q.129 Ligands: FE.50 4 PLIP interactions: 3 interactions with chain Q, 1 Ligand-Water interactions Metal complexes: Q:E.19, Q:E.52, Q:H.55, H2O.25 FE.50: 4 residues within 4Å: Chain Q: E.52, E.96, E.132 Ligands: FE.49 5 PLIP interactions: 4 interactions with chain Q, 1 Ligand-Water interactions Metal complexes: Q:E.52, Q:E.96, Q:E.96, Q:E.132, H2O.25 FE.51: 4 residues within 4Å: Chain Q: E.51, E.128, E.131, E.132 5 PLIP interactions: 4 interactions with chain Q, 1 Ligand-Water interactions Metal complexes: Q:E.51, Q:E.128, Q:E.131, Q:E.132, H2O.25 FE.52: 4 residues within 4Å: Chain R: E.19, E.52, H.55 Ligands: FE.53 4 PLIP interactions: 3 interactions with chain R, 1 Ligand-Water interactions Metal complexes: R:E.19, R:E.52, R:H.55, H2O.28 FE.53: 4 residues within 4Å: Chain R: E.52, E.96, E.132 Ligands: FE.52 4 PLIP interactions: 4 interactions with chain R Metal complexes: R:E.52, R:E.96, R:E.96, R:E.132 FE.54: 4 residues within 4Å: Chain R: E.51, E.128, E.131, E.132 5 PLIP interactions: 3 interactions with chain R, 2 Ligand-Water interactions Metal complexes: R:E.51, R:E.128, R:E.132, H2O.28, H2O.28 FE.55: 5 residues within 4Å: Chain S: E.19, E.52, H.55, Q.129 Ligands: FE.56 4 PLIP interactions: 3 interactions with chain S, 1 Ligand-Water interactions Metal complexes: S:E.19, S:E.52, S:H.55, H2O.30 FE.56: 5 residues within 4Å: Chain S: E.52, E.96, Q.129, E.132 Ligands: FE.55 5 PLIP interactions: 5 interactions with chain S Metal complexes: S:E.52, S:E.52, S:E.96, S:E.96, S:E.132 FE.57: 4 residues within 4Å: Chain S: E.51, E.128, E.131, E.132 6 PLIP interactions: 4 interactions with chain S, 2 Ligand-Water interactions Metal complexes: S:E.51, S:E.128, S:E.131, S:E.132, H2O.30, H2O.30 FE.58: 5 residues within 4Å: Chain T: E.19, E.52, H.55, Q.129 Ligands: FE.59 3 PLIP interactions: 3 interactions with chain T Metal complexes: T:E.19, T:E.52, T:H.55 FE.59: 5 residues within 4Å: Chain T: E.52, E.96, Q.129, E.132 Ligands: FE.58 5 PLIP interactions: 5 interactions with chain T Metal complexes: T:E.52, T:E.52, T:E.96, T:E.96, T:E.132 FE.60: 4 residues within 4Å: Chain T: E.51, E.128, E.131, E.132 4 PLIP interactions: 4 interactions with chain T Metal complexes: T:E.51, T:E.128, T:E.131, T:E.132 FE.61: 5 residues within 4Å: Chain U: E.19, E.52, H.55, Q.129 Ligands: FE.62 3 PLIP interactions: 3 interactions with chain U Metal complexes: U:E.19, U:E.52, U:H.55 FE.62: 5 residues within 4Å: Chain U: E.52, E.96, Q.129, E.132 Ligands: FE.61 4 PLIP interactions: 4 interactions with chain U Metal complexes: U:E.52, U:E.96, U:E.96, U:E.132 FE.63: 4 residues within 4Å: Chain U: E.51, E.128, E.131, E.132 4 PLIP interactions: 4 interactions with chain U Metal complexes: U:E.51, U:E.128, U:E.131, U:E.132 FE.64: 5 residues within 4Å: Chain V: E.19, E.52, H.55, Q.129 Ligands: FE.65 3 PLIP interactions: 3 interactions with chain V Metal complexes: V:E.19, V:E.52, V:H.55 FE.65: 5 residues within 4Å: Chain V: E.52, E.96, Q.129, E.132 Ligands: FE.64 4 PLIP interactions: 4 interactions with chain V Metal complexes: V:E.52, V:E.96, V:E.96, V:E.132 FE.66: 4 residues within 4Å: Chain V: E.51, E.128, E.131, E.132 5 PLIP interactions: 4 interactions with chain V, 1 Ligand-Water interactions Metal complexes: V:E.51, V:E.128, V:E.131, V:E.132, H2O.34 FE.67: 4 residues within 4Å: Chain W: E.19, E.52, H.55 Ligands: FE.68 5 PLIP interactions: 3 interactions with chain W, 2 Ligand-Water interactions Metal complexes: W:E.19, W:E.52, W:H.55, H2O.36, H2O.37 FE.68: 4 residues within 4Å: Chain W: E.52, E.96, E.132 Ligands: FE.67 5 PLIP interactions: 4 interactions with chain W, 1 Ligand-Water interactions Metal complexes: W:E.52, W:E.96, W:E.96, W:E.132, H2O.37 FE.69: 4 residues within 4Å: Chain W: E.51, E.128, E.131, E.132 6 PLIP interactions: 4 interactions with chain W, 2 Ligand-Water interactions Metal complexes: W:E.51, W:E.128, W:E.131, W:E.132, H2O.35, H2O.35 FE.70: 5 residues within 4Å: Chain X: E.19, E.52, H.55, Q.129 Ligands: FE.71 4 PLIP interactions: 3 interactions with chain X, 1 Ligand-Water interactions Metal complexes: X:E.19, X:E.52, X:H.55, H2O.38 FE.71: 5 residues within 4Å: Chain X: E.52, E.96, Q.129, E.132 Ligands: FE.70 4 PLIP interactions: 4 interactions with chain X Metal complexes: X:E.52, X:E.96, X:E.96, X:E.132 FE.72: 4 residues within 4Å: Chain X: E.51, E.128, E.131, E.132 5 PLIP interactions: 4 interactions with chain X, 1 Ligand-Water interactions Metal complexes: X:E.51, X:E.128, X:E.131, X:E.132, H2O.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Johnson, E. et al., Crystal structures of a tetrahedral open pore ferritin from the hyperthermophilic archaeon Archaeoglobus fulgidus. Structure (2005)

Release Date

2005-04-12

Peptides

ferritin: ABCDEFGHIJKLMNOPQRSTUVWX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

M
A

N
B

O
C

P
D

Q
E

R
F

S
G

T
H

U
I

V
J

W
K

X
L

ferritin

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