SMTL ID : 2jd8.2 (1 other biounit)

Crystal Structure of the Zn-soaked Ferritin from the Hyperthermophilic Archaeal Anaerobe Pyrococcus furiosus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-24-mer

Ligands

48 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: E.17, E.50, H.53, Q.127 Ligands: ZN.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.17, A:E.50, A:H.53 ZN.2: 7 residues within 4Å: Chain A: Q.46, E.50, H.53, E.94, Q.127, E.130 Ligands: ZN.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.50, A:E.94, A:E.94, A:E.130 ZN.6: 5 residues within 4Å: Chain B: E.17, E.50, H.53, Q.127 Ligands: ZN.7 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.17, B:E.50, B:H.53 ZN.7: 6 residues within 4Å: Chain B: Q.46, E.50, E.94, Q.127, E.130 Ligands: ZN.6 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.50, B:E.94, B:E.94, B:E.130 ZN.11: 5 residues within 4Å: Chain C: E.17, E.50, H.53, Q.127 Ligands: ZN.12 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:E.17, C:E.50, C:H.53 ZN.12: 6 residues within 4Å: Chain C: E.50, H.53, E.94, Q.127, E.130 Ligands: ZN.11 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:E.50, C:E.94, C:E.94 ZN.16: 5 residues within 4Å: Chain D: E.17, E.50, H.53, Q.127 Ligands: ZN.17 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:E.17, D:E.50, D:H.53 ZN.17: 6 residues within 4Å: Chain D: E.50, H.53, E.94, Q.127, E.130 Ligands: ZN.16 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:E.50, D:E.94, D:E.94 ZN.20: 5 residues within 4Å: Chain E: E.17, E.50, H.53, Q.127 Ligands: ZN.21 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:E.17, E:E.50, E:H.53 ZN.21: 6 residues within 4Å: Chain E: E.50, H.53, E.94, Q.127, E.130 Ligands: ZN.20 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:E.50, E:E.94, E:E.94, E:E.130 ZN.24: 5 residues within 4Å: Chain F: E.17, E.50, H.53, Q.127 Ligands: ZN.25 3 PLIP interactions: 3 interactions with chain F Metal complexes: F:E.17, F:E.50, F:H.53 ZN.25: 5 residues within 4Å: Chain F: E.50, E.94, Q.127, E.130 Ligands: ZN.24 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:E.50, F:E.94, F:E.94, F:E.130 ZN.28: 4 residues within 4Å: Chain G: E.17, E.50, H.53 Ligands: ZN.29 3 PLIP interactions: 3 interactions with chain G Metal complexes: G:E.17, G:E.50, G:H.53 ZN.29: 6 residues within 4Å: Chain G: E.50, H.53, E.94, Q.127, E.130 Ligands: ZN.28 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:E.50, G:E.94, G:E.94, G:E.130 ZN.33: 5 residues within 4Å: Chain H: E.17, E.50, H.53, Q.127 Ligands: ZN.34 3 PLIP interactions: 3 interactions with chain H Metal complexes: H:E.17, H:E.50, H:H.53 ZN.34: 6 residues within 4Å: Chain H: E.50, H.53, E.94, Q.127, E.130 Ligands: ZN.33 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:E.50, H:E.94, H:E.94, H:E.130 ZN.37: 5 residues within 4Å: Chain I: E.17, E.50, H.53, Q.127 Ligands: ZN.38 3 PLIP interactions: 3 interactions with chain I Metal complexes: I:E.17, I:E.50, I:H.53 ZN.38: 7 residues within 4Å: Chain I: Q.46, E.50, H.53, E.94, Q.127, E.130 Ligands: ZN.37 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:E.50, I:E.94, I:E.94, I:E.130 ZN.40: 5 residues within 4Å: Chain J: E.17, E.50, H.53, Q.127 Ligands: ZN.41 3 PLIP interactions: 3 interactions with chain J Metal complexes: J:E.17, J:E.50, J:H.53 ZN.41: 5 residues within 4Å: Chain J: E.50, E.94, Q.127, E.130 Ligands: ZN.40 5 PLIP interactions: 5 interactions with chain J Metal complexes: J:E.50, J:E.50, J:E.94, J:E.94, J:E.130 ZN.45: 5 residues within 4Å: Chain K: E.17, E.50, H.53, Q.127 Ligands: ZN.46 3 PLIP interactions: 3 interactions with chain K Metal complexes: K:E.17, K:E.50, K:H.53 ZN.46: 6 residues within 4Å: Chain K: Q.46, E.50, E.94, Q.127, E.130 Ligands: ZN.45 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:E.50, K:E.94, K:E.94, K:E.130 ZN.51: 5 residues within 4Å: Chain L: E.17, E.50, H.53, Q.127 Ligands: ZN.52 3 PLIP interactions: 3 interactions with chain L Metal complexes: L:E.17, L:E.50, L:H.53 ZN.52: 6 residues within 4Å: Chain L: E.50, H.53, E.94, Q.127, E.130 Ligands: ZN.51 5 PLIP interactions: 5 interactions with chain L Metal complexes: L:E.50, L:E.50, L:E.94, L:E.94, L:E.130 ZN.55: 5 residues within 4Å: Chain M: E.17, E.50, H.53, Q.127 Ligands: ZN.56 3 PLIP interactions: 3 interactions with chain M Metal complexes: M:E.17, M:E.50, M:H.53 ZN.56: 7 residues within 4Å: Chain M: Q.46, E.50, H.53, E.94, Q.127, E.130 Ligands: ZN.55 4 PLIP interactions: 4 interactions with chain M Metal complexes: M:E.50, M:E.94, M:E.94, M:E.130 ZN.60: 5 residues within 4Å: Chain N: E.17, E.50, H.53, Q.127 Ligands: ZN.61 3 PLIP interactions: 3 interactions with chain N Metal complexes: N:E.17, N:E.50, N:H.53 ZN.61: 6 residues within 4Å: Chain N: Q.46, E.50, E.94, Q.127, E.130 Ligands: ZN.60 4 PLIP interactions: 4 interactions with chain N Metal complexes: N:E.50, N:E.94, N:E.94, N:E.130 ZN.65: 5 residues within 4Å: Chain O: E.17, E.50, H.53, Q.127 Ligands: ZN.66 3 PLIP interactions: 3 interactions with chain O Metal complexes: O:E.17, O:E.50, O:H.53 ZN.66: 6 residues within 4Å: Chain O: E.50, H.53, E.94, Q.127, E.130 Ligands: ZN.65 3 PLIP interactions: 3 interactions with chain O Metal complexes: O:E.50, O:E.94, O:E.94 ZN.70: 5 residues within 4Å: Chain P: E.17, E.50, H.53, Q.127 Ligands: ZN.71 3 PLIP interactions: 3 interactions with chain P Metal complexes: P:E.17, P:E.50, P:H.53 ZN.71: 6 residues within 4Å: Chain P: E.50, H.53, E.94, Q.127, E.130 Ligands: ZN.70 3 PLIP interactions: 3 interactions with chain P Metal complexes: P:E.50, P:E.94, P:E.94 ZN.74: 5 residues within 4Å: Chain Q: E.17, E.50, H.53, Q.127 Ligands: ZN.75 3 PLIP interactions: 3 interactions with chain Q Metal complexes: Q:E.17, Q:E.50, Q:H.53 ZN.75: 6 residues within 4Å: Chain Q: E.50, H.53, E.94, Q.127, E.130 Ligands: ZN.74 4 PLIP interactions: 4 interactions with chain Q Metal complexes: Q:E.50, Q:E.94, Q:E.94, Q:E.130 ZN.78: 5 residues within 4Å: Chain R: E.17, E.50, H.53, Q.127 Ligands: ZN.79 3 PLIP interactions: 3 interactions with chain R Metal complexes: R:E.17, R:E.50, R:H.53 ZN.79: 5 residues within 4Å: Chain R: E.50, E.94, Q.127, E.130 Ligands: ZN.78 4 PLIP interactions: 4 interactions with chain R Metal complexes: R:E.50, R:E.94, R:E.94, R:E.130 ZN.82: 4 residues within 4Å: Chain S: E.17, E.50, H.53 Ligands: ZN.83 3 PLIP interactions: 3 interactions with chain S Metal complexes: S:E.17, S:E.50, S:H.53 ZN.83: 6 residues within 4Å: Chain S: E.50, H.53, E.94, Q.127, E.130 Ligands: ZN.82 4 PLIP interactions: 4 interactions with chain S Metal complexes: S:E.50, S:E.94, S:E.94, S:E.130 ZN.87: 5 residues within 4Å: Chain T: E.17, E.50, H.53, Q.127 Ligands: ZN.88 3 PLIP interactions: 3 interactions with chain T Metal complexes: T:E.17, T:E.50, T:H.53 ZN.88: 6 residues within 4Å: Chain T: E.50, H.53, E.94, Q.127, E.130 Ligands: ZN.87 4 PLIP interactions: 4 interactions with chain T Metal complexes: T:E.50, T:E.94, T:E.94, T:E.130 ZN.91: 5 residues within 4Å: Chain U: E.17, E.50, H.53, Q.127 Ligands: ZN.92 3 PLIP interactions: 3 interactions with chain U Metal complexes: U:E.17, U:E.50, U:H.53 ZN.92: 7 residues within 4Å: Chain U: Q.46, E.50, H.53, E.94, Q.127, E.130 Ligands: ZN.91 4 PLIP interactions: 4 interactions with chain U Metal complexes: U:E.50, U:E.94, U:E.94, U:E.130 ZN.94: 5 residues within 4Å: Chain V: E.17, E.50, H.53, Q.127 Ligands: ZN.95 3 PLIP interactions: 3 interactions with chain V Metal complexes: V:E.17, V:E.50, V:H.53 ZN.95: 5 residues within 4Å: Chain V: E.50, E.94, Q.127, E.130 Ligands: ZN.94 5 PLIP interactions: 5 interactions with chain V Metal complexes: V:E.50, V:E.50, V:E.94, V:E.94, V:E.130 ZN.99: 5 residues within 4Å: Chain W: E.17, E.50, H.53, Q.127 Ligands: ZN.100 3 PLIP interactions: 3 interactions with chain W Metal complexes: W:E.17, W:E.50, W:H.53 ZN.100: 6 residues within 4Å: Chain W: Q.46, E.50, E.94, Q.127, E.130 Ligands: ZN.99 4 PLIP interactions: 4 interactions with chain W Metal complexes: W:E.50, W:E.94, W:E.94, W:E.130 ZN.105: 5 residues within 4Å: Chain X: E.17, E.50, H.53, Q.127 Ligands: ZN.106 3 PLIP interactions: 3 interactions with chain X Metal complexes: X:E.17, X:E.50, X:H.53 ZN.106: 6 residues within 4Å: Chain X: E.50, H.53, E.94, Q.127, E.130 Ligands: ZN.105 5 PLIP interactions: 5 interactions with chain X Metal complexes: X:E.50, X:E.50, X:E.94, X:E.94, X:E.130

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

FE.3: 4 residues within 4Å: Chain A: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.49, A:E.126, A:E.129, A:E.130 FE.8: 4 residues within 4Å: Chain B: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.49, B:E.126, B:E.129, B:E.130 FE.13: 4 residues within 4Å: Chain C: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:E.49, C:E.126, C:E.129, C:E.130 FE.18: 4 residues within 4Å: Chain D: E.49, E.126, E.129, E.130 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:E.49, D:E.49, D:E.126, D:E.129, D:E.130 FE.22: 4 residues within 4Å: Chain E: E.49, E.126, E.129, E.130 5 PLIP interactions: 5 interactions with chain E Metal complexes: E:E.49, E:E.126, E:E.129, E:E.129, E:E.130 FE.26: 4 residues within 4Å: Chain F: E.49, E.126, E.129, E.130 5 PLIP interactions: 5 interactions with chain F Metal complexes: F:E.49, F:E.49, F:E.126, F:E.129, F:E.130 FE.30: 4 residues within 4Å: Chain G: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:E.49, G:E.126, G:E.129, G:E.130 FE.35: 4 residues within 4Å: Chain H: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:E.49, H:E.126, H:E.129, H:E.130 FE.39: 4 residues within 4Å: Chain I: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:E.49, I:E.126, I:E.129, I:E.130 FE.42: 4 residues within 4Å: Chain J: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain J Metal complexes: J:E.49, J:E.126, J:E.129, J:E.130 FE.47: 4 residues within 4Å: Chain K: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:E.49, K:E.126, K:E.129, K:E.130 FE.53: 4 residues within 4Å: Chain L: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain L Metal complexes: L:E.49, L:E.126, L:E.129, L:E.130 FE.57: 4 residues within 4Å: Chain M: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain M Metal complexes: M:E.49, M:E.126, M:E.129, M:E.130 FE.62: 4 residues within 4Å: Chain N: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain N Metal complexes: N:E.49, N:E.126, N:E.129, N:E.130 FE.67: 4 residues within 4Å: Chain O: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain O Metal complexes: O:E.49, O:E.126, O:E.129, O:E.130 FE.72: 4 residues within 4Å: Chain P: E.49, E.126, E.129, E.130 5 PLIP interactions: 5 interactions with chain P Metal complexes: P:E.49, P:E.49, P:E.126, P:E.129, P:E.130 FE.76: 4 residues within 4Å: Chain Q: E.49, E.126, E.129, E.130 5 PLIP interactions: 5 interactions with chain Q Metal complexes: Q:E.49, Q:E.126, Q:E.129, Q:E.129, Q:E.130 FE.80: 4 residues within 4Å: Chain R: E.49, E.126, E.129, E.130 5 PLIP interactions: 5 interactions with chain R Metal complexes: R:E.49, R:E.49, R:E.126, R:E.129, R:E.130 FE.84: 4 residues within 4Å: Chain S: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain S Metal complexes: S:E.49, S:E.126, S:E.129, S:E.130 FE.89: 4 residues within 4Å: Chain T: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain T Metal complexes: T:E.49, T:E.126, T:E.129, T:E.130 FE.93: 4 residues within 4Å: Chain U: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain U Metal complexes: U:E.49, U:E.126, U:E.129, U:E.130 FE.96: 4 residues within 4Å: Chain V: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain V Metal complexes: V:E.49, V:E.126, V:E.129, V:E.130 FE.101: 4 residues within 4Å: Chain W: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain W Metal complexes: W:E.49, W:E.126, W:E.129, W:E.130 FE.107: 4 residues within 4Å: Chain X: E.49, E.126, E.129, E.130 4 PLIP interactions: 4 interactions with chain X Metal complexes: X:E.49, X:E.126, X:E.129, X:E.130

36 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 2 residues within 4Å: Chain A: K.135 Chain C: N.65 Ligand excluded by PLIP SO4.5: 2 residues within 4Å: Chain A: R.16, F.96 Ligand excluded by PLIP SO4.9: 3 residues within 4Å: Chain B: K.135, D.139 Chain E: N.65 Ligand excluded by PLIP SO4.10: 3 residues within 4Å: Chain B: R.5, L.107, E.110 Ligand excluded by PLIP SO4.14: 2 residues within 4Å: Chain C: K.135 Chain D: N.65 Ligand excluded by PLIP SO4.15: 3 residues within 4Å: Chain C: D.71, E.72 Chain I: K.75 Ligand excluded by PLIP SO4.19: 3 residues within 4Å: Chain A: N.65 Chain D: K.135, K.142 Ligand excluded by PLIP SO4.23: 2 residues within 4Å: Chain E: R.16, F.96 Ligand excluded by PLIP SO4.27: 3 residues within 4Å: Chain F: D.71, E.72 Chain L: K.75 Ligand excluded by PLIP SO4.31: 3 residues within 4Å: Chain G: K.135, D.139 Chain L: N.65 Ligand excluded by PLIP SO4.32: 2 residues within 4Å: Chain G: R.16, F.96 Ligand excluded by PLIP SO4.36: 2 residues within 4Å: Chain H: R.16, F.96 Ligand excluded by PLIP SO4.43: 2 residues within 4Å: Chain J: K.135 Chain U: N.65 Ligand excluded by PLIP SO4.44: 2 residues within 4Å: Chain J: S.3, E.4 Ligand excluded by PLIP SO4.48: 3 residues within 4Å: Chain K: E.4, R.5, K.8 Ligand excluded by PLIP SO4.49: 2 residues within 4Å: Chain K: R.56, W.122 Ligand excluded by PLIP SO4.50: 2 residues within 4Å: Chain G: N.65 Chain K: K.135 Ligand excluded by PLIP SO4.54: 2 residues within 4Å: Chain L: R.16, F.96 Ligand excluded by PLIP SO4.58: 2 residues within 4Å: Chain M: K.135 Chain O: N.65 Ligand excluded by PLIP SO4.59: 2 residues within 4Å: Chain M: R.16, F.96 Ligand excluded by PLIP SO4.63: 3 residues within 4Å: Chain N: K.135, D.139 Chain Q: N.65 Ligand excluded by PLIP SO4.64: 3 residues within 4Å: Chain N: R.5, L.107, E.110 Ligand excluded by PLIP SO4.68: 2 residues within 4Å: Chain O: K.135 Chain P: N.65 Ligand excluded by PLIP SO4.69: 3 residues within 4Å: Chain O: D.71, E.72 Chain U: K.75 Ligand excluded by PLIP SO4.73: 3 residues within 4Å: Chain M: N.65 Chain P: K.135, K.142 Ligand excluded by PLIP SO4.77: 2 residues within 4Å: Chain Q: R.16, F.96 Ligand excluded by PLIP SO4.81: 3 residues within 4Å: Chain R: D.71, E.72 Chain X: K.75 Ligand excluded by PLIP SO4.85: 3 residues within 4Å: Chain S: K.135, D.139 Chain X: N.65 Ligand excluded by PLIP SO4.86: 2 residues within 4Å: Chain S: R.16, F.96 Ligand excluded by PLIP SO4.90: 2 residues within 4Å: Chain T: R.16, F.96 Ligand excluded by PLIP SO4.97: 2 residues within 4Å: Chain I: N.65 Chain V: K.135 Ligand excluded by PLIP SO4.98: 2 residues within 4Å: Chain V: S.3, E.4 Ligand excluded by PLIP SO4.102: 3 residues within 4Å: Chain W: E.4, R.5, K.8 Ligand excluded by PLIP SO4.103: 2 residues within 4Å: Chain W: R.56, W.122 Ligand excluded by PLIP SO4.104: 2 residues within 4Å: Chain S: N.65 Chain W: K.135 Ligand excluded by PLIP SO4.108: 2 residues within 4Å: Chain X: R.16, F.96 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tatur, J. et al., Crystal Structure of the Ferritin from the Hyperthermophilic Archaeal Anaerobe Pyrococcus Furiosus. J.Biol.Inorg.Chem. (2007)

Release Date

2007-02-27

Peptides

FERRITIN HOMOLOG: ABCDEFGHIJKLMNOPQRSTUVWX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
S

H
T

I
U

J
V

K
W

L
X

M
A

N
B

O
C

P
D

Q
E

R
F

S
S

T
T

U
U

V
V

W
W

X
X

FERRITIN HOMOLOG

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