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Magnesium in PDB 8kfd: Ferritin Drug Carrier(Fdc) For Encapsulated Platinum (IV) Prodrug For Esophageal Squamous Cell Carcinoma Targeted Therapy

Enzymatic activity of Ferritin Drug Carrier(Fdc) For Encapsulated Platinum (IV) Prodrug For Esophageal Squamous Cell Carcinoma Targeted Therapy

All present enzymatic activity of Ferritin Drug Carrier(Fdc) For Encapsulated Platinum (IV) Prodrug For Esophageal Squamous Cell Carcinoma Targeted Therapy:
1.16.3.1;

Protein crystallography data

The structure of Ferritin Drug Carrier(Fdc) For Encapsulated Platinum (IV) Prodrug For Esophageal Squamous Cell Carcinoma Targeted Therapy, PDB code: 8kfd was solved by X.Chen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.30 / 1.80
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 183.45, 183.45, 183.45, 90, 90, 90
R / Rfree (%) 15.3 / 16.6

Other elements in 8kfd:

The structure of Ferritin Drug Carrier(Fdc) For Encapsulated Platinum (IV) Prodrug For Esophageal Squamous Cell Carcinoma Targeted Therapy also contains other interesting chemical elements:

Calcium (Ca) 1 atom
Chlorine (Cl) 12 atoms
Platinum (Pt) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Ferritin Drug Carrier(Fdc) For Encapsulated Platinum (IV) Prodrug For Esophageal Squamous Cell Carcinoma Targeted Therapy (pdb code 8kfd). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Ferritin Drug Carrier(Fdc) For Encapsulated Platinum (IV) Prodrug For Esophageal Squamous Cell Carcinoma Targeted Therapy, PDB code: 8kfd:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 8kfd

Go back to Magnesium Binding Sites List in 8kfd
Magnesium binding site 1 out of 3 in the Ferritin Drug Carrier(Fdc) For Encapsulated Platinum (IV) Prodrug For Esophageal Squamous Cell Carcinoma Targeted Therapy


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Ferritin Drug Carrier(Fdc) For Encapsulated Platinum (IV) Prodrug For Esophageal Squamous Cell Carcinoma Targeted Therapy within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg218

b:20.4
occ:0.33
 O A:HOH482 2.1 23.6 1.0
O A:HOH315 2.1 22.3 1.0
OE2 A:GLU134 3.6 24.5 0.5
O A:HOH316 3.9 42.4 1.0
OE2 A:GLU134 4.0 13.6 0.5
O A:HOH361 4.2 29.8 1.0
O A:HOH522 4.3 28.4 1.0
OE1 A:GLU134 4.3 13.1 0.5
CD A:GLU134 4.5 19.7 0.5
CD A:GLU134 4.6 16.6 0.5
OE1 A:GLU134 4.7 29.0 0.5

Magnesium binding site 2 out of 3 in 8kfd

Go back to Magnesium Binding Sites List in 8kfd
Magnesium binding site 2 out of 3 in the Ferritin Drug Carrier(Fdc) For Encapsulated Platinum (IV) Prodrug For Esophageal Squamous Cell Carcinoma Targeted Therapy


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Ferritin Drug Carrier(Fdc) For Encapsulated Platinum (IV) Prodrug For Esophageal Squamous Cell Carcinoma Targeted Therapy within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg219

b:43.9
occ:1.00
 O A:HOH321 1.8 33.3 1.0
OE1 A:GLU61 1.9 25.0 0.5
OE1 A:GLN58 2.2 38.7 1.0
O A:HOH303 2.2 49.0 1.0
O A:HOH359 2.3 37.0 1.0
O A:HOH350 2.5 29.0 1.0
O A:HOH328 2.9 49.4 1.0
CD A:GLU61 3.1 31.6 0.0
CD A:GLN58 3.2 31.1 1.0
OE2 A:GLU140 3.4 44.6 0.5
NE2 A:GLN58 3.7 37.9 1.0
CB A:GLU61 3.9 21.9 0.5
OE2 A:GLU61 4.0 34.0 0.5
CB A:GLU61 4.1 23.0 0.5
CG A:GLU61 4.1 27.1 0.5
O A:HOH310 4.3 39.2 1.0
O A:HOH381 4.4 43.9 1.0
O A:HOH416 4.4 52.7 1.0
OE2 A:GLU107 4.5 47.5 1.0
CG A:GLU61 4.5 25.6 0.5
CG A:GLN58 4.5 17.7 1.0
CA A:GLN58 4.6 18.2 1.0
OE1 A:GLU62 4.6 36.6 1.0
CD A:GLU140 4.6 41.7 0.5
CB A:GLN58 4.7 15.6 1.0
O A:HOH461 4.8 31.0 1.0
CB A:ALA144 4.8 20.4 1.0
O A:GLN58 4.8 17.8 1.0
CE1 A:HIS65 5.0 44.2 1.0

Magnesium binding site 3 out of 3 in 8kfd

Go back to Magnesium Binding Sites List in 8kfd
Magnesium binding site 3 out of 3 in the Ferritin Drug Carrier(Fdc) For Encapsulated Platinum (IV) Prodrug For Esophageal Squamous Cell Carcinoma Targeted Therapy


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Ferritin Drug Carrier(Fdc) For Encapsulated Platinum (IV) Prodrug For Esophageal Squamous Cell Carcinoma Targeted Therapy within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg220

b:17.4
occ:1.00
 ND1 A:HIS65 1.9 25.6 1.0
O A:HOH324 2.0 31.2 1.0
OE2 A:GLU27 2.0 24.9 1.0
OE2 A:GLU62 2.0 27.7 1.0
O A:HOH323 2.1 22.7 1.0
O A:HOH322 2.3 54.0 1.0
CE1 A:HIS65 2.7 44.2 1.0
CD A:GLU62 2.9 33.3 1.0
CD A:GLU27 3.0 21.5 1.0
CG A:HIS65 3.1 26.0 1.0
OE1 A:GLU62 3.1 36.6 1.0
OE1 A:GLU27 3.3 22.3 1.0
CB A:HIS65 3.6 17.2 1.0
NE2 A:HIS65 3.9 35.3 1.0
OE1 A:GLN141 4.1 24.9 0.7
CD2 A:HIS65 4.1 31.9 1.0
OE1 A:GLN141 4.3 23.0 0.3
CG A:GLU62 4.3 19.0 1.0
CG1 A:VAL110 4.4 23.3 1.0
CG A:GLU27 4.4 17.7 1.0
CA A:GLU62 4.5 15.0 1.0
CB A:GLU62 4.7 18.1 1.0
CB A:GLU27 4.7 17.3 1.0
OE1 A:GLU107 4.9 42.4 1.0
CD A:GLN141 4.9 24.4 0.7

Reference:

B.Jiang, X.Chen, K.Fan. Ferritin Drug Carrier(Fdc) For Encapsulated Platinum (IV) Prodrug For Esophageal Squamous Cell Carcinoma Targeted Therapy To Be Published.
Page generated: Fri Oct 4 14:39:51 2024

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