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Iron in PDB 7bzk: Crystal Structure of Ferredoxin: Thioredoxin Reductase and Thioredoxin Y1 Complex

Enzymatic activity of Crystal Structure of Ferredoxin: Thioredoxin Reductase and Thioredoxin Y1 Complex

All present enzymatic activity of Crystal Structure of Ferredoxin: Thioredoxin Reductase and Thioredoxin Y1 Complex:
1.8.7.2;

Protein crystallography data

The structure of Crystal Structure of Ferredoxin: Thioredoxin Reductase and Thioredoxin Y1 Complex, PDB code: 7bzk was solved by G.Kurisu, L.Juniar, H.Tanaka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.08 / 1.59
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 54.985, 60.762, 61.056, 90.00, 90.00, 90.00
R / Rfree (%) 17 / 19.3

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of Ferredoxin: Thioredoxin Reductase and Thioredoxin Y1 Complex (pdb code 7bzk). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Crystal Structure of Ferredoxin: Thioredoxin Reductase and Thioredoxin Y1 Complex, PDB code: 7bzk:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 7bzk

Go back to Iron Binding Sites List in 7bzk
Iron binding site 1 out of 4 in the Crystal Structure of Ferredoxin: Thioredoxin Reductase and Thioredoxin Y1 Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Crystal Structure of Ferredoxin: Thioredoxin Reductase and Thioredoxin Y1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe201

b:11.9
occ:1.00
 FE1 A:SF4201 0.0 11.9 1.0
S4 A:SF4201 2.3 12.4 1.0
S2 A:SF4201 2.3 13.2 1.0
S3 A:SF4201 2.3 12.9 1.0
SG A:CYS73 2.3 13.7 1.0
FE3 A:SF4201 2.7 11.9 1.0
FE2 A:SF4201 2.7 12.3 1.0
FE4 A:SF4201 2.9 14.7 1.0
CB A:CYS73 3.2 13.2 1.0
CA A:CYS73 3.8 13.0 1.0
S1 A:SF4201 4.0 12.4 1.0
CA A:PRO74 4.3 12.3 1.0
CE2 A:PHE89 4.4 12.2 1.0
N A:CYS75 4.4 13.4 1.0
CD2 A:LEU42 4.5 11.1 1.0
CD2 A:LEU88 4.7 12.5 1.0
SG A:CYS75 4.8 12.4 1.0
CD2 A:PHE89 4.8 11.5 1.0
C A:CYS73 4.8 14.2 1.0
SG A:CYS84 4.8 12.8 1.0
N A:CYS73 4.9 11.2 1.0
CD1 A:LEU42 4.9 11.2 1.0
N A:PRO74 4.9 12.5 1.0
C A:PRO74 4.9 13.3 1.0

Iron binding site 2 out of 4 in 7bzk

Go back to Iron Binding Sites List in 7bzk
Iron binding site 2 out of 4 in the Crystal Structure of Ferredoxin: Thioredoxin Reductase and Thioredoxin Y1 Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Crystal Structure of Ferredoxin: Thioredoxin Reductase and Thioredoxin Y1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe201

b:12.3
occ:1.00
 FE2 A:SF4201 0.0 12.3 1.0
S3 A:SF4201 2.3 12.9 1.0
S1 A:SF4201 2.3 12.4 1.0
S4 A:SF4201 2.3 12.4 1.0
SG A:CYS75 2.3 12.4 1.0
FE3 A:SF4201 2.7 11.9 1.0
FE1 A:SF4201 2.7 11.9 1.0
FE4 A:SF4201 2.7 14.7 1.0
CB A:CYS75 3.3 9.4 1.0
N A:CYS75 3.6 13.4 1.0
S2 A:SF4201 3.8 13.2 1.0
CA A:CYS75 4.1 11.3 1.0
O A:HOH326 4.1 15.8 1.0
CB A:MET78 4.4 13.3 1.0
SG A:CYS54 4.4 12.0 1.0
SG A:CYS84 4.7 12.8 1.0
C A:PRO74 4.8 13.3 1.0
SG A:CYS73 4.8 13.7 1.0
CB A:CYS54 4.8 11.0 1.0
O A:GLU83 4.8 15.0 1.0
CA A:CYS84 4.8 12.2 1.0
CZ3 A:TRP71 4.8 18.4 1.0
CE3 A:TRP71 4.8 15.8 1.0
CA A:PRO74 4.9 12.3 1.0
C A:CYS75 5.0 14.3 1.0

Iron binding site 3 out of 4 in 7bzk

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Iron binding site 3 out of 4 in the Crystal Structure of Ferredoxin: Thioredoxin Reductase and Thioredoxin Y1 Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Crystal Structure of Ferredoxin: Thioredoxin Reductase and Thioredoxin Y1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe201

b:11.9
occ:1.00
 FE3 A:SF4201 0.0 11.9 1.0
S2 A:SF4201 2.2 13.2 1.0
S4 A:SF4201 2.3 12.4 1.0
SG A:CYS84 2.3 12.8 1.0
S1 A:SF4201 2.3 12.4 1.0
FE2 A:SF4201 2.7 12.3 1.0
FE1 A:SF4201 2.7 11.9 1.0
FE4 A:SF4201 2.7 14.7 1.0
CB A:CYS84 3.4 12.5 1.0
CA A:CYS84 3.7 12.2 1.0
S3 A:SF4201 3.8 12.9 1.0
CB A:CYS86 4.0 11.1 1.0
N A:CYS86 4.3 11.5 1.0
C A:CYS84 4.3 11.9 1.0
SG A:CYS86 4.3 16.8 1.0
CD2 A:PHE89 4.4 11.5 1.0
CB A:LEU88 4.5 10.6 1.0
N A:HIS85 4.5 12.9 1.0
CA A:CYS86 4.7 11.0 1.0
CE2 A:PHE89 4.7 12.2 1.0
SG A:CYS75 4.8 12.4 1.0
SG A:CYS73 4.8 13.7 1.0
O A:CYS84 5.0 12.5 1.0
SG A:CYS54 5.0 12.0 1.0
CD2 A:LEU88 5.0 12.5 1.0

Iron binding site 4 out of 4 in 7bzk

Go back to Iron Binding Sites List in 7bzk
Iron binding site 4 out of 4 in the Crystal Structure of Ferredoxin: Thioredoxin Reductase and Thioredoxin Y1 Complex


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Crystal Structure of Ferredoxin: Thioredoxin Reductase and Thioredoxin Y1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe201

b:14.7
occ:1.00
 FE4 A:SF4201 0.0 14.7 1.0
S1 A:SF4201 2.3 12.4 1.0
S2 A:SF4201 2.3 13.2 1.0
S3 A:SF4201 2.3 12.9 1.0
SG A:CYS54 2.4 12.0 1.0
FE3 A:SF4201 2.7 11.9 1.0
FE2 A:SF4201 2.7 12.3 1.0
FE1 A:SF4201 2.9 11.9 1.0
SG A:CYS86 3.0 16.8 1.0
CB A:CYS54 3.4 11.0 1.0
CB A:CYS86 3.8 11.1 1.0
CA A:CYS54 4.0 9.9 1.0
S4 A:SF4201 4.0 12.4 1.0
CD A:PRO55 4.4 11.8 1.0
N A:CYS86 4.5 11.5 1.0
O A:HOH350 4.6 23.9 1.0
SG A:CYS84 4.7 12.8 1.0
C A:CYS54 4.8 12.3 1.0
SG A:CYS75 4.8 12.4 1.0
CA A:CYS86 4.8 11.0 1.0
N A:PRO55 4.8 11.3 1.0

Reference:

L.Juniar, H.Tanaka, K.Yoshida, T.Hisabori, G.Kurisu. Structural Basis For Thioredoxin Isoform-Based Fine-Tuning of Ferredoxin-Thioredoxin Reductase Activity. Protein Sci. V. 29 2538 2020.
ISSN: ESSN 1469-896X
PubMed: 33015914
DOI: 10.1002/PRO.3964
Page generated: Thu Aug 8 00:19:31 2024

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