Atomistry » Iron » PDB 7qhm-7r2r » 7qqa
Atomistry »
  Iron »
    PDB 7qhm-7r2r »
      7qqa »

Iron in PDB 7qqa: Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii

Enzymatic activity of Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii

All present enzymatic activity of Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii:
1.18.6.1;

Protein crystallography data

The structure of Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii, PDB code: 7qqa was solved by C.Trncik, T.Mueller, P.Franke, O.Einsle, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 73.48 / 1.79
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 48.677, 80.366, 80.024, 68.57, 75.85, 76.03
R / Rfree (%) 19.7 / 24.9

Other elements in 7qqa:

The structure of Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii also contains other interesting chemical elements:

Magnesium (Mg) 4 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii (pdb code 7qqa). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 8 binding sites of Iron where determined in the Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii, PDB code: 7qqa:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Iron binding site 1 out of 8 in 7qqa

Go back to Iron Binding Sites List in 7qqa
Iron binding site 1 out of 8 in the Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe303

b:22.1
occ:1.00
 FE1 A:SF4303 0.0 22.1 1.0
SG A:CYS132 2.2 21.6 1.0
S4 A:SF4303 2.3 24.9 1.0
S2 A:SF4303 2.3 20.8 1.0
S3 A:SF4303 2.3 22.2 1.0
FE4 A:SF4303 2.6 21.1 1.0
FE2 A:SF4303 2.7 21.8 1.0
FE3 A:SF4303 2.8 22.3 1.0
CB A:CYS132 3.5 20.2 1.0
S1 A:SF4303 3.9 21.8 1.0
CG2 A:VAL130 4.0 21.8 1.0
C A:CYS132 4.1 23.1 1.0
O A:CYS132 4.3 24.6 1.0
N B:ALA98 4.3 22.9 1.0
CA A:CYS132 4.3 21.5 1.0
N A:GLY133 4.4 23.0 1.0
SG B:CYS97 4.5 24.7 1.0
CA B:CYS97 4.6 23.9 1.0
CB A:VAL130 4.7 20.3 1.0
SG A:CYS97 4.7 20.1 1.0
SG B:CYS132 4.8 27.9 1.0
CB B:CYS97 4.8 23.9 1.0
N A:CYS132 4.9 22.9 1.0
CB B:ALA98 4.9 23.1 1.0
CA A:GLY133 4.9 21.2 1.0
C B:CYS97 5.0 23.8 1.0

Iron binding site 2 out of 8 in 7qqa

Go back to Iron Binding Sites List in 7qqa
Iron binding site 2 out of 8 in the Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe303

b:21.8
occ:1.00
 FE2 A:SF4303 0.0 21.8 1.0
SG A:CYS97 2.3 20.1 1.0
S3 A:SF4303 2.3 22.2 1.0
S4 A:SF4303 2.3 24.9 1.0
S1 A:SF4303 2.3 21.8 1.0
FE3 A:SF4303 2.7 22.3 1.0
FE1 A:SF4303 2.7 22.1 1.0
FE4 A:SF4303 2.8 21.1 1.0
CB A:CYS97 3.2 21.4 1.0
CA A:CYS97 3.7 23.6 1.0
S2 A:SF4303 3.9 20.8 1.0
N A:ALA98 4.1 21.7 1.0
C A:CYS97 4.2 22.4 1.0
SG B:CYS132 4.4 27.9 1.0
CA A:GLY133 4.5 21.2 1.0
N A:GLY99 4.6 20.1 1.0
O C:HOH525 4.7 39.5 1.0
SG A:CYS132 4.7 21.6 1.0
N A:GLY133 4.8 23.0 1.0
O C:HOH530 4.8 19.9 1.0
SG B:CYS97 5.0 24.7 1.0

Iron binding site 3 out of 8 in 7qqa

Go back to Iron Binding Sites List in 7qqa
Iron binding site 3 out of 8 in the Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe303

b:22.3
occ:1.00
 FE3 A:SF4303 0.0 22.3 1.0
SG B:CYS132 2.2 27.9 1.0
S4 A:SF4303 2.3 24.9 1.0
S2 A:SF4303 2.3 20.8 1.0
S1 A:SF4303 2.3 21.8 1.0
FE2 A:SF4303 2.7 21.8 1.0
FE4 A:SF4303 2.7 21.1 1.0
FE1 A:SF4303 2.8 22.1 1.0
CB B:CYS132 3.4 27.3 1.0
S3 A:SF4303 3.9 22.2 1.0
C B:CYS132 4.1 30.2 1.0
CG2 B:VAL130 4.2 22.9 1.0
N A:ALA98 4.2 21.7 1.0
O B:CYS132 4.3 29.3 1.0
CA B:CYS132 4.3 28.5 1.0
N B:GLY133 4.4 31.3 1.0
SG A:CYS97 4.5 20.1 1.0
CA A:CYS97 4.6 23.6 1.0
CB A:ALA98 4.8 21.6 1.0
SG B:CYS97 4.8 24.7 1.0
CB B:VAL130 4.9 22.5 1.0
SG A:CYS132 4.9 21.6 1.0
N B:CYS132 4.9 25.4 1.0
CA B:GLY133 4.9 31.7 1.0
C A:CYS97 5.0 22.4 1.0
CB A:CYS97 5.0 21.4 1.0

Iron binding site 4 out of 8 in 7qqa

Go back to Iron Binding Sites List in 7qqa
Iron binding site 4 out of 8 in the Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe303

b:21.1
occ:1.00
 FE4 A:SF4303 0.0 21.1 1.0
S1 A:SF4303 2.3 21.8 1.0
S3 A:SF4303 2.3 22.2 1.0
SG B:CYS97 2.3 24.7 1.0
S2 A:SF4303 2.3 20.8 1.0
FE1 A:SF4303 2.6 22.1 1.0
FE3 A:SF4303 2.7 22.3 1.0
FE2 A:SF4303 2.8 21.8 1.0
CB B:CYS97 3.2 23.9 1.0
O C:HOH592 3.6 33.3 1.0
CA B:CYS97 3.8 23.9 1.0
S4 A:SF4303 3.9 24.9 1.0
N B:ALA98 4.2 22.9 1.0
SG A:CYS132 4.2 21.6 1.0
C B:CYS97 4.3 23.8 1.0
CA B:GLY133 4.5 31.7 1.0
SG B:CYS132 4.7 27.9 1.0
N B:GLY99 4.7 23.9 1.0
N B:GLY133 4.8 31.3 1.0
O C:HOH525 4.9 39.5 1.0
SG A:CYS97 4.9 20.1 1.0

Iron binding site 5 out of 8 in 7qqa

Go back to Iron Binding Sites List in 7qqa
Iron binding site 5 out of 8 in the Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe303

b:19.4
occ:1.00
 FE1 C:SF4303 0.0 19.4 1.0
SG D:CYS132 2.2 24.6 1.0
S4 C:SF4303 2.3 19.8 1.0
S2 C:SF4303 2.3 18.6 1.0
S3 C:SF4303 2.3 19.6 1.0
FE2 C:SF4303 2.6 19.9 1.0
FE3 C:SF4303 2.7 18.7 1.0
FE4 C:SF4303 2.8 17.1 1.0
CB D:CYS132 3.3 22.0 1.0
S1 C:SF4303 3.9 18.5 1.0
N C:ALA98 4.2 17.3 1.0
CG2 D:VAL130 4.3 26.2 1.0
CB C:ALA98 4.4 21.0 1.0
C D:CYS132 4.4 24.0 1.0
CA D:CYS132 4.5 23.9 1.0
O D:CYS132 4.6 28.0 1.0
SG D:CYS97 4.6 19.4 1.0
N D:GLY133 4.7 22.2 1.0
SG C:CYS97 4.8 19.7 1.0
SG C:CYS132 4.8 19.0 1.0
CD2 D:PHE135 4.8 17.4 1.0
CA C:CYS97 4.9 21.8 1.0
CA C:ALA98 4.9 19.5 1.0
CE2 D:PHE135 5.0 18.6 1.0

Iron binding site 6 out of 8 in 7qqa

Go back to Iron Binding Sites List in 7qqa
Iron binding site 6 out of 8 in the Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe303

b:19.9
occ:1.00
 FE2 C:SF4303 0.0 19.9 1.0
S3 C:SF4303 2.3 19.6 1.0
S4 C:SF4303 2.3 19.8 1.0
S1 C:SF4303 2.3 18.5 1.0
SG D:CYS97 2.3 19.4 1.0
FE1 C:SF4303 2.6 19.4 1.0
FE3 C:SF4303 2.7 18.7 1.0
FE4 C:SF4303 2.7 17.1 1.0
CB D:CYS97 3.3 19.6 1.0
CA D:CYS97 3.6 21.9 1.0
S2 C:SF4303 3.9 18.6 1.0
N D:ALA98 4.0 18.7 1.0
C D:CYS97 4.1 20.7 1.0
N D:GLY99 4.5 22.3 1.0
SG D:CYS132 4.5 24.6 1.0
SG C:CYS132 4.8 19.0 1.0
CB C:CYS132 4.9 20.9 1.0
N D:CYS97 4.9 25.0 1.0
CA D:GLY133 5.0 20.9 1.0
SG C:CYS97 5.0 19.7 1.0
O D:HOH484 5.0 29.2 1.0

Iron binding site 7 out of 8 in 7qqa

Go back to Iron Binding Sites List in 7qqa
Iron binding site 7 out of 8 in the Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe303

b:18.7
occ:1.00
 FE3 C:SF4303 0.0 18.7 1.0
S4 C:SF4303 2.3 19.8 1.0
S2 C:SF4303 2.3 18.6 1.0
S1 C:SF4303 2.3 18.5 1.0
SG C:CYS132 2.3 19.0 1.0
FE2 C:SF4303 2.7 19.9 1.0
FE4 C:SF4303 2.7 17.1 1.0
FE1 C:SF4303 2.7 19.4 1.0
CB C:CYS132 3.2 20.9 1.0
S3 C:SF4303 3.9 19.6 1.0
N C:GLY134 4.1 24.3 1.0
CA C:GLY134 4.1 24.9 1.0
CG2 C:VAL130 4.3 24.1 1.0
CA C:CYS132 4.5 24.5 1.0
N D:ALA98 4.5 18.7 1.0
SG C:CYS97 4.7 19.7 1.0
SG D:CYS132 4.7 24.6 1.0
SG D:CYS97 4.8 19.4 1.0
CD2 C:PHE135 4.8 18.5 1.0
CA D:CYS97 4.8 21.9 1.0
C C:CYS132 4.9 26.8 1.0
N C:GLY133 5.0 24.5 1.0

Iron binding site 8 out of 8 in 7qqa

Go back to Iron Binding Sites List in 7qqa
Iron binding site 8 out of 8 in the Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe303

b:17.1
occ:1.00
 FE4 C:SF4303 0.0 17.1 1.0
S1 C:SF4303 2.2 18.5 1.0
S3 C:SF4303 2.3 19.6 1.0
S2 C:SF4303 2.3 18.6 1.0
SG C:CYS97 2.3 19.7 1.0
FE3 C:SF4303 2.7 18.7 1.0
FE2 C:SF4303 2.7 19.9 1.0
FE1 C:SF4303 2.8 19.4 1.0
CB C:CYS97 3.4 21.7 1.0
CA C:CYS97 3.6 21.8 1.0
N C:ALA98 3.9 17.3 1.0
S4 C:SF4303 3.9 19.8 1.0
CA C:GLY134 4.0 24.9 1.0
C C:CYS97 4.1 19.4 1.0
N C:GLY134 4.4 24.3 1.0
N C:GLY99 4.5 17.8 1.0
SG D:CYS132 4.5 24.6 1.0
SG C:CYS132 4.6 19.0 1.0
SG D:CYS97 4.9 19.4 1.0
CB D:CYS132 4.9 22.0 1.0
N C:CYS97 4.9 23.2 1.0
CA C:ALA98 5.0 19.5 1.0

Reference:

C.Trncik, T.Mueller, P.Franke, O.Einsle. Mgadp-Bound Fe Protein of the Iron-Only Nitrogenase From Azotobacter Vinelandii Journal of Inorganic V. 227 2022BIOCHEMISTRY.
Page generated: Thu Aug 8 19:52:48 2024

Last articles

Zn in 9J0N
Zn in 9J0O
Zn in 9J0P
Zn in 9FJX
Zn in 9EKB
Zn in 9C0F
Zn in 9CAH
Zn in 9CH0
Zn in 9CH3
Zn in 9CH1
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy