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Aluminium in PDB 1m34: Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate

Enzymatic activity of Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate

All present enzymatic activity of Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate:
1.18.6.1;

Protein crystallography data

The structure of Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate, PDB code: 1m34 was solved by B.Schmid, O.Einsle, H.-J.Chiu, A.Willing, M.Yoshida, J.B.Howard, D.C.Rees, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.30
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 326.100, 75.800, 312.200, 90.00, 102.60, 90.00
R / Rfree (%) 20 / 23.6

Other elements in 1m34:

The structure of Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate also contains other interesting chemical elements:

Fluorine (F) 32 atoms
Molybdenum (Mo) 4 atoms
Magnesium (Mg) 8 atoms
Iron (Fe) 76 atoms
Calcium (Ca) 4 atoms

Aluminium Binding Sites:

The binding sites of Aluminium atom in the Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate (pdb code 1m34). This binding sites where shown within 5.0 Angstroms radius around Aluminium atom.
In total 8 binding sites of Aluminium where determined in the Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate, PDB code: 1m34:
Jump to Aluminium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Aluminium binding site 1 out of 8 in 1m34

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Aluminium binding site 1 out of 8 in the Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate


Mono view


Stereo pair view

A full contact list of Aluminium with other atoms in the Al binding site number 1 of Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Al3093

b:38.5
occ:1.00
 AL E:ALF3093 0.0 38.5 1.0
F2 E:ALF3093 1.7 33.4 1.0
F1 E:ALF3093 1.8 38.9 1.0
F4 E:ALF3093 1.8 38.2 1.0
F3 E:ALF3093 1.8 40.4 1.0
O E:HOH3130 2.1 34.1 1.0
O1B E:ADP3091 3.0 38.9 1.0
MG E:MG3092 3.7 35.6 1.0
N E:GLY12 3.8 27.4 1.0
PB E:ADP3091 3.8 33.1 1.0
N E:GLY128 3.9 38.4 1.0
O3B E:ADP3091 3.9 30.9 1.0
NZ E:LYS15 4.1 32.1 1.0
NZ F:LYS10 4.1 22.9 1.0
OD2 E:ASP39 4.2 40.0 1.0
OD1 F:ASP129 4.3 35.3 1.0
O2B E:ADP3091 4.4 31.9 1.0
O E:HOH3131 4.4 46.2 1.0
CA E:GLY11 4.4 25.6 1.0
OD2 F:ASP129 4.5 40.4 1.0
CA E:GLY12 4.5 29.7 1.0
CA E:LEU127 4.6 38.2 1.0
C E:GLY11 4.6 26.2 1.0
CA E:GLY128 4.6 38.2 1.0
C E:LEU127 4.6 39.1 1.0
CE F:LYS10 4.7 22.9 1.0
O E:HOH3132 4.8 31.4 1.0
O E:HOH3133 4.8 38.6 1.0
NZ E:LYS41 4.8 50.6 1.0
CG F:ASP129 4.8 38.8 1.0
CB E:LEU127 4.9 38.8 1.0

Aluminium binding site 2 out of 8 in 1m34

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Aluminium binding site 2 out of 8 in the Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate


Mono view


Stereo pair view

A full contact list of Aluminium with other atoms in the Al binding site number 2 of Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Al3193

b:41.3
occ:1.00
 AL F:ALF3193 0.0 41.3 1.0
F2 F:ALF3193 1.8 40.5 1.0
F1 F:ALF3193 1.8 42.5 1.0
F4 F:ALF3193 1.8 40.1 1.0
F3 F:ALF3193 1.8 46.8 1.0
O E:HOH3134 2.1 39.0 1.0
O1B F:ADP3191 3.0 32.0 1.0
MG F:MG3192 3.7 31.0 1.0
PB F:ADP3191 3.7 28.1 1.0
N F:GLY12 3.8 22.7 1.0
N F:GLY128 4.0 35.4 1.0
O3B F:ADP3191 4.0 31.3 1.0
NZ E:LYS10 4.1 33.5 1.0
NZ F:LYS15 4.1 34.4 1.0
O2B F:ADP3191 4.1 28.9 1.0
OD1 E:ASP129 4.2 49.7 1.0
OD2 F:ASP39 4.2 38.1 1.0
O F:HOH3196 4.4 25.9 1.0
CA F:GLY12 4.4 25.0 1.0
OD2 E:ASP129 4.5 50.4 1.0
NZ F:LYS41 4.6 46.6 1.0
CA F:GLY128 4.6 36.3 1.0
CA F:GLY11 4.7 25.3 1.0
CA F:LEU127 4.7 35.8 1.0
O F:HOH3197 4.7 27.0 1.0
C F:GLY11 4.7 24.1 1.0
C F:LEU127 4.8 35.4 1.0
CE E:LYS10 4.8 31.1 1.0
O F:HOH3198 4.8 41.2 1.0
CG E:ASP129 4.8 49.2 1.0
CB F:LEU127 4.9 35.3 1.0

Aluminium binding site 3 out of 8 in 1m34

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Aluminium binding site 3 out of 8 in the Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate


Mono view


Stereo pair view

A full contact list of Aluminium with other atoms in the Al binding site number 3 of Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Al3293

b:45.0
occ:1.00
 AL G:ALF3293 0.0 45.0 1.0
F1 G:ALF3293 1.7 47.3 1.0
F2 G:ALF3293 1.8 44.9 1.0
F4 G:ALF3293 1.8 44.3 1.0
F3 G:ALF3293 1.8 47.1 1.0
O G:HOH3345 2.1 43.7 1.0
O1B G:ADP3291 3.0 39.4 1.0
N G:GLY12 3.6 33.8 1.0
MG G:MG3292 3.7 48.6 1.0
PB G:ADP3291 3.8 31.6 1.0
O3B G:ADP3291 3.8 33.6 1.0
N G:GLY128 4.0 37.5 1.0
NZ G:LYS15 4.0 29.4 1.0
OD1 H:ASP129 4.2 49.1 1.0
NZ H:LYS10 4.2 33.1 1.0
CA G:GLY12 4.3 33.1 1.0
OD2 G:ASP39 4.3 35.4 1.0
OD2 H:ASP129 4.4 48.9 1.0
CA G:GLY11 4.5 34.3 1.0
C G:GLY11 4.5 34.0 1.0
O2B G:ADP3291 4.6 37.2 1.0
NZ G:LYS41 4.6 44.8 1.0
O G:HOH3346 4.6 27.1 1.0
CE H:LYS10 4.6 33.0 1.0
CA G:GLY128 4.6 39.1 1.0
O G:HOH3347 4.7 26.4 1.0
CG H:ASP129 4.7 48.8 1.0
CA G:LEU127 4.8 39.4 1.0
O G:HOH3348 4.8 42.7 1.0
C G:LEU127 4.9 38.1 1.0

Aluminium binding site 4 out of 8 in 1m34

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Aluminium binding site 4 out of 8 in the Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate


Mono view


Stereo pair view

A full contact list of Aluminium with other atoms in the Al binding site number 4 of Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Al3393

b:36.0
occ:1.00
 AL H:ALF3393 0.0 36.0 1.0
F1 H:ALF3393 1.8 36.7 1.0
F2 H:ALF3393 1.8 35.5 1.0
F4 H:ALF3393 1.8 35.3 1.0
F3 H:ALF3393 1.8 36.8 1.0
O G:HOH3349 2.1 34.9 1.0
O1B H:ADP3391 3.0 43.9 1.0
O3B H:ADP3391 3.5 39.8 1.0
N H:GLY12 3.7 32.5 1.0
PB H:ADP3391 3.8 37.9 1.0
MG H:MG3392 3.8 41.6 1.0
N H:GLY128 4.0 39.3 1.0
NZ G:LYS10 4.1 32.8 1.0
OD1 G:ASP129 4.1 45.7 1.0
NZ H:LYS15 4.2 37.9 1.0
OD2 H:ASP39 4.3 39.9 1.0
OD2 G:ASP129 4.3 42.0 1.0
CA H:GLY12 4.4 34.0 1.0
CA H:GLY11 4.5 31.1 1.0
C H:GLY11 4.6 31.6 1.0
O H:HOH3418 4.6 41.3 1.0
CA H:GLY128 4.6 39.3 1.0
NZ H:LYS41 4.7 54.4 1.0
CG G:ASP129 4.7 43.8 1.0
O H:HOH3417 4.7 31.6 1.0
CA H:LEU127 4.8 39.1 1.0
CE G:LYS10 4.8 35.9 1.0
O3A H:ADP3391 4.8 37.2 1.0
C H:LEU127 4.9 39.1 1.0
O2B H:ADP3391 4.9 43.4 1.0

Aluminium binding site 5 out of 8 in 1m34

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Aluminium binding site 5 out of 8 in the Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate


Mono view


Stereo pair view

A full contact list of Aluminium with other atoms in the Al binding site number 5 of Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Al5093

b:42.4
occ:1.00
 AL M:ALF5093 0.0 42.4 1.0
F1 M:ALF5093 1.8 42.9 1.0
F2 M:ALF5093 1.8 44.3 1.0
F4 M:ALF5093 1.8 42.2 1.0
F3 M:ALF5093 1.8 42.6 1.0
O M:HOH5151 2.1 42.6 1.0
O1B M:ADP5091 3.0 34.9 1.0
MG M:MG5092 3.7 30.8 1.0
PB M:ADP5091 3.7 29.3 1.0
N M:GLY12 3.8 27.5 1.0
O2B M:ADP5091 3.9 30.8 1.0
N M:GLY128 4.0 32.6 1.0
OD1 N:ASP129 4.1 43.1 1.0
NZ N:LYS10 4.1 24.2 1.0
NZ M:LYS15 4.2 22.2 1.0
O3B M:ADP5091 4.2 34.0 1.0
OD2 M:ASP39 4.2 42.4 1.0
O N:HOH5202 4.3 29.2 1.0
O M:HOH5152 4.3 26.1 1.0
O M:HOH5154 4.5 48.4 1.0
CA M:GLY12 4.5 26.9 1.0
NZ M:LYS41 4.6 56.1 1.0
CA M:GLY11 4.6 27.4 1.0
CE N:LYS10 4.6 23.4 1.0
O M:HOH5153 4.7 26.1 1.0
CA M:LEU127 4.7 32.6 1.0
C M:GLY11 4.7 28.3 1.0
CA M:GLY128 4.7 32.4 1.0
C M:LEU127 4.8 32.6 1.0
OD2 N:ASP129 4.8 46.7 1.0
CG N:ASP129 4.9 45.2 1.0
CB M:LEU127 4.9 30.7 1.0

Aluminium binding site 6 out of 8 in 1m34

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Aluminium binding site 6 out of 8 in the Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate


Mono view


Stereo pair view

A full contact list of Aluminium with other atoms in the Al binding site number 6 of Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Al5193

b:36.6
occ:1.00
 AL N:ALF5193 0.0 36.6 1.0
F2 N:ALF5193 1.8 36.1 1.0
F1 N:ALF5193 1.8 40.1 1.0
F4 N:ALF5193 1.8 39.3 1.0
F3 N:ALF5193 1.8 38.6 1.0
O M:HOH5155 2.1 36.3 1.0
O1B N:ADP5191 2.9 33.1 1.0
PB N:ADP5191 3.7 25.7 1.0
MG N:MG5192 3.7 35.0 1.0
N N:GLY12 3.8 24.2 1.0
NZ N:LYS15 3.9 29.1 1.0
N N:GLY128 3.9 35.7 1.0
O3B N:ADP5191 3.9 27.1 1.0
NZ M:LYS10 4.0 24.6 1.0
O M:HOH5102 4.2 30.7 1.0
OD2 M:ASP129 4.2 39.6 1.0
O N:HOH5232 4.2 28.4 1.0
OD2 N:ASP39 4.3 37.0 1.0
O2B N:ADP5191 4.3 27.1 1.0
OD1 M:ASP129 4.3 40.7 1.0
CA N:GLY12 4.5 24.5 1.0
CA N:GLY11 4.5 24.6 1.0
CA N:GLY128 4.5 36.7 1.0
O N:HOH5233 4.6 30.3 1.0
C N:GLY11 4.6 24.1 1.0
O N:HOH5234 4.7 41.0 1.0
CG M:ASP129 4.7 40.1 1.0
CA N:LEU127 4.7 37.3 1.0
C N:LEU127 4.8 36.4 1.0
NZ N:LYS41 4.8 51.0 1.0
CE M:LYS10 4.9 25.9 1.0

Aluminium binding site 7 out of 8 in 1m34

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Aluminium binding site 7 out of 8 in the Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate


Mono view


Stereo pair view

A full contact list of Aluminium with other atoms in the Al binding site number 7 of Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate within 5.0Å range:
probe atom residue distance (Å) B Occ
O:Al5293

b:50.7
occ:1.00
 AL O:ALF5293 0.0 50.7 1.0
F2 O:ALF5293 1.8 49.2 1.0
F1 O:ALF5293 1.8 52.5 1.0
F4 O:ALF5293 1.8 49.4 1.0
F3 O:ALF5293 1.8 52.9 1.0
O O:HOH5294 2.1 50.5 1.0
O1B O:ADP5291 3.0 42.7 1.0
MG O:MG5292 3.7 41.8 1.0
N O:GLY12 3.8 37.9 1.0
PB O:ADP5291 3.8 37.8 1.0
N O:GLY128 3.9 44.9 1.0
NZ P:LYS10 3.9 42.3 1.0
O3B O:ADP5291 4.0 37.0 1.0
OD2 P:ASP129 4.0 53.0 1.0
OD2 O:ASP39 4.3 46.2 1.0
OD1 P:ASP129 4.3 54.6 1.0
O2B O:ADP5291 4.4 37.1 1.0
NZ O:LYS15 4.4 36.8 1.0
O O:HOH5296 4.4 41.5 1.0
CA O:GLY11 4.4 37.6 1.0
NZ O:LYS41 4.5 52.6 1.0
CA O:GLY128 4.6 46.4 1.0
CE P:LYS10 4.6 40.3 1.0
CA O:GLY12 4.6 39.1 1.0
CA O:LEU127 4.6 43.2 1.0
C O:GLY11 4.6 37.8 1.0
CG P:ASP129 4.6 53.6 1.0
C O:LEU127 4.7 44.1 1.0
CB O:LEU127 4.9 42.5 1.0
O O:HOH5298 4.9 42.9 1.0
O O:HOH5297 4.9 39.4 1.0
CE O:LYS41 5.0 52.2 1.0

Aluminium binding site 8 out of 8 in 1m34

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Aluminium binding site 8 out of 8 in the Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate


Mono view


Stereo pair view

A full contact list of Aluminium with other atoms in the Al binding site number 8 of Nitrogenase Complex From Azotobacter Vinelandii Stabilized By Adp- Tetrafluoroaluminate within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Al5393

b:48.5
occ:1.00
 AL P:ALF5393 0.0 48.5 1.0
F1 P:ALF5393 1.8 48.7 1.0
F2 P:ALF5393 1.8 47.3 1.0
F4 P:ALF5393 1.8 44.6 1.0
F3 P:ALF5393 1.8 48.4 1.0
O O:HOH5394 2.1 46.6 1.0
O1B P:ADP5391 3.1 46.4 1.0
N P:GLY12 3.6 34.6 1.0
O3B P:ADP5391 3.6 41.4 1.0
MG P:MG5392 3.7 42.6 1.0
PB P:ADP5391 3.8 40.7 1.0
OD1 O:ASP129 3.9 59.2 1.0
N P:GLY128 4.0 44.3 1.0
NZ P:LYS15 4.1 38.7 1.0
CA P:GLY12 4.3 34.8 1.0
OD2 P:ASP39 4.3 47.5 1.0
NZ O:LYS10 4.4 39.7 1.0
CA P:GLY11 4.5 35.6 1.0
OD2 O:ASP129 4.5 57.0 1.0
C P:GLY11 4.5 36.1 1.0
CE O:LYS10 4.6 38.8 1.0
CG O:ASP129 4.6 57.2 1.0
CA P:GLY128 4.7 46.3 1.0
NZ P:LYS41 4.7 52.7 1.0
O2B P:ADP5391 4.7 41.9 1.0
O P:HOH5396 4.8 34.8 1.0
O P:HOH5397 4.9 57.9 1.0
CA P:LEU127 4.9 43.5 1.0
C P:LEU127 5.0 44.0 1.0

Reference:

B.Schmid, O.Einsle, H.-J.Chiu, A.Willing, M.Yoshida, J.B.Howard, D.C.Rees. Biochemical and Structural Characterization of the Crosslinked Complex of Nitrogenase: Comparison to the Adp-ALF4 Stabilized Structure Biochemistry V. 41 15557 2002.
ISSN: ISSN 0006-2960
PubMed: 12501184
DOI: 10.1021/BI026642B
Page generated: Wed Jul 10 09:23:37 2024

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