[English] 日本語
![](img/lk-miru.gif)
- PDB-1de0: MODULATING THE MIDPOINT POTENTIAL OF THE [4FE-4S] CLUSTER OF THE ... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 1de0 | ||||||
---|---|---|---|---|---|---|---|
Title | MODULATING THE MIDPOINT POTENTIAL OF THE [4FE-4S] CLUSTER OF THE NITROGENASE FE PROTEIN | ||||||
![]() | NITROGENASE IRON PROTEIN | ||||||
![]() | OXIDOREDUCTASE / REDOX PROTEINS / [FES] CLUSTERS / FE PROTEIN | ||||||
Function / homology | ![]() nitrogenase / : / nitrogenase activity / nitrogen fixation / 4 iron, 4 sulfur cluster binding / ATP binding / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() | ||||||
![]() | Jang, S.B. / Seefeldt, L.C. / Peters, J.W. | ||||||
![]() | ![]() Title: Modulating the midpoint potential of the [4Fe-4S] cluster of the nitrogenase Fe protein. Authors: Jang, S.B. / Seefeldt, L.C. / Peters, J.W. #1: ![]() Title: Crystallographic Structure of the Nitrogenase Iron Protein from Azotobacter vinelandii Authors: Georgiadis, M.M. / Komiya, H. / Chakrabarti, P. / Woo, D. / Kornuc, J.J. / Rees, D.C. #2: ![]() Title: Conformational Variability in Structures of the Nitrogenase Iron Proteins from Azotobacter vinelandii and Clostridium pasteurianum Authors: Schlessman, J.L. / Woo, D. / Joshua-Tor, L. / Howard, J.B. / Rees, D.C. #3: ![]() Title: Structure of ADP x AlF4(-)-stabilized Nitrogenase Complex and its Implications for Signal Transduction Authors: Schindelin, H. / Kisker, C. / Schlessman, J.L. / Howard, J.B. / Rees, D.C. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 124.1 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 96.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
---|
-Related structure data
Related structure data | |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 31456.084 Da / Num. of mol.: 2 / Mutation: F135W / Source method: isolated from a natural source / Source: (natural) ![]() #2: Chemical | ChemComp-SF4 / | #3: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.55 Å3/Da / Density % sol: 51.83 % | ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Crystal grow | Temperature: 277 K / Method: small tubes / pH: 8.5 Details: PEG 4000, 0.1 M TRIS HCL, 0.2 M SODIUM ACETATE, pH 8.5, SMALL TUBES, temperature 277K | ||||||||||||||||||||
Crystal grow | *PLUS Method: batch method | ||||||||||||||||||||
Components of the solutions | *PLUS
|
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ![]() |
Detector | Type: RIGAKU RAXIS IIC / Detector: IMAGE PLATE / Date: Feb 15, 1999 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→20 Å / Num. all: 265157 / Num. obs: 24852 / % possible obs: 9.37 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 18.4 / Redundancy: 6 % / Biso Wilson estimate: 36.3 Å2 / Rmerge(I) obs: 0.077 |
Reflection shell | Resolution: 2.4→2.44 Å / Redundancy: 6 % / Rmerge(I) obs: 0.253 / % possible all: 0.2 |
Reflection | *PLUS % possible obs: 95.2 % / Num. measured all: 265157 |
Reflection shell | *PLUS % possible obs: 75.5 % / Mean I/σ(I) obs: 3.9 |
-
Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Resolution: 2.4→20 Å / σ(F): 0 / σ(I): 0
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.4→20 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 50.3 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_deg / Dev ideal: 2.576 |