+Open data
-Basic information
Entry | Database: PDB / ID: 1gao | ||||||
---|---|---|---|---|---|---|---|
Title | CRYSTAL STRUCTURE OF THE L44S MUTANT OF FERREDOXIN I | ||||||
Components | FERREDOXIN I | ||||||
Keywords | ELECTRON TRANSPORT / Iron-sulfur clusters / ferredoxin | ||||||
Function / homology | Function and homology information 3 iron, 4 sulfur cluster binding / 4 iron, 4 sulfur cluster binding / electron transfer activity / DNA binding / metal ion binding Similarity search - Function | ||||||
Biological species | Azotobacter vinelandii (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.2 Å | ||||||
Authors | Stout, C.D. / Burgess, B.K. / Prasad, G.S. / Sridhar, V. / Jung, Y.S. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2002 Title: Azotobacter vinelandii ferredoxin I: a sequence and structure comparison approach to alteration of [4Fe-4S]2+/+ reduction potential. Authors: Chen, K. / Jung, Y.S. / Bonagura, C.A. / Tilley, G.J. / Prasad, G.S. / Sridhar, V. / Armstrong, F.A. / Stout, C.D. / Burgess, B.K. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1gao.cif.gz | 106.2 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1gao.ent.gz | 80.3 KB | Display | PDB format |
PDBx/mmJSON format | 1gao.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1gao_validation.pdf.gz | 422 KB | Display | wwPDB validaton report |
---|---|---|---|---|
Full document | 1gao_full_validation.pdf.gz | 431 KB | Display | |
Data in XML | 1gao_validation.xml.gz | 10 KB | Display | |
Data in CIF | 1gao_validation.cif.gz | 16.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ga/1gao ftp://data.pdbj.org/pub/pdb/validation_reports/ga/1gao | HTTPS FTP |
-Related structure data
Related structure data | 1g3oC 1g6bC 7fd1S S: Starting model for refinement C: citing same article (ref.) |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
2 |
| ||||||||
3 |
| ||||||||
4 |
| ||||||||
Unit cell |
|
-Components
#1: Protein | Mass: 12033.450 Da / Num. of mol.: 4 / Source method: isolated from a natural source / Source: (natural) Azotobacter vinelandii (bacteria) / References: UniProt: P00214 #2: Chemical | ChemComp-SF4 / #3: Chemical | ChemComp-F3S / #4: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 3.45 Å3/Da / Density % sol: 64.36 % | |||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Crystal grow | Temperature: 277 K / Method: vapor diffusion / pH: 7.5 Details: Ammonium sulfate, Lithium sulfate, Tris buffer, pH 7.5, VAPOR DIFFUSION, temperature 277K | |||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 2 ℃ / pH: 7.4 / Details: Shen, B., (1994) J. Biol. Chem., 269, 8564. | |||||||||||||||||||||||||
Components of the solutions | *PLUS
|
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: SYNCHROTRON / Site: SSRL / Beamline: BL7-1 / Wavelength: 1.08 Å |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Nov 17, 2000 / Details: SSRL beam line 7-1 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.08 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→50 Å / Num. all: 55252 / Num. obs: 30964 / % possible obs: 93.3 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 1.8 % / Rmerge(I) obs: 0.136 |
-Processing
Software |
| ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 7FD1 Resolution: 2.2→50 Å / Isotropic thermal model: Isotropic / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Xplor3.8
| ||||||||||||||||||||
Displacement parameters | Biso mean: 44.4 Å2 | ||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.2→50 Å
| ||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||
Software | *PLUS Name: X-PLOR / Version: 3.851 / Classification: refinement | ||||||||||||||||||||
Refine LS restraints | *PLUS
|