+Open data
-Basic information
Entry | Database: PDB / ID: 1bxv | ||||||
---|---|---|---|---|---|---|---|
Title | REDUCED PLASTOCYANIN FROM SYNECHOCOCCUS SP. | ||||||
Components | PLASTOCYANIN | ||||||
Keywords | COPPER PROTEIN / ELECTRON TRANSFER | ||||||
Function / homology | Function and homology information plasma membrane-derived thylakoid membrane / electron transfer activity / copper ion binding Similarity search - Function | ||||||
Biological species | Synechococcus elongatus (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.8 Å | ||||||
Authors | Inoue, T. / Sugawara, H. / Hamanaka, S. / Tsukui, H. / Suzuki, E. / Kohzuma, T. / Kai, Y. | ||||||
Citation | Journal: Biochemistry / Year: 1999 Title: Crystal structure determinations of oxidized and reduced plastocyanin from the cyanobacterium Synechococcus sp. PCC 7942. Authors: Inoue, T. / Sugawara, H. / Hamanaka, S. / Tsukui, H. / Suzuki, E. / Kohzuma, T. / Kai, Y. #1: Journal: Acta Crystallogr.,Sect.D / Year: 1999 Title: Crystallization and Preliminary X-Ray Analysis of Plastocyanin from Cyanobacterium Synechococcus Sp. Pcc 7942 Authors: Inoue, T. / Sugawara, H. / Hamanaka, S. / Tsukui, H. / Suzuki, E. / Kohzuma, T. / Kai, Y. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1bxv.cif.gz | 31.6 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1bxv.ent.gz | 20.1 KB | Display | PDB format |
PDBx/mmJSON format | 1bxv.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bx/1bxv ftp://data.pdbj.org/pub/pdb/validation_reports/bx/1bxv | HTTPS FTP |
---|
-Related structure data
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-Components
#1: Protein | Mass: 9861.011 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: REDUCED FORM / Source: (gene. exp.) Synechococcus elongatus (bacteria) / Strain: PCC 7942 / Production host: Escherichia coli (E. coli) / References: UniProt: P55020 |
---|---|
#2: Chemical | ChemComp-CU / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 2.7 Å3/Da / Density % sol: 54.5 % | |||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Crystal grow | pH: 5 / Details: pH 5.0 | |||||||||||||||
Crystal grow | *PLUS Method: unknown | |||||||||||||||
Components of the solutions | *PLUS
|
-Data collection
Diffraction | Mean temperature: 300 K |
---|---|
Diffraction source | Source: SYNCHROTRON / Site: Photon Factory / Beamline: BL-6A / Wavelength: 1 |
Detector | Type: WEISSENBERG / Detector: DIFFRACTOMETER / Date: Dec 1, 1997 |
Radiation | Monochromator: SI(111) / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.8→30 Å / Num. obs: 9370 / % possible obs: 96.2 % / Redundancy: 3.6 % / Rmerge(I) obs: 0.061 |
Reflection shell | Resolution: 1.8→1.86 Å / Rmerge(I) obs: 0.201 / % possible all: 76.9 |
Reflection | *PLUS Num. obs: 9373 / Num. measured all: 43919 |
Reflection shell | *PLUS % possible obs: 77.1 % / Rmerge(I) obs: 0.203 |
-Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: OXIDIZED FORM Resolution: 1.8→10 Å / SU B: 2.39 / SU ML: 0.07 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.12 / ESU R Free: 0.11
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 21.2 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.8→10 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Software | *PLUS Name: REFMAC / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
|