[English] 日本語
Yorodumi- PDB-1zu0: Crystal Structure of the liganded Chitin Oligasaccharide Binding ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1zu0 | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | Crystal Structure of the liganded Chitin Oligasaccharide Binding Protein | |||||||||
Components | Chitin Oligosaccharide Binding Protein | |||||||||
Keywords | SUGAR BINDING PROTEIN / SIGNALING PROTEIN / Alpha helix/beta sheet | |||||||||
Function / homology | Function and homology information dipeptide transport / peptide transmembrane transporter activity / ATP-binding cassette (ABC) transporter complex / outer membrane-bounded periplasmic space / metal ion binding Similarity search - Function | |||||||||
Biological species | Vibrio cholerae (bacteria) | |||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.2 Å | |||||||||
Authors | Xu, S. / Li, X. / Roseman, R. / Stock, A.M. | |||||||||
Citation | Journal: To be Published Title: Crystal structure of the liganded and unliganded periplasmic chitin oligosaccharide binding protein Authors: Xu, S. / Li, X. / Roseman, R. / Stock, A.M. | |||||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1zu0.cif.gz | 138.1 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1zu0.ent.gz | 104 KB | Display | PDB format |
PDBx/mmJSON format | 1zu0.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/zu/1zu0 ftp://data.pdbj.org/pub/pdb/validation_reports/zu/1zu0 | HTTPS FTP |
---|
-Related structure data
Related structure data | 1ztyS S: Starting model for refinement |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-Components
#1: Protein | Mass: 60017.105 Da / Num. of mol.: 1 / Fragment: residues 28-556 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Vibrio cholerae (bacteria) / Plasmid: pMal-p2 / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: Q9KUA3 |
---|---|
#2: Polysaccharide | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose Source method: isolated from a genetically manipulated source |
#3: Chemical | ChemComp-MN / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 2.1 Å3/Da / Density % sol: 39.1 % |
---|---|
Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 8 Details: PEG3500, CH3COONa, MnSo4, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: SYNCHROTRON / Site: CHESS / Beamline: A1 / Wavelength: 0.978 |
Detector | Type: ENRAF-NONIUS / Detector: AREA DETECTOR / Date: Jul 31, 2004 |
Radiation | Monochromator: GRAPHITE / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.978 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→30 Å / Num. all: 26220 / Num. obs: 25934 / % possible obs: 99 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 17.8 % / Rmerge(I) obs: 0.159 / Net I/σ(I): 10 |
Reflection shell | Resolution: 2.2→2.28 Å / Rmerge(I) obs: 0.316 / Mean I/σ(I) obs: 4.5 / % possible all: 99.8 |
-Processing
Software |
| |||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1ZTY Resolution: 2.2→30 Å / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber
| |||||||||||||||||||||||||
Refine analyze |
| |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.2→30 Å
| |||||||||||||||||||||||||
Refine LS restraints |
|