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Yorodumi- PDB-1pbp: FINE TUNING OF THE SPECIFICITY OF THE PERIPLASMIC PHOSPHATE TRANS... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1pbp | ||||||
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Title | FINE TUNING OF THE SPECIFICITY OF THE PERIPLASMIC PHOSPHATE TRANSPORT RECEPTOR: SITE-DIRECTED MUTAGENESIS, LIGAND BINDING, AND CRYSTALLOGRAPHIC STUDIES | ||||||
Components | PHOSPHATE-BINDING PROTEIN | ||||||
Keywords | PHOSPHATE TRANSPORT | ||||||
Function / homology | Function and homology information regulation of phosphatase activity / phosphate ion transport / phosphate ion transmembrane transport / phosphate ion binding / ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing / response to radiation / outer membrane-bounded periplasmic space / DNA damage response / membrane Similarity search - Function | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 1.9 Å | ||||||
Authors | Wang, Z. / Choudhary, A. / Ledvina, P.S. / Quiocho, F.A. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 1994 Title: Fine tuning the specificity of the periplasmic phosphate transport receptor. Site-directed mutagenesis, ligand binding, and crystallographic studies. Authors: Wang, Z. / Choudhary, A. / Ledvina, P.S. / Quiocho, F.A. #1: Journal: J.Biol.Chem. / Year: 1994 Title: Th E Immunodominant 38-kDa Lipoprotein Antigen of Mycobacterium Tuberculosis is a Phosphate-Binding Protein Authors: Chang, Z. / Choudhary, A. / Lathigra, R. / Quiocho, F.A. #2: Journal: Nature / Year: 1990 Title: High Specificity of a Phosphate Transport Protein Determined by Hydrogen Bonds Authors: Luecke, H. / Quiocho, F.A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1pbp.cif.gz | 74.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1pbp.ent.gz | 56.7 KB | Display | PDB format |
PDBx/mmJSON format | 1pbp.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1pbp_validation.pdf.gz | 402.3 KB | Display | wwPDB validaton report |
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Full document | 1pbp_full_validation.pdf.gz | 406 KB | Display | |
Data in XML | 1pbp_validation.xml.gz | 8.9 KB | Display | |
Data in CIF | 1pbp_validation.cif.gz | 13.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/pb/1pbp ftp://data.pdbj.org/pub/pdb/validation_reports/pb/1pbp | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 34471.582 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / References: UniProt: P06128, UniProt: P0AG82*PLUS |
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#2: Chemical | ChemComp-PO4 / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.44 Å3/Da / Density % sol: 49.67 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | *PLUS pH: 4.5 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | Num. obs: 22300 / % possible obs: 69.5 % / Observed criterion σ(F): 0 |
Reflection | *PLUS Highest resolution: 1.72 Å / Lowest resolution: 1.9 Å / Num. all: 38401 / Observed criterion σ(F): 0 / Rmerge(I) obs: 0.0447 |
-Processing
Software |
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Refinement | Resolution: 1.9→8 Å / σ(F): 0
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Refinement step | Cycle: LAST / Resolution: 1.9→8 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.147 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: x_angle_d / Dev ideal: 1.849 / Weight: 10 |