+Open data
-Basic information
Entry | Database: PDB / ID: 1ixh | ||||||
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Title | PHOSPHATE-BINDING PROTEIN (PBP) COMPLEXED WITH PHOSPHATE | ||||||
Components | PHOSPHATE-BINDING PROTEIN | ||||||
Keywords | PHOSPHATE TRANSPORT / ULTRA HIGH RESOLUTION / PHOSPHATE BINDIN PROTEIN | ||||||
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 / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 0.98 Å | ||||||
Authors | Wang, Z. / Luecke, H. / Quiocho, F.A. | ||||||
Citation | Journal: Nat.Struct.Biol. / Year: 1997 Title: A low energy short hydrogen bond in very high resolution structures of protein receptor--phosphate complexes. Authors: Wang, Z. / Luecke, H. / Yao, N. / Quiocho, F.A. #1: Journal: Proc.Natl.Acad.Sci.USA / Year: 1996 Title: Negative Electrostatic Surface Potential of Protein Sites Specific for Anionic Ligands Authors: Ledvina, P.S. / Yao, N. / Choudhary, A. / Quiocho, F.A. #2: Journal: Biochemistry / Year: 1996 Title: Modulation of a Salt Link Does not Affect Binding of Phosphate to its Specific Active Transport Receptor Authors: Yao, N. / Ledvina, P.S. / Choudhary, A. / Quiocho, F.A. #3: 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. #4: Journal: J.Biol.Chem. / Year: 1994 Title: The Immunodominant 38-kDa Lipoprotein Antigen of Mycobacterium Tuberculosis is a Phosphate-Binding Protein Authors: Chang, Z. / Choudhary, A. / Lathigra, R. / Quiocho, F.A. #5: 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 | 1ixh.cif.gz | 204.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1ixh.ent.gz | 165 KB | Display | PDB format |
PDBx/mmJSON format | 1ixh.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ix/1ixh ftp://data.pdbj.org/pub/pdb/validation_reports/ix/1ixh | HTTPS FTP |
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-Related structure data
Related structure data | 1ixgC 1ixiC 1abh S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 34457.598 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Strain: PAN92 / Cell line: AN1667 / Cellular location: PERIPLASM / Gene: PHO-S / Cell line (production host): AN1667 / Cellular location (production host): PERIPLASM / Production host: Escherichia coli (E. coli) / Strain (production host): PIBI24 / References: UniProt: P06128, UniProt: P0AG82*PLUS |
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#2: Chemical | ChemComp-PO4 / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.4 Å3/Da / Density % sol: 40 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 4.5 / Details: pH 4.5 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion, hanging drop / Details: Wang, Z., (1994) J.Biol.Chem., 269, 25091. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRL / Beamline: BL7-1 / Wavelength: 1.08 |
Detector | Detector: IMAGE PLATE / Date: Jan 1, 1996 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.08 Å / Relative weight: 1 |
Reflection | Resolution: 0.98→19.4 Å / Num. obs: 147105 / % possible obs: 79.8 % / Observed criterion σ(I): 0 / Redundancy: 9.4 % / Rmerge(I) obs: 0.053 / Net I/σ(I): 35.3 |
Reflection shell | Resolution: 0.98→1 Å / Redundancy: 3.9 % / Rmerge(I) obs: 0.246 / Mean I/σ(I) obs: 3.6 / % possible all: 29.8 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1ABH 1abh Resolution: 0.98→19.4 Å / Num. parameters: 28413 / Num. restraintsaints: 0 / Cross valid method: FREE R / σ(F): 0
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Solvent computation | Solvent model: MOEWS & KRETSINGER | ||||||||||||||||
Refine analyze | Num. disordered residues: 6 / Occupancy sum hydrogen: 547 / Occupancy sum non hydrogen: 3110 | ||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 0.98→19.4 Å
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