+Open data
-Basic information
Entry | Database: PDB / ID: 1usg | ||||||
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Title | L-leucine-binding protein, apo form | ||||||
Components | LEUCINE-SPECIFIC BINDING PROTEIN | ||||||
Keywords | TRANSPORT PROTEIN / LEUCINE-BINDING PROTEIN / PROTEIN STRUCTURE / ABC TRANSPORT SYSTEMS | ||||||
Function / homology | Function and homology information branched-chain amino acid transport / L-leucine binding / phenylalanine transport / L-leucine transport / ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing / outer membrane-bounded periplasmic space / membrane Similarity search - Function | ||||||
Biological species | ESCHERICHIA COLI (E. coli) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.53 Å | ||||||
Authors | Magnusson, U. / Salopek-Sondi, B. / Luck, L.A. / Mowbray, S.L. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2004 Title: X-Ray Structures of the Leucine-Binding Protein Illustrate Conformational Changes and the Basis of Ligand Specificity Authors: Magnusson, U. / Salopek-Sondi, B. / Luck, L.A. / Mowbray, S.L. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1usg.cif.gz | 81.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1usg.ent.gz | 60.1 KB | Display | PDB format |
PDBx/mmJSON format | 1usg.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/us/1usg ftp://data.pdbj.org/pub/pdb/validation_reports/us/1usg | HTTPS FTP |
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-Related structure data
Related structure data | 1usiC 1uskC 2lbpS C: citing same article (ref.) S: Starting model for refinement |
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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: 37079.699 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ESCHERICHIA COLI (E. coli) / Plasmid: PKSTY / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21 / References: UniProt: P04816 |
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#2: Water | ChemComp-HOH / |
Compound details | A COMPONENT OF THE LEUCINE-SPECIFIC TRANSPORT SYSTEM, WHICH IS ONE OF TWO PERIPLASMIC BINDING ...A COMPONENT OF THE LEUCINE-SPECIFIC TRANSPORT SYSTEM, WHICH IS ONE OF TWO PERIPLASMI |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.3 Å3/Da / Density % sol: 52.2 % | |||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 8 Details: PEG 5000, SODIUM ACETATE PH 4.6, AMMONIUM SULPHATE, COCL2. | |||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 4 ℃ / pH: 8 / Method: vapor diffusion, hanging drop | |||||||||||||||||||||||||||||||||||||||||||||||||
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: MAX II / Beamline: I711 / Wavelength: 0.937 |
Detector | Date: Mar 15, 2003 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.937 Å / Relative weight: 1 |
Reflection | Resolution: 1.53→32.6 Å / Num. obs: 48509 / % possible obs: 95.7 % / Redundancy: 3.2 % / Rmerge(I) obs: 0.046 / Net I/σ(I): 25.4 |
Reflection shell | Resolution: 1.53→1.56 Å / Redundancy: 2.6 % / Rmerge(I) obs: 0.177 / Mean I/σ(I) obs: 4.9 / % possible all: 93.3 |
Reflection | *PLUS Highest resolution: 1.53 Å / Lowest resolution: 32.62 Å / Redundancy: 3.2 % / Rmerge(I) obs: 0.046 |
Reflection shell | *PLUS % possible obs: 93.3 % / Redundancy: 2.6 % / Rmerge(I) obs: 0.177 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 2LBP Resolution: 1.53→32.62 Å / Cor.coef. Fo:Fc: 0.956 / Cor.coef. Fo:Fc free: 0.947 / SU B: 1.325 / SU ML: 0.051 / Cross valid method: THROUGHOUT / ESU R: 0.083 / ESU R Free: 0.083 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 18.21 Å2
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Refinement step | Cycle: LAST / Resolution: 1.53→32.62 Å
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Refine LS restraints |
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