+Open data
-Basic information
Entry | Database: PDB / ID: 3b0o | ||||||
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Title | Crystal structure of alpha-lactalbumin | ||||||
Components | Alpha-lactalbumin | ||||||
Keywords | METAL BINDING PROTEIN / Calcium Binding Protein | ||||||
Function / homology | Function and homology information Lactose synthesis / lactose synthase activity / lactose biosynthetic process / Golgi lumen / cell-cell signaling / lysozyme activity / defense response to bacterium / Golgi membrane / apoptotic process / calcium ion binding ...Lactose synthesis / lactose synthase activity / lactose biosynthetic process / Golgi lumen / cell-cell signaling / lysozyme activity / defense response to bacterium / Golgi membrane / apoptotic process / calcium ion binding / signal transduction / protein-containing complex / extracellular space Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.61 Å | ||||||
Authors | Makabe, K. / Kuwajima, K. | ||||||
Citation | Journal: Protein Eng.Des.Sel. / Year: 2013 Title: Structural insights into the stability perturbations induced by N-terminal variation in human and goat alpha-lactalbumin Authors: Makabe, K. / Nakamura, T. / Kuwajima, K. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3b0o.cif.gz | 62.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3b0o.ent.gz | 50 KB | Display | PDB format |
PDBx/mmJSON format | 3b0o.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/b0/3b0o ftp://data.pdbj.org/pub/pdb/validation_reports/b0/3b0o | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 14095.144 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: LALBA, LYZL7 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: P00709 #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 1.84 Å3/Da / Density % sol: 33.07 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.7 Details: 1.8M ammonium sulphate, 10mM CaCl2, 0.1M Tris-HCl, 40mg/ml protein, pH 7.7, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: Photon Factory / Beamline: AR-NW12A / Wavelength: 1 Å |
Detector | Type: ADSC QUANTUM 210r / Detector: CCD / Date: Nov 20, 2009 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.6→50 Å / Num. all: 26390 / Num. obs: 26390 / % possible obs: 99.8 % / Observed criterion σ(I): 1 |
Reflection shell | Resolution: 1.62→1.65 Å / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 1.61→20 Å / Cor.coef. Fo:Fc: 0.967 / Cor.coef. Fo:Fc free: 0.948 / SU B: 1.476 / SU ML: 0.054 / Cross valid method: THROUGHOUT / ESU R Free: 0.094 / 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: 16.646 Å2
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Refinement step | Cycle: LAST / Resolution: 1.61→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.61→1.652 Å / Total num. of bins used: 20
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