+Open data
-Basic information
Entry | Database: PDB / ID: 5orf | ||||||
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Title | Structure of ovine serum albumin in P1 space group | ||||||
Components | Serum albumin | ||||||
Keywords | TRANSPORT PROTEIN / ovine serum albumin / triclinic system | ||||||
Function / homology | Function and homology information enterobactin binding / lipid binding / extracellular space / metal ion binding Similarity search - Function | ||||||
Biological species | Ovis aries (sheep) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.54 Å | ||||||
Authors | Talaj, J.A. / Bujacz, A. / Bujacz, G. / Pietrzyk-Brzezinska, A.J. | ||||||
Funding support | Poland, 1items
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Citation | Journal: Acta Crystallogr D Struct Biol / Year: 2017 Title: Crystal structures of serum albumins from domesticated ruminants and their complexes with 3,5-diiodosalicylic acid. Authors: Bujacz, A. / Talaj, J.A. / Zielinski, K. / Pietrzyk-Brzezinska, A.J. / Neumann, P. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5orf.cif.gz | 914.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5orf.ent.gz | 768.3 KB | Display | PDB format |
PDBx/mmJSON format | 5orf.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/or/5orf ftp://data.pdbj.org/pub/pdb/validation_reports/or/5orf | HTTPS FTP |
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-Related structure data
Related structure data | 5oriC 5oswC 5otbC 4lufS 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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2 |
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3 |
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4 |
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Unit cell |
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-Components
#1: Protein | Mass: 66427.820 Da / Num. of mol.: 4 / Source method: isolated from a natural source / Source: (natural) Ovis aries (sheep) / Tissue: blood / References: UniProt: P14639 #2: Chemical | ChemComp-PGE / #3: Chemical | #4: Chemical | ChemComp-PRO / #5: 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: 2.29 Å3/Da / Density % sol: 46.21 % / Description: plate |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 20% PEG3350, 0.2 M ammonium chloride, 0.1 M proline |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: PETRA III, EMBL c/o DESY / Beamline: P13 (MX1) / Wavelength: 1.07106 Å |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Dec 18, 2013 / Details: mirrors |
Radiation | Monochromator: Si 1 1 1 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.07106 Å / Relative weight: 1 |
Reflection | Resolution: 2.54→50 Å / Num. obs: 70636 / % possible obs: 90.1 % / Observed criterion σ(I): -3 / Redundancy: 3.64 % / Rmerge(I) obs: 0.092 / Net I/σ(I): 11.36 |
Reflection shell | Resolution: 2.54→2.64 Å / Redundancy: 3.46 % / Rmerge(I) obs: 0.694 / Mean I/σ(I) obs: 2.09 / Num. unique obs: 7502 / % possible all: 87.5 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 4LUF Resolution: 2.54→49 Å / Cor.coef. Fo:Fc: 0.948 / Cor.coef. Fo:Fc free: 0.911 / SU B: 20.583 / SU ML: 0.217 / Cross valid method: THROUGHOUT / ESU R Free: 0.358 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN USED IF PRESENT IN THE INPUT
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 54.284 Å2
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Refinement step | Cycle: 1 / Resolution: 2.54→49 Å
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Refine LS restraints |
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