+Open data
-Basic information
Entry | Database: PDB / ID: 2vue | ||||||
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Title | Human serum albumin complexed with 4Z,15E-bilirubin-IX-alpha | ||||||
Components | SERUM ALBUMIN | ||||||
Keywords | TRANSPORT PROTEIN / DISEASE MUTATION / ALTERNATIVE SPLICING / METAL-BINDING / LIPID-BINDING / CARRIER PROTEIN / COPPER / ALBUMIN / SECRETED / GLYCATION / BILIRUBIN / CLEAVAGE ON PAIR OF BASIC RESIDUES / POLYMORPHISM / DRUG-BINDING / GLYCOPROTEIN | ||||||
Function / homology | Function and homology information cellular response to calcium ion starvation / exogenous protein binding / Ciprofloxacin ADME / HDL remodeling / enterobactin binding / Heme biosynthesis / negative regulation of mitochondrial depolarization / Prednisone ADME / Heme degradation / antioxidant activity ...cellular response to calcium ion starvation / exogenous protein binding / Ciprofloxacin ADME / HDL remodeling / enterobactin binding / Heme biosynthesis / negative regulation of mitochondrial depolarization / Prednisone ADME / Heme degradation / antioxidant activity / Aspirin ADME / toxic substance binding / Scavenging of heme from plasma / Recycling of bile acids and salts / cellular response to starvation / platelet alpha granule lumen / fatty acid binding / Post-translational protein phosphorylation / Cytoprotection by HMOX1 / Regulation of Insulin-like Growth Factor (IGF) transport and uptake by Insulin-like Growth Factor Binding Proteins (IGFBPs) / pyridoxal phosphate binding / Platelet degranulation / protein-folding chaperone binding / blood microparticle / copper ion binding / endoplasmic reticulum lumen / Golgi apparatus / endoplasmic reticulum / protein-containing complex / DNA binding / extracellular space / extracellular exosome / extracellular region / identical protein binding / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | HOMO SAPIENS (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.42 Å | ||||||
Authors | Zunszain, P.A. / Ghuman, J. / Curry, S. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2008 Title: Crystallographic Analysis of Human Serum Albumin Complexed with 4Z,15E-Bilirubin-Ixalpha. Authors: Zunszain, P.A. / Ghuman, J. / Mcdonagh, A.F. / Curry, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2vue.cif.gz | 227.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2vue.ent.gz | 182.7 KB | Display | PDB format |
PDBx/mmJSON format | 2vue.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/vu/2vue ftp://data.pdbj.org/pub/pdb/validation_reports/vu/2vue | HTTPS FTP |
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-Related structure data
Related structure data | 2vufC 2bxaS 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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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 66571.219 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) HOMO SAPIENS (human) / Production host: PICHIA PASTORIS (fungus) / References: UniProt: P02768 #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: 2.4 Å3/Da / Density % sol: 50.1 % / Description: NONE |
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Crystal grow | pH: 7 / Details: SEE PAPER, pH 7 |
-Data collection
Diffraction | Mean temperature: 298 K |
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Diffraction source | Source: SYNCHROTRON / Site: EMBL/DESY, HAMBURG / Beamline: X11 / Wavelength: 0.813 |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Feb 15, 2003 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.813 Å / Relative weight: 1 |
Reflection | Resolution: 2.42→35.07 Å / Num. obs: 45968 / % possible obs: 94.9 % / Observed criterion σ(I): 0 / Redundancy: 1.9 % / Biso Wilson estimate: 52.6 Å2 / Rmerge(I) obs: 0.04 / Net I/σ(I): 9.8 |
Reflection shell | Resolution: 2.42→2.57 Å / Redundancy: 1.7 % / Rmerge(I) obs: 0.31 / Mean I/σ(I) obs: 2.2 / % possible all: 85.8 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 2BXA Resolution: 2.42→35.07 Å / Rfactor Rfree error: 0.006 / Data cutoff high absF: 875950.36 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0 / Details: BULK SOLVENT MODEL USED
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 57.9328 Å2 / ksol: 0.3 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 78.5 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.42→35.07 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.42→2.57 Å / Rfactor Rfree error: 0.018 / Total num. of bins used: 6
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Xplor file |
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