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Yorodumi- PDB-5d3o: Crystal structure of full length human glutaminase C expressed in... -
+Open data
-Basic information
Entry | Database: PDB / ID: 5d3o | ||||||
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Title | Crystal structure of full length human glutaminase C expressed in E.coli | ||||||
Components | Glutaminase kidney isoform, mitochondrial | ||||||
Keywords | HYDROLASE / Glutaminase C / GAC | ||||||
Function / homology | Function and homology information glutamine catabolic process / glutamate biosynthetic process / regulation of respiratory gaseous exchange by nervous system process / Glutamate and glutamine metabolism / intracellular glutamate homeostasis / Glutamate Neurotransmitter Release Cycle / glutaminase / glutaminase activity / suckling behavior / TP53 Regulates Metabolic Genes ...glutamine catabolic process / glutamate biosynthetic process / regulation of respiratory gaseous exchange by nervous system process / Glutamate and glutamine metabolism / intracellular glutamate homeostasis / Glutamate Neurotransmitter Release Cycle / glutaminase / glutaminase activity / suckling behavior / TP53 Regulates Metabolic Genes / chemical synaptic transmission / protein homotetramerization / mitochondrial matrix / synapse / mitochondrion / cytosol Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.791 Å | ||||||
Authors | Huang, Q. | ||||||
Funding support | United States, 1items
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Citation | Journal: To Be Published Title: Crystal structure of full length human glutaminase C expressed in E.coli Authors: Huang, Q. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5d3o.cif.gz | 163.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5d3o.ent.gz | 128 KB | Display | PDB format |
PDBx/mmJSON format | 5d3o.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/d3/5d3o ftp://data.pdbj.org/pub/pdb/validation_reports/d3/5d3o | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 58023.996 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: GLS, GLS1, KIAA0838 / Plasmid: pSUMO / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: O94925, glutaminase |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.79 Å3/Da / Density % sol: 55.85 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 8 / Details: 15% PEG6000, 1.0M LiCl, 0.1M Tris-HCL, pH8.0 / PH range: 7.5-8.5 / Temp details: room temperature |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: CHESS / Beamline: F1 / Wavelength: 0.92 Å |
Detector | Type: ADSC QUANTUM 270 / Detector: CCD / Date: May 8, 2011 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.92 Å / Relative weight: 1 |
Reflection | Resolution: 2.79→50 Å / Num. obs: 32955 / % possible obs: 99.3 % / Redundancy: 6.9 % / Rmerge(I) obs: 0.108 / Net I/σ(I): 16.4 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2.791→37.772 Å / SU ML: 0.3 / Cross valid method: FREE R-VALUE / σ(F): 0 / Phase error: 30.98 / Stereochemistry target values: MLHL
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Solvent computation | Shrinkage radii: 0.72 Å / VDW probe radii: 1 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 59.267 Å2 / ksol: 0.314 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 2.791→37.772 Å
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Refine LS restraints |
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LS refinement shell |
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