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Open data
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Basic information
Entry | Database: PDB / ID: 3if5 | |||||||||
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Title | Crystal Structure Analysis of Mglu | |||||||||
![]() | Salt-tolerant glutaminase | |||||||||
![]() | HYDROLASE / Fragment | |||||||||
Function / homology | ![]() glutamine catabolic process / glutamate biosynthetic process / glutaminase / glutaminase activity Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Yoshimune, K. / Shirakihara, Y. | |||||||||
![]() | ![]() Title: Crystal structure of salt-tolerant glutaminase from Micrococcus luteus K-3 in the presence and absence of its product L-glutamate and its activator Tris. Authors: Yoshimune, K. / Shirakihara, Y. / Wakayama, M. / Yumoto, I. #1: Journal: Biochem.Biophys.Res.Commun. / Year: 2006 Title: Crystal structure of a major fragment of the salt-tolerant glutaminase from Micrococcus luteus K-3 Authors: Yoshimune, K. / Shirakihara, Y. / Shiratori, A. / Wakayama, M. / Chantawannakul, P. / Moriguchi, M. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 89.5 KB | Display | ![]() |
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PDB format | ![]() | 68 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 430.3 KB | Display | ![]() |
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Full document | ![]() | 440.4 KB | Display | |
Data in XML | ![]() | 18.1 KB | Display | |
Data in CIF | ![]() | 25 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 48303.516 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.52 Å3/Da / Density % sol: 51.18 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 700mM Sodium Citrate, 50mM HEPES, 5mM MgCl2, 5% Glycerol, pH 7.5, vapor diffusion, hanging drop, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | ||||||||||||
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Sep 26, 2001 | ||||||||||||
Radiation | Monochromator: Rotated-inclined double-crystal monochromator Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 2.4→36.18 Å / Num. all: 18367 / Num. obs: 17155 / Redundancy: 6.8 % / Biso Wilson estimate: 38.9 Å2 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 46.196 Å2 / ksol: 0.4 e/Å3 | ||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 110.85 Å2 / Biso mean: 39.072 Å2 / Biso min: 2.42 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.44→36.18 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.4→2.55 Å / Rfactor Rfree error: 0.034 / Total num. of bins used: 6
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Xplor file |
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