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- PDB-2jfo: Crystal structure of Enterococcus faecalis glutamate racemase in ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2jfo | ||||||
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Title | Crystal structure of Enterococcus faecalis glutamate racemase in complex with D- and L-Glutamate | ||||||
![]() | GLUTAMATE RACEMASE | ||||||
![]() | ISOMERASE / GLUTAMATE RACEMASE / PEPTIDOGLYCAN BIOSYNTHESIS | ||||||
Function / homology | ![]() glutamate racemase / glutamate racemase activity / peptidoglycan biosynthetic process / cell wall organization / regulation of cell shape / identical protein binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Lundqvist, T. | ||||||
![]() | ![]() Title: Exploitation of Structural and Regulatory Diversity in Glutamate Racemases Authors: Lundqvist, T. / Fisher, S.L. / Kern, G. / Folmer, R.H.A. / Xue, Y. / Newton, D.T. / Keating, T.A. / Alm, R.A. / De Jonge, B.L.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 | ![]() | 113.7 KB | Display | ![]() |
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PDB format | ![]() | 89.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 460.7 KB | Display | ![]() |
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Full document | ![]() | 475.1 KB | Display | |
Data in XML | ![]() | 24.8 KB | Display | |
Data in CIF | ![]() | 34.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2jfnC ![]() 2jfpC ![]() 2jfqC ![]() 2jfuC ![]() 2jfvC ![]() 2jfwC ![]() 2jfxC ![]() 2jfyC ![]() 2jfzC C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 31606.543 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | ChemComp-GLU / | #3: Chemical | ChemComp-DGL / | #4: Water | ChemComp-HOH / | Sequence details | DATABASE REFERENCE GENESEQP ADR04180 (PATENT DATABASE). CLOSEST PUBLIC REFERENCE IS GENPEPT NP_ ...DATABASE REFERENCE GENESEQP ADR04180 (PATENT DATABASE). CLOSEST PUBLIC REFERENCE IS GENPEPT NP_814851 HAS 2 DIFFERENCE | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.4 Å3/Da / Density % sol: 43.5 % |
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Crystal grow | pH: 7.5 Details: PROTEIN FORMULATED AT 10 MG/ML WITH 200MM AMMONIUM ACETATE PH 7.4, 5MM D-L GLUTAMATE, 1 MM TCEP AND CRYSTALLISED WITH 0.2 MM MGCL2 AND 20-25% PEG 4000 |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | ||||||||||||
Detector | Type: ADSC CCD / Detector: CCD / Date: Sep 29, 2000 | ||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 2.5→20 Å / Num. obs: 18738 / % possible obs: 95.6 % / Observed criterion σ(I): 2 / Redundancy: 4.8 % / Rmerge(I) obs: 0.12 / Net I/σ(I): 4.4 | ||||||||||||
Reflection shell | Resolution: 2.5→2.64 Å / Redundancy: 3.2 % / Rmerge(I) obs: 0.33 / Mean I/σ(I) obs: 2.3 / % possible all: 96.2 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Bsol: 38.4821 Å2 / ksol: 0.354432 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 38.48 Å2
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Refinement step | Cycle: LAST / Resolution: 2.5→20 Å
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Refine LS restraints |
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