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- PDB-2jfq: Crystal structure of Staphylococcus aureus glutamate racemase in ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2jfq | ||||||
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Title | Crystal structure of Staphylococcus aureus glutamate racemase in complex with D- Glutamate | ||||||
![]() | GLUTAMATE RACEMASE | ||||||
![]() | ISOMERASE / CELL WALL / CELL SHAPE / GLUTAMATE RACEMASE / PEPTIDOGLYCAN SYNTHESIS / 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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Remark 650 | HELIX DETERMINATION METHOD: AUTHOR PROVIDED. | ||||||
Remark 700 | SHEET DETERMINATION METHOD: AUTHOR PROVIDED. |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 118.1 KB | Display | ![]() |
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PDB format | ![]() | 91.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 438 KB | Display | ![]() |
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Full document | ![]() | 445.7 KB | Display | |
Data in XML | ![]() | 22 KB | Display | |
Data in CIF | ![]() | 1.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2jfnC ![]() 2jfoC ![]() 2jfpSC ![]() 2jfuC ![]() 2jfvC ![]() 2jfwC ![]() 2jfxC ![]() 2jfyC ![]() 2jfzC S: Starting model for refinement 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: 31899.477 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | #3: Water | ChemComp-HOH / | Sequence details | PATENT DATABASE Q6GHT5. CLOSEST PUBLIC DATABASE REFERENCE SWISS-PROT MURI_STAAR WITH PRO AT ...PATENT DATABASE Q6GHT5. CLOSEST PUBLIC DATABASE REFERENCE SWISS-PROT MURI_STAAR WITH PRO AT POSITION 110. THIS SEQUENCE DIFFERENCE | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3 Å3/Da / Density % sol: 59 % |
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Crystal grow | pH: 7.4 Details: PROTEIN FORMULATED AT 10 MG/ML WITH 200 MM AMMONIUM ACETATE PH 7.4, 5 MM D-L GLUTAMATE, 1 MM TCEP AND CRYSTALLISED WITH 0.17 MM AMMONIUM SULPHATE AND 25% PEG 8000 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Dec 17, 2002 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9392 Å / Relative weight: 1 |
Reflection | Resolution: 2.13→34 Å / Num. obs: 41628 / % possible obs: 98.2 % / Observed criterion σ(I): 2 / Redundancy: 4 % / Rmerge(I) obs: 0.1 / Net I/σ(I): 6.7 |
Reflection shell | Resolution: 2.13→2.22 Å / Redundancy: 3.5 % / Rmerge(I) obs: 0.34 / Mean I/σ(I) obs: 2.2 / % possible all: 90.7 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 2JFP Resolution: 2.15→34 Å / Cross valid method: THROUGHOUT / σ(F): 0
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Solvent computation | Bsol: 47.6611 Å2 / ksol: 0.412448 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 27.04 Å2
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Refinement step | Cycle: LAST / Resolution: 2.15→34 Å
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Refine LS restraints |
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