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Yorodumi- PDB-5f4x: Fructose-1,6-bisphosphate aldolase K229M mutant from rabbit muscle -
+Open data
-Basic information
Entry | Database: PDB / ID: 5f4x | ||||||
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Title | Fructose-1,6-bisphosphate aldolase K229M mutant from rabbit muscle | ||||||
Components | Fructose-bisphosphate aldolase A | ||||||
Keywords | LYASE / Aldolase / Class I / Lysine mutant | ||||||
Function / homology | Function and homology information negative regulation of Arp2/3 complex-mediated actin nucleation / fructose-bisphosphate aldolase / fructose-bisphosphate aldolase activity / M band / I band / glycolytic process / protein homotetramerization / positive regulation of cell migration Similarity search - Function | ||||||
Biological species | Oryctolagus cuniculus (rabbit) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.84 Å | ||||||
Authors | LowKam, C. / Arthus-Cartier, G. | ||||||
Citation | Journal: To Be Published Title: DECYCLIZATION DETERMINES DIASTEREOISOMERIC SUBSTRATE SPECIFICITY OF MAMMALIAN CLASS I FRUCTOSE-1,6-BISPHOSPHATE ALDOLASE Authors: LowKam, C. / Arthus-Cartier, G. / Sygusch, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5f4x.cif.gz | 558.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5f4x.ent.gz | 464.8 KB | Display | PDB format |
PDBx/mmJSON format | 5f4x.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/f4/5f4x ftp://data.pdbj.org/pub/pdb/validation_reports/f4/5f4x | HTTPS FTP |
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-Related structure data
Related structure data | 1zahS 5f2j S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 39265.688 Da / Num. of mol.: 4 / Mutation: K229M Source method: isolated from a genetically manipulated source Source: (gene. exp.) Oryctolagus cuniculus (rabbit) / Gene: ALDOA / Production host: Escherichia coli (E. coli) / References: UniProt: P00883, fructose-bisphosphate aldolase #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: 2.29 Å3/Da / Density % sol: 46.33 % |
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Crystal grow | Temperature: 296 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: Sodium HEPES, PEG 4000, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 296K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X29A / Wavelength: 0.9795 Å |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Jul 18, 2007 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9795 Å / Relative weight: 1 |
Reflection | Resolution: 1.84→35.201 Å / Num. obs: 122560 / % possible obs: 99.7 % / Redundancy: 3.6 % / Net I/σ(I): 25.13 |
Reflection shell | Resolution: 1.84→1.91 Å / Redundancy: 3.1 % / Mean I/σ(I) obs: 3.43 / Num. unique all: 12223 / % possible all: 99.7 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 1ZAH Resolution: 1.84→35.201 Å / SU ML: 0.15 / Cross valid method: FREE R-VALUE / σ(F): 1.35 / Phase error: 16.83 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.84→35.201 Å
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Refine LS restraints |
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LS refinement shell |
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