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Open data
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Basic information
Entry | Database: PDB / ID: 5a5g | ||||||
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Title | Crystal structure of FTHFS2 from T.acetoxydans Re1 | ||||||
![]() | FORMATE--TETRAHYDROFOLATE LIGASE | ||||||
![]() | LIGASE | ||||||
Function / homology | ![]() formate-tetrahydrofolate ligase / formate-tetrahydrofolate ligase activity / tetrahydrofolate interconversion / ATP binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Bergdahl, R. / Jacobson, F. / Muller, B. / Mikkelsen, N. / Schurer, A. / Sandgren, M. | ||||||
![]() | ![]() Title: Characterization, Crystallization and Three- Dimensional Structures of Formyltetrahydrofolate Synthetase (Fthfs) from the Syntrophic Acetate Oxidising Bacterium Tepidanaerobacter Acetatoxydans Re1 Authors: Bergdahl, R. / Jacobson, F. / Muller, B. / Mikkelsen, N. / Schurer, A. / Sandgren, 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 | ![]() | 230.5 KB | Display | ![]() |
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PDB format | ![]() | 184 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 460.1 KB | Display | ![]() |
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Full document | ![]() | 474.7 KB | Display | |
Data in XML | ![]() | 45.5 KB | Display | |
Data in CIF | ![]() | 65.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5a4jC ![]() 3rbo C: citing same article ( S: Starting model for refinement |
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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 on special symmetry positions |
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Components
#1: Protein | Mass: 59770.910 Da / Num. of mol.: 2 / Fragment: ENZYMATIC DOMAIN, UNP RESIDUES 4-561 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: RE1 / Production host: ![]() ![]() References: UniProt: F4LTH5, formate-tetrahydrofolate ligase #2: Chemical | ChemComp-K / #3: Chemical | ChemComp-GOL / | #4: Chemical | ChemComp-PEG / | #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.35 Å3/Da / Density % sol: 48 % / Description: NONE |
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Crystal grow | pH: 6.5 Details: 0.24 M SODIUM-POTASSIUM TARTRATE 0.12 M BIS-TRIS PROPANE PH 6.5 16% W/V PEG 3350 THEN SEEDING UNDER OTHER CONDITIONS: 0.2 M K2SO4 0.1 M AMMONIUMACTETATE PH 6.8 20% W/V PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Nov 16, 2011 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.04088 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→29.64 Å / Num. obs: 50934 / % possible obs: 98.6 % / Observed criterion σ(I): 1.7 / Redundancy: 3.8 % / Rmerge(I) obs: 0.05 / Net I/σ(I): 15.4 |
Reflection shell | Resolution: 2.3→2.42 Å / Redundancy: 3.9 % / Rmerge(I) obs: 0.44 / Mean I/σ(I) obs: 1.66 / % possible all: 98.3 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 3RBO ![]() 3rbo Resolution: 2.3→29.66 Å / Cor.coef. Fo:Fc: 0.963 / Cor.coef. Fo:Fc free: 0.93 / SU B: 8.992 / SU ML: 0.205 / Cross valid method: THROUGHOUT / ESU R: 0.368 / ESU R Free: 0.249 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. U VALUES REFINED INDIVIDUALLY
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 53.435 Å2
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Refinement step | Cycle: LAST / Resolution: 2.3→29.66 Å
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Refine LS restraints |
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