4ZQC

Tryptophan Synthase from Salmonella typhimurium in complex with two molecules of N-(4'-trifluoromethoxybenzoyl)-2-amino-1-ethylphosphate (F6F) inhibitor in the alpha-site and a single F6F molecule in the beta-site at 1.54 Angstrom resolution.


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4Y6G 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7.829850 mM Bicine-NaOH, containing 10-14% PEG 8,000, and 2 mM spermine
Crystal Properties
Matthews coefficientSolvent content
2.5251.1

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 183.529α = 90
b = 58.63β = 94.92
c = 67.22γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152015-04-18MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 12.3.10.97930ALS12.3.1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym I (Observed)Rrim I (All)Rpim I (All)CC (Half)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.5430950.1050.1050.1230.0630.9877.23.89987099870
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.541.6292.40.5560.0440.0260.8132.13.814139

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT4Y6G1.5429.3194912495594.770.13820.13570.1866RANDOM20.132
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
0.19-0.05-0.330.15
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free39.105
r_dihedral_angle_2_deg36.569
r_sphericity_bonded19.13
r_dihedral_angle_4_deg17.931
r_dihedral_angle_3_deg12.066
r_dihedral_angle_1_deg5.778
r_scbond_it2.608
r_mcangle_it2.456
r_rigid_bond_restr2.371
r_mcbond_it1.863
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free39.105
r_dihedral_angle_2_deg36.569
r_sphericity_bonded19.13
r_dihedral_angle_4_deg17.931
r_dihedral_angle_3_deg12.066
r_dihedral_angle_1_deg5.778
r_scbond_it2.608
r_mcangle_it2.456
r_rigid_bond_restr2.371
r_mcbond_it1.863
r_angle_refined_deg1.736
r_chiral_restr0.114
r_bond_refined_d0.016
r_gen_planes_refined0.009
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5018
Nucleic Acid Atoms
Solvent Atoms869
Heterogen Atoms127

Software

Software
Software NamePurpose
REFMACrefinement
Blu-Icedata collection
SCALAdata scaling
MOLREPphasing
DMphasing
PDB_EXTRACTdata extraction
iMOSFLMdata reduction