X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3A4GPDB ENTRY 3A4G

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.52930.1M calcium acetate, 13% PEG3350, pH7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.7855.74

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 77.378α = 90
b = 172.467β = 90
c = 189.873γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 2702009-06-21MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONPHOTON FACTORY BEAMLINE AR-NE3A1.0000Photon FactoryAR-NE3A

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)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
12.2501000.101267.312900927.9
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.22.2499.80.4992.8666327

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 REPLACEMENTTHROUGHOUTPDB ENTRY 3A4G2.249.27122448646599.860.202750.200540.24407RANDOM34.106
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]
0.6-0.37-0.23
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.2
r_dihedral_angle_4_deg18.166
r_dihedral_angle_3_deg16.363
r_dihedral_angle_1_deg5.965
r_scangle_it3.283
r_scbond_it2.122
r_angle_refined_deg1.557
r_mcangle_it1.396
r_mcbond_it0.854
r_nbtor_refined0.295
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.2
r_dihedral_angle_4_deg18.166
r_dihedral_angle_3_deg16.363
r_dihedral_angle_1_deg5.965
r_scangle_it3.283
r_scbond_it2.122
r_angle_refined_deg1.557
r_mcangle_it1.396
r_mcbond_it0.854
r_nbtor_refined0.295
r_nbd_refined0.202
r_symmetry_vdw_refined0.182
r_xyhbond_nbd_refined0.143
r_symmetry_hbond_refined0.135
r_chiral_restr0.105
r_metal_ion_refined0.068
r_symmetry_metal_ion_refined0.062
r_bond_refined_d0.015
r_gen_planes_refined0.006
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms15550
Nucleic Acid Atoms
Solvent Atoms814
Heterogen Atoms257

Software

Software
Software NamePurpose
ADSCdata collection
MOLREPphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling