X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3CBJPDB ENTRY 3CBJ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.22910.14M ammonium fluoride, 14% PEG 3350, pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
2.5351.38

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 85.066α = 90
b = 85.066β = 90
c = 115.691γ = 90
Symmetry
Space GroupP 42 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMAR CCD 165 mmmonochromator, multilayer mirror2007-04-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONMAX II BEAMLINE I911-21.041MAX III911-2

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
12.6768.5294.40.109155.71266211903-369.27
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)
12.672.7796.50.5762.151266

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (I)Number Reflections (All)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 3CBJ2.6720-3126621131157394.120.195430.193110.24232RANDOM52.476
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]
1.391.39-2.79
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.414
r_dihedral_angle_3_deg22.79
r_dihedral_angle_4_deg20.704
r_dihedral_angle_1_deg9.084
r_scangle_it3.743
r_scbond_it2.494
r_angle_refined_deg2.357
r_mcangle_it1.608
r_mcbond_it0.956
r_symmetry_hbond_refined0.418
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.414
r_dihedral_angle_3_deg22.79
r_dihedral_angle_4_deg20.704
r_dihedral_angle_1_deg9.084
r_scangle_it3.743
r_scbond_it2.494
r_angle_refined_deg2.357
r_mcangle_it1.608
r_mcbond_it0.956
r_symmetry_hbond_refined0.418
r_symmetry_vdw_refined0.358
r_nbtor_refined0.334
r_nbd_refined0.264
r_xyhbond_nbd_refined0.253
r_chiral_restr0.156
r_bond_refined_d0.024
r_gen_planes_refined0.008
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2820
Nucleic Acid Atoms
Solvent Atoms63
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data collection
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing