X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1HJZhomology model of macroH2A1.2 based on PDB-ID 1HJZ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.529825% PEG 5000MME 0.1 M Bis-Tris pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.346.3

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 40.549α = 90
b = 72.258β = 90
c = 144.641γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2004-11-18MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-10.93100ESRFID14-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
12.972.3697.50.06119.76.999579713-3-3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.93.0884.90.3114.464.71342

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (I)Cut-off Sigma (F)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUThomology model of macroH2A1.2 based on PDB-ID 1HJZ2.9272.36-3-3922592254871000.21650.21650.213430.27691RANDOM58.584
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]
5.97-0.77-5.2
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.398
r_dihedral_angle_3_deg21.945
r_dihedral_angle_4_deg14.66
r_dihedral_angle_1_deg6.454
r_scangle_it2.125
r_angle_refined_deg1.64
r_scbond_it1.228
r_mcangle_it0.969
r_mcbond_it0.531
r_symmetry_vdw_refined0.331
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.398
r_dihedral_angle_3_deg21.945
r_dihedral_angle_4_deg14.66
r_dihedral_angle_1_deg6.454
r_scangle_it2.125
r_angle_refined_deg1.64
r_scbond_it1.228
r_mcangle_it0.969
r_mcbond_it0.531
r_symmetry_vdw_refined0.331
r_nbtor_refined0.314
r_nbd_refined0.242
r_symmetry_hbond_refined0.167
r_xyhbond_nbd_refined0.159
r_chiral_restr0.106
r_bond_refined_d0.015
r_gen_planes_refined0.004
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2848
Nucleic Acid Atoms
Solvent Atoms7
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing