X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2Y4HPDB ENTRY 2Y4H

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
172967% PEG 4000, 0.025 M MG ACETATE, 23 DEGREES C, pH 7.0
Crystal Properties
Matthews coefficientSolvent content
2.3648

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 82.752α = 90
b = 57.428β = 113.47
c = 101.929γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110CCDADSC QUANTUM 315rMIRRORS2009-07-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 8.3.1ALS8.3.1

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
11.6193.570.40.0416.23.5794301.520.4
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)
11.611.711.10.32.21.9

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 2Y4H1.6275.9175373403870.440.11830.11460.18821RANDOM18.569
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]
0.38-0.170.13-0.65
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.054
r_dihedral_angle_4_deg19.042
r_dihedral_angle_3_deg13.429
r_scangle_it6.378
r_dihedral_angle_1_deg5.672
r_scbond_it4.357
r_mcangle_it2.653
r_rigid_bond_restr2.366
r_angle_refined_deg1.904
r_mcbond_it1.702
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.054
r_dihedral_angle_4_deg19.042
r_dihedral_angle_3_deg13.429
r_scangle_it6.378
r_dihedral_angle_1_deg5.672
r_scbond_it4.357
r_mcangle_it2.653
r_rigid_bond_restr2.366
r_angle_refined_deg1.904
r_mcbond_it1.702
r_chiral_restr0.122
r_bond_refined_d0.023
r_gen_planes_refined0.01
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6233
Nucleic Acid Atoms
Solvent Atoms1137
Heterogen Atoms265

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing