X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2XR8PDB ENTRY 2XR8

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16PROTEIN WAS CRYSTALLIZED FROM 20% PEG 5000MME, 50 MM PIPES, PH 6.5.
Crystal Properties
Matthews coefficientSolvent content
2.449

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 132.824α = 102.65
b = 132.646β = 101.11
c = 130.423γ = 105.31
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC SX-1652004-02-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 14-ID-BAPS14-ID-B

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
12.4100930.0613.82.73098852.249.4
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)
12.42.48740.272.21.2

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 2XR82.42119.52291398300195.050.233020.232640.27031RANDOM44.677
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]
-0.43-0.050.04-0.641.091.53
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.418
r_dihedral_angle_3_deg14.553
r_dihedral_angle_4_deg13.899
r_dihedral_angle_1_deg5.168
r_angle_refined_deg0.905
r_scangle_it0.705
r_scbond_it0.486
r_mcangle_it0.448
r_mcbond_it0.301
r_nbtor_refined0.297
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.418
r_dihedral_angle_3_deg14.553
r_dihedral_angle_4_deg13.899
r_dihedral_angle_1_deg5.168
r_angle_refined_deg0.905
r_scangle_it0.705
r_scbond_it0.486
r_mcangle_it0.448
r_mcbond_it0.301
r_nbtor_refined0.297
r_symmetry_hbond_refined0.215
r_nbd_refined0.162
r_symmetry_vdw_refined0.123
r_xyhbond_nbd_refined0.113
r_metal_ion_refined0.095
r_chiral_restr0.061
r_bond_refined_d0.006
r_gen_planes_refined0.002
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_other
r_symmetry_vdw_other
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_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms59079
Nucleic Acid Atoms
Solvent Atoms694
Heterogen Atoms204

Software

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