X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1VZWPDB ENTRY 1VZW

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
15.732% PEG 6000, 0.1M SODIUM CITRATE PH 5.7, 5MM RCDRP.
Crystal Properties
Matthews coefficientSolvent content
2.2344.29

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 45.98α = 90
b = 121.07β = 95.6
c = 81.14γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2004-11-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE BM14ESRFBM14

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
12.43099.30.164.93.834306-333
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)
12.42.595.10.62.13.7

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 1VZW2.43032627173199.870.216630.212810.28726RANDOM29.899
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]
1.150.3-1.210.12
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.744
r_dihedral_angle_4_deg20.345
r_dihedral_angle_3_deg16.758
r_dihedral_angle_1_deg6.539
r_scangle_it1.587
r_angle_refined_deg1.234
r_scbond_it1.009
r_angle_other_deg0.773
r_mcangle_it0.623
r_mcbond_it0.531
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.744
r_dihedral_angle_4_deg20.345
r_dihedral_angle_3_deg16.758
r_dihedral_angle_1_deg6.539
r_scangle_it1.587
r_angle_refined_deg1.234
r_scbond_it1.009
r_angle_other_deg0.773
r_mcangle_it0.623
r_mcbond_it0.531
r_symmetry_vdw_other0.26
r_symmetry_hbond_refined0.21
r_nbd_refined0.198
r_nbd_other0.179
r_xyhbond_nbd_refined0.172
r_symmetry_vdw_refined0.166
r_nbtor_refined0.164
r_nbtor_other0.089
r_chiral_restr0.066
r_bond_refined_d0.01
r_gen_planes_refined0.003
r_bond_other_d0.002
r_gen_planes_other0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_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 Atoms6920
Nucleic Acid Atoms
Solvent Atoms188
Heterogen Atoms107

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing