X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1AGRPDB ENTRY 1AGR

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
15.50.1 M BIS-TRIS, PH 5.5, 26% PEG3350, 0.1 M NH4AC
Crystal Properties
Matthews coefficientSolvent content
2.142

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 160.585α = 90
b = 31.743β = 94.39
c = 151.766γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHMIRRORS2005-04-23MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X10SASLSX10SA

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
11.944.2395.60.089.53.32216171
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)
11.9285.20.452.392.66

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 1AGR1.93055845298095.60.1950.1920.25RANDOM28.88
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]
-1.480.34-1.272.8
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.241
r_dihedral_angle_4_deg20.784
r_dihedral_angle_3_deg14.645
r_scangle_it9.207
r_scbond_it6.81
r_dihedral_angle_1_deg5.563
r_mcangle_it4.251
r_mcbond_it3.258
r_mcbond_other1.477
r_angle_refined_deg1.404
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.241
r_dihedral_angle_4_deg20.784
r_dihedral_angle_3_deg14.645
r_scangle_it9.207
r_scbond_it6.81
r_dihedral_angle_1_deg5.563
r_mcangle_it4.251
r_mcbond_it3.258
r_mcbond_other1.477
r_angle_refined_deg1.404
r_angle_other_deg0.873
r_nbd_refined0.225
r_xyhbond_nbd_refined0.218
r_nbtor_refined0.188
r_nbd_other0.176
r_symmetry_hbond_refined0.173
r_symmetry_vdw_other0.165
r_symmetry_vdw_refined0.162
r_nbtor_other0.089
r_chiral_restr0.085
r_bond_refined_d0.015
r_gen_planes_refined0.006
r_bond_other_d0.001
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_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 Atoms5536
Nucleic Acid Atoms
Solvent Atoms376
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing