X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1BPWPDB ENTRY 1BPW

Crystallization

Crystal Properties
Matthews coefficientSolvent content
2.3246.53

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 88.16α = 90.5
b = 111.02β = 98.1
c = 113.64γ = 111.59
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100 MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONPAL/PLSPAL/PLS

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
12.830.2930.127.32.9863822
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)
12.82.9850.32.12.3

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 1BPW2.8330.198205043321000.2110.210.228RANDOM21.48
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]
-0.20.130.11-0.46-0.460.78
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.999
r_dihedral_angle_4_deg16.101
r_dihedral_angle_3_deg15.112
r_dihedral_angle_1_deg5.142
r_scangle_it1.637
r_angle_refined_deg1.062
r_scbond_it0.931
r_mcangle_it0.618
r_mcbond_it0.358
r_nbtor_refined0.301
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.999
r_dihedral_angle_4_deg16.101
r_dihedral_angle_3_deg15.112
r_dihedral_angle_1_deg5.142
r_scangle_it1.637
r_angle_refined_deg1.062
r_scbond_it0.931
r_mcangle_it0.618
r_mcbond_it0.358
r_nbtor_refined0.301
r_nbd_refined0.193
r_symmetry_vdw_refined0.164
r_symmetry_hbond_refined0.126
r_xyhbond_nbd_refined0.118
r_chiral_restr0.066
r_bond_refined_d0.008
r_gen_planes_refined0.003
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_refined
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 Atoms30944
Nucleic Acid Atoms
Solvent Atoms179
Heterogen Atoms352

Software

Software
Software NamePurpose
REFMACrefinement