X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2J3GPDB ENTRY 2J3G

Crystallization

Crystal Properties
Matthews coefficientSolvent content
2.2444.75

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 62.122α = 90
b = 62.122β = 90
c = 346.284γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCD2004-07-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-3ESRFID14-3

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
12.246.2990.117.610.135612

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 2J3G2.2403390317841000.2050.2010.265RANDOM26.3
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]
0.60.6-1.2
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg26.943
r_dihedral_angle_4_deg20.091
r_dihedral_angle_3_deg15.843
r_dihedral_angle_1_deg6.547
r_scangle_it2.501
r_mcangle_it1.846
r_scbond_it1.749
r_angle_refined_deg1.247
r_mcbond_it1.228
r_nbtor_refined0.319
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg26.943
r_dihedral_angle_4_deg20.091
r_dihedral_angle_3_deg15.843
r_dihedral_angle_1_deg6.547
r_scangle_it2.501
r_mcangle_it1.846
r_scbond_it1.749
r_angle_refined_deg1.247
r_mcbond_it1.228
r_nbtor_refined0.319
r_symmetry_vdw_refined0.252
r_xyhbond_nbd_refined0.246
r_nbd_refined0.238
r_symmetry_hbond_refined0.22
r_chiral_restr0.094
r_bond_refined_d0.009
r_gen_planes_refined0.004
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 Atoms5007
Nucleic Acid Atoms
Solvent Atoms314
Heterogen Atoms3

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
AMoREphasing