X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1JCL 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
18.5298PEG4K, Tris pH 8.5, NaCl 0.2 M, VAPOR DIFFUSION, HANGING DROP, temperature 298K, pH 8.50
Crystal Properties
Matthews coefficientSolvent content
2.1742.83

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 36.121α = 90
b = 143.472β = 106.24
c = 50.156γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDSBC-32005-06-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 19-BMAPS19-BM

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
11.8534.68980.6820.33.541400-3
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)
11.851.9287.20.5011.562.7

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1JCL1.8434.684140039307209297.340.205030.20280.2483RANDOM33.875
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]
-0.25-0.23-1.121.25
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.56
r_dihedral_angle_3_deg13.948
r_dihedral_angle_4_deg12.231
r_dihedral_angle_1_deg5.935
r_scangle_it3.951
r_scbond_it2.748
r_mcangle_it2.115
r_mcbond_it1.378
r_angle_refined_deg1.147
r_nbtor_refined0.299
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.56
r_dihedral_angle_3_deg13.948
r_dihedral_angle_4_deg12.231
r_dihedral_angle_1_deg5.935
r_scangle_it3.951
r_scbond_it2.748
r_mcangle_it2.115
r_mcbond_it1.378
r_angle_refined_deg1.147
r_nbtor_refined0.299
r_nbd_refined0.195
r_symmetry_vdw_refined0.175
r_xyhbond_nbd_refined0.123
r_chiral_restr0.08
r_symmetry_hbond_refined0.076
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_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3906
Nucleic Acid Atoms
Solvent Atoms202
Heterogen Atoms

Software

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