X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1KACPDB ENTRY 1KAC

Crystallization

Crystal Properties
Matthews coefficientSolvent content
2.856

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 219.94α = 90
b = 219.94β = 90
c = 387.53γ = 90
Symmetry
Space GroupI 4 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-2ESRFID14-2

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
12.347.7960.0113.373.8200033
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)
12.32.38930.473.13.75

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 1KAC2.3192.451885961890920.1720.1720.22RANDOM27.18
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]
-0.29-0.290.57
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.774
r_dihedral_angle_3_deg13.935
r_dihedral_angle_4_deg12.308
r_dihedral_angle_1_deg6.86
r_scangle_it1.649
r_angle_refined_deg1.248
r_scbond_it1.135
r_angle_other_deg0.843
r_mcangle_it0.699
r_mcbond_it0.594
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.774
r_dihedral_angle_3_deg13.935
r_dihedral_angle_4_deg12.308
r_dihedral_angle_1_deg6.86
r_scangle_it1.649
r_angle_refined_deg1.248
r_scbond_it1.135
r_angle_other_deg0.843
r_mcangle_it0.699
r_mcbond_it0.594
r_symmetry_hbond_refined0.227
r_nbd_other0.192
r_symmetry_vdw_other0.184
r_nbd_refined0.179
r_nbtor_refined0.169
r_symmetry_vdw_refined0.155
r_xyhbond_nbd_refined0.153
r_mcbond_other0.086
r_nbtor_other0.083
r_chiral_restr0.073
r_bond_refined_d0.01
r_gen_planes_refined0.004
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 Atoms28097
Nucleic Acid Atoms
Solvent Atoms1881
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing