X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2IQ9PDB ENTRY 2IQ9

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION7.52940.1 M Hepes, 25% PEG3350, pH 7.5, VAPOR DIFFUSION, temperature 294K
Crystal Properties
Matthews coefficientSolvent content
2.1743.23

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 41.985α = 95.84
b = 42.825β = 94.77
c = 58.381γ = 91.91
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray113IMAGE PLATERIGAKU RAXIS IVmirrors2006-03-27MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU1.54

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
1225.1993.10.0521.925317
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
122.0785.10.1861.9

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 2IQ9225.1925316125393.360.180.1770.223RANDOM16.546
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]
0.49-0.230.4-0.26-0.62-0.3
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.942
r_dihedral_angle_4_deg16.399
r_dihedral_angle_3_deg15.08
r_dihedral_angle_1_deg7.296
r_scangle_it2.275
r_scbond_it1.554
r_angle_refined_deg1.429
r_mcangle_it1.234
r_angle_other_deg0.894
r_mcbond_it0.769
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.942
r_dihedral_angle_4_deg16.399
r_dihedral_angle_3_deg15.08
r_dihedral_angle_1_deg7.296
r_scangle_it2.275
r_scbond_it1.554
r_angle_refined_deg1.429
r_mcangle_it1.234
r_angle_other_deg0.894
r_mcbond_it0.769
r_symmetry_vdw_refined0.213
r_nbd_other0.198
r_nbd_refined0.192
r_symmetry_vdw_other0.175
r_nbtor_refined0.174
r_xyhbond_nbd_refined0.142
r_mcbond_other0.138
r_symmetry_hbond_refined0.122
r_nbtor_other0.086
r_chiral_restr0.083
r_bond_refined_d0.011
r_gen_planes_refined0.004
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3362
Nucleic Acid Atoms
Solvent Atoms273
Heterogen Atoms4

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
CrystalCleardata collection
HKL-2000data reduction
HKL-2000data scaling
MOLREPphasing