X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2HF8PDB entry: 2Hf8

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION293150 mM maleic acid disodium salt, 42.5 mM HCl, 20% PEG3350, VAPOR DIFFUSION, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.3347.19

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 43.463α = 90
b = 68.107β = 90
c = 155.84γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC2005-02-08MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-10.9758ESRFID14-1

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
12.12098.60.04820.546.55114151141324.484
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)
2.12.293.10.0849.36.46342

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 (All)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entry: 2Hf81.919.96372223722237231000.220.2170.241RANDOM16.316
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]
0.8-0.28-0.53
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.368
r_dihedral_angle_4_deg17.76
r_dihedral_angle_3_deg13.069
r_dihedral_angle_1_deg5.269
r_scangle_it1.732
r_angle_refined_deg1.104
r_scbond_it1.032
r_mcangle_it0.733
r_mcbond_it0.439
r_nbtor_refined0.293
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.368
r_dihedral_angle_4_deg17.76
r_dihedral_angle_3_deg13.069
r_dihedral_angle_1_deg5.269
r_scangle_it1.732
r_angle_refined_deg1.104
r_scbond_it1.032
r_mcangle_it0.733
r_mcbond_it0.439
r_nbtor_refined0.293
r_nbd_refined0.185
r_symmetry_metal_ion_refined0.162
r_symmetry_vdw_refined0.161
r_xyhbond_nbd_refined0.123
r_metal_ion_refined0.119
r_symmetry_hbond_refined0.082
r_chiral_restr0.073
r_bond_refined_d0.007
r_gen_planes_refined0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3246
Nucleic Acid Atoms
Solvent Atoms174
Heterogen Atoms68

Software

Software
Software NamePurpose
XSCALEdata scaling
SOLVEphasing
RESOLVEphasing
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction