X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1H5YPDB ENTRY 1H5Y

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
15.51.6 M NH4SO4 PH 5.5
Crystal Properties
Matthews coefficientSolvent content
2.549.6

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 64.473α = 90
b = 64.473β = 90
c = 102.869γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2004-05-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONEMBL/DESY, HAMBURG BEAMLINE X11EMBL/DESY, HAMBURGX11

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
11.734.399.70.0837.44633.9327751
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)
11.71.791000.511.412.98

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1H5Y1.82522242116799.40.1640.205RANDOM13.75
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]
0.860.430.86-1.29
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.051
r_scangle_it5.003
r_scbond_it3.261
r_mcangle_it3.176
r_mcbond_it2.134
r_angle_refined_deg1.246
r_angle_other_deg0.798
r_symmetry_vdw_other0.264
r_nbd_other0.24
r_nbd_refined0.201
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.051
r_scangle_it5.003
r_scbond_it3.261
r_mcangle_it3.176
r_mcbond_it2.134
r_angle_refined_deg1.246
r_angle_other_deg0.798
r_symmetry_vdw_other0.264
r_nbd_other0.24
r_nbd_refined0.201
r_symmetry_hbond_refined0.162
r_xyhbond_nbd_refined0.154
r_symmetry_vdw_refined0.124
r_nbtor_other0.081
r_chiral_restr0.076
r_bond_refined_d0.011
r_gen_planes_refined0.005
r_bond_other_d0.002
r_gen_planes_other0.002
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
r_nbtor_refined
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_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 Atoms1633
Nucleic Acid Atoms
Solvent Atoms226
Heterogen Atoms16

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing