X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1H8Fpreviously derived model (originally from 1H8F)

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
19PEG2000, BICINE pH9.0
Crystal Properties
Matthews coefficientSolvent content
3.4464.2

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 69.472α = 90
b = 117.329β = 103.22
c = 69.461γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMAR CCD 165 mmDynamically blendable mirror2005-05-31MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X10SASLSX10SA

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
12.867.695.10.1150.1155.43.7254272542782.8
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.83.0279.80.08540.08541.33.44465

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-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTpreviously derived model (originally from 1H8F)2.867.572542725427103294.760.247940.247940.245950.29483RANDOM61.55
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]
-2.31-0.946.45-4.57
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.17
r_dihedral_angle_3_deg16.102
r_dihedral_angle_4_deg12.358
r_dihedral_angle_1_deg5.404
r_scangle_it3.245
r_scbond_it2.145
r_mcangle_it1.67
r_mcbond_it1.32
r_angle_refined_deg1.033
r_angle_other_deg0.742
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.17
r_dihedral_angle_3_deg16.102
r_dihedral_angle_4_deg12.358
r_dihedral_angle_1_deg5.404
r_scangle_it3.245
r_scbond_it2.145
r_mcangle_it1.67
r_mcbond_it1.32
r_angle_refined_deg1.033
r_angle_other_deg0.742
r_nbd_refined0.188
r_mcbond_other0.184
r_nbtor_refined0.173
r_symmetry_vdw_other0.168
r_nbd_other0.166
r_xyhbond_nbd_refined0.118
r_nbtor_other0.081
r_symmetry_vdw_refined0.075
r_symmetry_hbond_refined0.061
r_chiral_restr0.06
r_bond_refined_d0.007
r_gen_planes_refined0.002
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_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5584
Nucleic Acid Atoms
Solvent Atoms15
Heterogen Atoms82

Software

Software
Software NamePurpose
REFMACrefinement
MAR345data collection
MOSFLMdata reduction
SCALAdata scaling
CCP4phasing