X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1A6VPDB ENTRIES 1A6V, 1MFB
experimental modelPDB 1MFBPDB ENTRIES 1A6V, 1MFB

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
182981.0M Na/K Tartrate, 0.2M NaCl, 0.1 Imidazole, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K, pH 8.00
Crystal Properties
Matthews coefficientSolvent content
3.3162.83

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 118.659α = 90
b = 118.659β = 90
c = 176.042γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCDADJUSTABLE FOCUSING MIRRORS IN K-B GEOMETRY2006-10-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 23-ID-DAPS23-ID-D

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
13.185088.60.09614.22.21914077.3
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)
13.183.25950.50822.1

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 (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRIES 1A6V, 1MFB3.1844.02187701845899289.10.2130.210.265RANDOM63.65
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]
1.271.27-2.54
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.955
r_dihedral_angle_3_deg18.045
r_dihedral_angle_4_deg16.975
r_dihedral_angle_1_deg8.267
r_scangle_it2.296
r_scbond_it1.662
r_angle_refined_deg1.549
r_mcangle_it1.107
r_mcbond_it0.927
r_angle_other_deg0.894
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.955
r_dihedral_angle_3_deg18.045
r_dihedral_angle_4_deg16.975
r_dihedral_angle_1_deg8.267
r_scangle_it2.296
r_scbond_it1.662
r_angle_refined_deg1.549
r_mcangle_it1.107
r_mcbond_it0.927
r_angle_other_deg0.894
r_symmetry_vdw_other0.414
r_symmetry_hbond_refined0.331
r_symmetry_vdw_refined0.305
r_nbd_refined0.23
r_nbd_other0.21
r_nbtor_refined0.199
r_xyhbond_nbd_refined0.15
r_mcbond_other0.135
r_nbtor_other0.096
r_chiral_restr0.077
r_bond_refined_d0.014
r_gen_planes_refined0.005
r_bond_other_d0.004
r_gen_planes_other0.002
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 Atoms6610
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms42

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing