X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1UROPDB ENTRY 1URO

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.629325% PEG 2000, 100mM citrate, 160mM sodium acetate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.4349.32

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 58.612α = 68.68
b = 80.41β = 89.64
c = 90.94γ = 80.82
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMAR CCD 165 mm2003-12-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBSRF BEAMLINE 3W1A1.1BSRF3W1A

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
12.33096.20.06367725651521.61.6
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)
2.32.3696.20.4062.4

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 REPLACEMENTTHROUGHOUTPDB ENTRY 1URO2.3306427861835331696.230.2050.200130.197440.25125RANDOM53.559
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]
-0.530.11-0.29-0.851.360.36
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.337
r_dihedral_angle_4_deg18.015
r_dihedral_angle_3_deg16.357
r_dihedral_angle_1_deg5.921
r_scangle_it2.003
r_angle_refined_deg1.29
r_scbond_it1.272
r_mcangle_it0.875
r_mcbond_it0.515
r_nbtor_refined0.3
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.337
r_dihedral_angle_4_deg18.015
r_dihedral_angle_3_deg16.357
r_dihedral_angle_1_deg5.921
r_scangle_it2.003
r_angle_refined_deg1.29
r_scbond_it1.272
r_mcangle_it0.875
r_mcbond_it0.515
r_nbtor_refined0.3
r_nbd_refined0.204
r_symmetry_vdw_refined0.173
r_xyhbond_nbd_refined0.148
r_chiral_restr0.092
r_symmetry_hbond_refined0.09
r_bond_refined_d0.012
r_gen_planes_refined0.004
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms10772
Nucleic Acid Atoms
Solvent Atoms256
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
MAR345data collection
AUTOMARdata reduction
CCP4data scaling
AMoREphasing