X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2LBPPDB ENTRY 2LBP

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
18PEG 5000, SODIUM ACETATE PH 4.6, AMMONIUM SULPHATE, COCL2.
Crystal Properties
Matthews coefficientSolvent content
2.352.2

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 91.41α = 90
b = 79.2β = 133.6
c = 65.18γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray1002003-03-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONMAX II BEAMLINE I711MAX III711

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
11.5332.695.70.04625.43.248509
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)
11.531.5693.30.1774.92.6

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)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 ENTRY 2LBP1.5332.624602924801000.1910.1890.216RANDOM18.21
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]
-0.86-0.630.8-0.81
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.507
r_scangle_it3.266
r_mcangle_it2.175
r_scbond_it1.974
r_angle_refined_deg1.56
r_mcbond_it1.35
r_angle_other_deg0.762
r_symmetry_vdw_refined0.522
r_nbd_other0.257
r_nbd_refined0.227
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.507
r_scangle_it3.266
r_mcangle_it2.175
r_scbond_it1.974
r_angle_refined_deg1.56
r_mcbond_it1.35
r_angle_other_deg0.762
r_symmetry_vdw_refined0.522
r_nbd_other0.257
r_nbd_refined0.227
r_symmetry_vdw_other0.22
r_xyhbond_nbd_refined0.16
r_symmetry_hbond_refined0.14
r_chiral_restr0.094
r_nbtor_other0.089
r_bond_refined_d0.015
r_gen_planes_refined0.008
r_gen_planes_other0.005
r_bond_other_d0.001
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 Atoms2596
Nucleic Acid Atoms
Solvent Atoms179
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing