X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1ZMUPDB ENTRY 1ZMU

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.527710% PEG 3350, 0.2M ammonium citrate, 0.1M bis-Tris, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
3.0559.69

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 110.682α = 90
b = 116.47β = 90
c = 285.748γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMAR CCD 165 mm2005-10-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONEMBL/DESY, HAMBURG BEAMLINE X130.803EMBL/DESY, HAMBURGX13

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
12.65099.40.08215.44.8112949112949
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)
2.62.6498.50.4732.64.55506

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 1ZMU2.610110686110686278699.310.2140.2140.2120.29RANDOM48.596
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]
-1.560.750.81
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.722
r_dihedral_angle_4_deg22.14
r_dihedral_angle_3_deg22.068
r_dihedral_angle_1_deg8.067
r_scangle_it4.911
r_scbond_it3.283
r_angle_refined_deg2.408
r_mcangle_it2.189
r_mcbond_it1.298
r_nbtor_refined0.339
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.722
r_dihedral_angle_4_deg22.14
r_dihedral_angle_3_deg22.068
r_dihedral_angle_1_deg8.067
r_scangle_it4.911
r_scbond_it3.283
r_angle_refined_deg2.408
r_mcangle_it2.189
r_mcbond_it1.298
r_nbtor_refined0.339
r_nbd_refined0.269
r_symmetry_hbond_refined0.264
r_symmetry_vdw_refined0.235
r_xyhbond_nbd_refined0.192
r_chiral_restr0.16
r_bond_refined_d0.028
r_gen_planes_refined0.009
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms19369
Nucleic Acid Atoms
Solvent Atoms210
Heterogen Atoms

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction