X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1GZFPDB ENTRY 1GZF

Crystallization

Crystal Properties
Matthews coefficientSolvent content
2.3146.33

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 105.388α = 90
b = 75.611β = 102.75
c = 120.783γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-3ESRFID14-3

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
11.6531.7896.70.0618.641075322

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 1GZF1.6531.7810216553651000.2180.2160.259RANDOM26.03
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]
0.56-0.220.62-1.28
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.282
r_scangle_it2.285
r_scbond_it1.356
r_angle_refined_deg1.027
r_mcangle_it0.946
r_angle_other_deg0.721
r_mcbond_it0.491
r_nbd_other0.224
r_symmetry_vdw_other0.188
r_nbd_refined0.185
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.282
r_scangle_it2.285
r_scbond_it1.356
r_angle_refined_deg1.027
r_mcangle_it0.946
r_angle_other_deg0.721
r_mcbond_it0.491
r_nbd_other0.224
r_symmetry_vdw_other0.188
r_nbd_refined0.185
r_symmetry_hbond_refined0.142
r_xyhbond_nbd_refined0.111
r_nbtor_other0.08
r_symmetry_vdw_refined0.076
r_chiral_restr0.063
r_bond_refined_d0.006
r_gen_planes_refined0.003
r_bond_other_d0.002
r_gen_planes_other0.001
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 Atoms6425
Nucleic Acid Atoms
Solvent Atoms714
Heterogen Atoms118

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing