X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1CLCPDB ENTRY 1CLC

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.529350% MPD, 100mM Hepes pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.2846.06

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 84.92α = 90
b = 129.3β = 90
c = 49.04γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315rKirkpatrick Baez2008-07-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSOLEIL BEAMLINE PROXIMA 10.979SOLEILPROXIMA 1

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
11.82099.80.08814.247509465094621
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)
1.81.9198.70.5942.36

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 ENTRY 1CLC1.819.73509464831425431000.184220.182710.21301RANDOM18.137
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.239
r_dihedral_angle_3_deg14.274
r_dihedral_angle_4_deg11.38
r_dihedral_angle_1_deg5.731
r_scangle_it1.953
r_scbond_it1.237
r_angle_refined_deg1.091
r_mcangle_it0.965
r_angle_other_deg0.871
r_mcbond_it0.591
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.239
r_dihedral_angle_3_deg14.274
r_dihedral_angle_4_deg11.38
r_dihedral_angle_1_deg5.731
r_scangle_it1.953
r_scbond_it1.237
r_angle_refined_deg1.091
r_mcangle_it0.965
r_angle_other_deg0.871
r_mcbond_it0.591
r_symmetry_vdw_other0.319
r_nbd_refined0.203
r_nbd_other0.192
r_symmetry_vdw_refined0.184
r_nbtor_refined0.177
r_symmetry_hbond_refined0.169
r_xyhbond_nbd_refined0.113
r_mcbond_other0.095
r_nbtor_other0.084
r_metal_ion_refined0.069
r_chiral_restr0.065
r_bond_refined_d0.007
r_gen_planes_refined0.003
r_bond_other_d0.002
r_gen_planes_other0.001
r_xyhbond_nbd_other
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 Atoms4112
Nucleic Acid Atoms
Solvent Atoms320
Heterogen Atoms18

Software

Software
Software NamePurpose
ADSCdata collection
PHASERphasing
REFMACrefinement
XDSdata reduction
XDSdata scaling