X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1K4FPDB entry 1K4F

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP72931.6M AS, 0.1M HEPES, PEG 30%, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.6854.16

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 48.68α = 90
b = 97.06β = 90
c = 125.68γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152007-09-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE BM30A0.978872ESRFBM30A

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
11.948.6899.40.12310.95.34754730.1
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)
11.9296.20.7621.73.56568

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 1K4F1.948.6845064240099.30.171090.168630.21815RANDOM18.86
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]
0.820.33-1.15
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.834
r_dihedral_angle_4_deg18.124
r_dihedral_angle_3_deg14.977
r_dihedral_angle_1_deg5.681
r_scangle_it4.294
r_mcangle_it3.371
r_scbond_it3.044
r_mcbond_it2.513
r_angle_refined_deg1.497
r_nbtor_refined0.302
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.834
r_dihedral_angle_4_deg18.124
r_dihedral_angle_3_deg14.977
r_dihedral_angle_1_deg5.681
r_scangle_it4.294
r_mcangle_it3.371
r_scbond_it3.044
r_mcbond_it2.513
r_angle_refined_deg1.497
r_nbtor_refined0.302
r_symmetry_hbond_refined0.274
r_nbd_refined0.208
r_symmetry_vdw_refined0.18
r_xyhbond_nbd_refined0.153
r_chiral_restr0.109
r_bond_refined_d0.015
r_gen_planes_refined0.006
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3899
Nucleic Acid Atoms
Solvent Atoms353
Heterogen Atoms71

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALAdata scaling
AMoREphasing