X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1L6MPDB ENTRY 1L6M

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.52910.2M lithium sulfate, 20% PEG 3350, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
2.9758.54

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 115.825α = 90
b = 115.825β = 90
c = 119.316γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 210MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 5.0.1ALS5.0.1

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
12.9550910.08425.38.72907816029
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)
2.953.193.70.365.88.61613

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 DIFFRACTIONUsed previously-determined structureTHROUGHOUTPDB ENTRY 1L6M2.95501519380890.850.25950.257270.30292Used same set as previously-determined structure34.763
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]
0.250.25-0.49
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.29
r_dihedral_angle_4_deg17.971
r_dihedral_angle_3_deg14.689
r_dihedral_angle_1_deg4.409
r_scangle_it0.856
r_angle_refined_deg0.829
r_angle_other_deg0.792
r_mcangle_it0.645
r_scbond_it0.501
r_mcbond_it0.345
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.29
r_dihedral_angle_4_deg17.971
r_dihedral_angle_3_deg14.689
r_dihedral_angle_1_deg4.409
r_scangle_it0.856
r_angle_refined_deg0.829
r_angle_other_deg0.792
r_mcangle_it0.645
r_scbond_it0.501
r_mcbond_it0.345
r_nbtor_refined0.177
r_nbd_other0.173
r_nbd_refined0.167
r_symmetry_vdw_refined0.123
r_symmetry_vdw_other0.123
r_xyhbond_nbd_refined0.104
r_nbtor_other0.077
r_symmetry_hbond_refined0.058
r_chiral_restr0.057
r_mcbond_other0.033
r_bond_refined_d0.005
r_gen_planes_refined0.002
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3865
Nucleic Acid Atoms
Solvent Atoms51
Heterogen Atoms7

Software

Software
Software NamePurpose
HKL-2000data collection
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
REFMACphasing