X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4J6Bpreliminary solved structure of PDB-entry 4J6B

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP62980.3 M MgCHO2 in the reservoir, condition mixed 1:1 from protein stock and reservoir, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.4649.93

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 102.99α = 90
b = 102.99β = 90
c = 218.42γ = 120
Symmetry
Space GroupH 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMAR scanner 345 mm plate2012-07-28MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODEBRUKER AXS MICROSTAR1.5418

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
12.482.57399.80.1415.93.43370333703
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.42.5399.10.3910.3912.93.34866

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 REPLACEMENTTHROUGHOUTpreliminary solved structure of PDB-entry 4J6B2.482.5733701171199.760.18390.18050.2444RANDOM44.1382
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]
-1.99-1-1.992.99
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.592
r_dihedral_angle_4_deg14.895
r_dihedral_angle_3_deg14.295
r_dihedral_angle_1_deg6.016
r_angle_refined_deg1.415
r_angle_other_deg0.648
r_chiral_restr0.048
r_bond_refined_d0.011
r_gen_planes_refined0.005
r_gen_planes_other0.005
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.592
r_dihedral_angle_4_deg14.895
r_dihedral_angle_3_deg14.295
r_dihedral_angle_1_deg6.016
r_angle_refined_deg1.415
r_angle_other_deg0.648
r_chiral_restr0.048
r_bond_refined_d0.011
r_gen_planes_refined0.005
r_gen_planes_other0.005
r_bond_other_d0.004
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6243
Nucleic Acid Atoms
Solvent Atoms375
Heterogen Atoms144

Software

Software
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction
MAR345dtbdata collection