X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1MSO 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.52935 mM ZnAcetate, 35 mM NaCitrate, 1.1 M NaCl, 0.3M Tris pH 7.5, 40 mM serotonin, 100 mM arginine
Crystal Properties
Matthews coefficientSolvent content
2.345.5

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 159.31α = 90
b = 159.31β = 90
c = 76.5γ = 120
Symmetry
Space GroupH 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 6M2014-12-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I040.9795DiamondI04

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)CC (Half)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
11.884698.30.99915.1557913
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.881.9389.70.691.64.7

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 REPLACEMENTTHROUGHOUT1MSO1.8845.9957913286798.350.20680.20350.2685RANDOM41.8276
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]
-0.6-0.3-0.61.94
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.217
r_dihedral_angle_4_deg19.117
r_dihedral_angle_3_deg15.195
r_dihedral_angle_1_deg7.254
r_mcangle_it5.585
r_mcbond_it4.018
r_mcbond_other4.017
r_angle_other_deg3.85
r_angle_refined_deg1.851
r_chiral_restr0.119
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.217
r_dihedral_angle_4_deg19.117
r_dihedral_angle_3_deg15.195
r_dihedral_angle_1_deg7.254
r_mcangle_it5.585
r_mcbond_it4.018
r_mcbond_other4.017
r_angle_other_deg3.85
r_angle_refined_deg1.851
r_chiral_restr0.119
r_bond_refined_d0.017
r_gen_planes_other0.013
r_gen_planes_refined0.009
r_bond_other_d
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5666
Nucleic Acid Atoms
Solvent Atoms285
Heterogen Atoms272

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
xia2data reduction
Aimlessdata scaling
MOLREPphasing