2WEX

Crystal structure of human apoM in complex with glycerol 1- myristic acid


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2WEWPDB ENTRY 2WEW

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17.2ABOUT 1-2 MICROL OF PROTEIN (10-16 MG/ML IN 20 MM TRIS-HCL, PH 7.2) WERE MIXED WITH 1-2 MICROL OF 30 % PEG1500 (W/V, IN DEIONISED WATER) AND EQUILIBRATED AGAINST 700 MICROL OF RESERVOIR SOLUTION CONTAINING 30 % PEG1500.
Crystal Properties
Matthews coefficientSolvent content
2.3947.82

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 49.82α = 90
b = 49.82β = 90
c = 145.48γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIXMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.1BESSY14.1

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
122099.70.0523.538.4113097342.3
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)
122.1299.70.544.118.49

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 2WEW219124296541000.210750.208310.25708RANDOM19.847
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]
-1.8-1.83.61
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.487
r_dihedral_angle_4_deg19.787
r_dihedral_angle_3_deg18.381
r_dihedral_angle_1_deg7.02
r_scangle_it3.614
r_scbond_it2.606
r_angle_refined_deg1.8
r_mcangle_it1.527
r_mcbond_it1.047
r_symmetry_hbond_refined0.33
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.487
r_dihedral_angle_4_deg19.787
r_dihedral_angle_3_deg18.381
r_dihedral_angle_1_deg7.02
r_scangle_it3.614
r_scbond_it2.606
r_angle_refined_deg1.8
r_mcangle_it1.527
r_mcbond_it1.047
r_symmetry_hbond_refined0.33
r_nbtor_refined0.306
r_nbd_refined0.233
r_symmetry_vdw_refined0.214
r_xyhbond_nbd_refined0.185
r_chiral_restr0.124
r_bond_refined_d0.018
r_gen_planes_refined0.008
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1253
Nucleic Acid Atoms
Solvent Atoms78
Heterogen Atoms25

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing