5CFB

Crystal Structure of Human Glycine Receptor alpha-3 Bound to Strychnine


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4TNV 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP427730-33% PEG-400, 200 mM magnesium chloride, 100 mM potassium chloride, 25 mM sodium citrate
Crystal Properties
Matthews coefficientSolvent content
4.3271.52

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 140.242α = 90
b = 143.198β = 90
c = 180.054γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX300HE2015-02-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-ID1.000APS22-ID

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)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
135097.80.2010.2110.0645.310.168041
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
133.1185.40.4530.565.85864

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 REPLACEMENTTHROUGHOUT4TNV3.045064544342696.790.26150.26030.2826RANDOM120.798
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]
12.93-10.89-2.03
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.33
r_dihedral_angle_3_deg16.136
r_dihedral_angle_4_deg13.981
r_dihedral_angle_1_deg5.869
r_mcangle_it4.469
r_mcbond_it2.665
r_mcbond_other2.662
r_angle_refined_deg1.06
r_angle_other_deg0.708
r_chiral_restr0.06
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.33
r_dihedral_angle_3_deg16.136
r_dihedral_angle_4_deg13.981
r_dihedral_angle_1_deg5.869
r_mcangle_it4.469
r_mcbond_it2.665
r_mcbond_other2.662
r_angle_refined_deg1.06
r_angle_other_deg0.708
r_chiral_restr0.06
r_bond_refined_d0.006
r_gen_planes_refined0.004
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms13317
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms223

Software

Software
Software NamePurpose
REFMACrefinement
SCALEPACKdata scaling
PDB_EXTRACTdata extraction
PHASERphasing