2RFA

Crystal structure of the mouse TRPV6 ankyrin repeat domain


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.52980.1M NaHEPES, 0.1M K/Na Tartrate, 5% glycerol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.346.41

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 30.762α = 90
b = 63.045β = 90
c = 116.14γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152006-08-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 24-ID-C0.97921APS24-ID-C

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
11.7899.080.044187.5251721140.7
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.71.74295.340.4453.46.41586

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 DIFFRACTIONSIRASTHROUGHOUT1.77.9925172127299.080.170.1680.207RANDOM27.587
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]
-0.03-0.010.04
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.327
r_dihedral_angle_4_deg16.129
r_dihedral_angle_3_deg15.994
r_dihedral_angle_1_deg6.171
r_scangle_it3.28
r_scbond_it2.225
r_angle_refined_deg1.372
r_mcangle_it1.248
r_mcbond_it1.082
r_angle_other_deg0.955
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.327
r_dihedral_angle_4_deg16.129
r_dihedral_angle_3_deg15.994
r_dihedral_angle_1_deg6.171
r_scangle_it3.28
r_scbond_it2.225
r_angle_refined_deg1.372
r_mcangle_it1.248
r_mcbond_it1.082
r_angle_other_deg0.955
r_mcbond_other0.233
r_nbd_refined0.226
r_xyhbond_nbd_refined0.214
r_symmetry_vdw_refined0.194
r_nbd_other0.19
r_symmetry_hbond_refined0.181
r_nbtor_refined0.178
r_symmetry_vdw_other0.176
r_nbtor_other0.087
r_chiral_restr0.081
r_bond_refined_d0.014
r_gen_planes_refined0.006
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1722
Nucleic Acid Atoms
Solvent Atoms227
Heterogen Atoms

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection
SHARPphasing