2ETB

Crystal structure of the ankyrin repeat domain of TRPV2


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2ETAPDB ENTRY 2ETA

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP62770.17mM protein, 1.2M lithium acetate, 0.1M MES, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
2.9257.87

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 40.954α = 90
b = 57.476β = 90
c = 139.433γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS IV2005-05-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU1.5418

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
11.63599.70.05711.24.38443824427111
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)
1.61.6678.10.4432.53.6

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 2ETA1.65204227235381393097.070.2150.189120.185470.22194RANDOM22.053
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]
-1.571.74-0.16
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.42
r_dihedral_angle_3_deg12.726
r_dihedral_angle_4_deg12.637
r_dihedral_angle_1_deg5.464
r_scangle_it3.669
r_scbond_it2.425
r_angle_refined_deg1.424
r_mcangle_it1.347
r_mcbond_it0.865
r_nbtor_refined0.298
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.42
r_dihedral_angle_3_deg12.726
r_dihedral_angle_4_deg12.637
r_dihedral_angle_1_deg5.464
r_scangle_it3.669
r_scbond_it2.425
r_angle_refined_deg1.424
r_mcangle_it1.347
r_mcbond_it0.865
r_nbtor_refined0.298
r_symmetry_hbond_refined0.263
r_symmetry_vdw_refined0.234
r_nbd_refined0.207
r_xyhbond_nbd_refined0.174
r_chiral_restr0.1
r_bond_refined_d0.016
r_gen_planes_refined0.007
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_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1951
Nucleic Acid Atoms
Solvent Atoms417
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
MOLREPphasing