1VM0

X-RAY STRUCTURE OF GENE PRODUCT FROM ARABIDOPSIS THALIANA AT2G34160


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1Batch7293protein 10 mg/ml, 18% PEG2K, potassium nitrate 0.200 M, MOPS 0.100 M, pH 7.0, Batch, temperature 293 K
Crystal Properties
Matthews coefficientSolvent content
29.24

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 59.785α = 90
b = 79.079β = 90
c = 43.73γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMAR CCD 165 mmRH MIRROR2004-04-03MMAD
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 32-ID0.97908,0.97931,0.97623APS32-ID

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
11.83099.40.068144.537012
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)
11.81.8695.70.3293.73.8

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)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 DIFFRACTIONTHROUGHOUT1.829.36118785103099.610.1770.176750.17440.2206RANDOM17.63
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]
1.158-0.165-0.993
RMS Deviations
KeyRefinement Restraint Deviation
r_scangle_it8.468
r_dihedral_angle_1_deg5.378
r_scbond_it5.327
r_scangle_other3.776
r_mcangle_it3.013
r_angle_refined_deg2.001
r_mcbond_it1.59
r_mcangle_other1.349
r_scbond_other1.287
r_angle_other_deg1.019
RMS Deviations
KeyRefinement Restraint Deviation
r_scangle_it8.468
r_dihedral_angle_1_deg5.378
r_scbond_it5.327
r_scangle_other3.776
r_mcangle_it3.013
r_angle_refined_deg2.001
r_mcbond_it1.59
r_mcangle_other1.349
r_scbond_other1.287
r_angle_other_deg1.019
r_mcbond_other0.347
r_symmetry_vdw_refined0.345
r_symmetry_vdw_other0.304
r_symmetry_hbond_refined0.291
r_nbd_refined0.264
r_nbd_other0.247
r_xyhbond_nbd_refined0.212
r_nbtor_refined0.177
Metal-ion; symmetry: refined atoms0.172
Metal-ion: refined atoms0.132
r_chiral_restr0.11
r_nbtor_other0.087
r_bond_refined_d0.023
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 Atoms1554
Nucleic Acid Atoms
Solvent Atoms161
Heterogen Atoms18

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
SOLVEphasing
RESOLVEphasing
REFMACrefinement
PDB_EXTRACTdata extraction