6QQH

Cryogenic temperature structure of the ground state of AtPhot2LOV2 recorded after an accumulated dose of 2.68 MGy


X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP629312-17 % PEG8000 0.2 M Calcium acetate 0.1 M MES
Crystal Properties
Matthews coefficientSolvent content
1.9436.55

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 40.148α = 90
b = 40.148β = 90
c = 131.575γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 2M2015-09-23MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE MASSIF-30.968ESRFMASSIF-3

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)CC (Half)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
11.3838.499.80.99916.847.182306518.75
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.381.4399.80.5681.686.32

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 REPLACEMENTTHROUGHOUT4eep1.3838.421881118399.840.141210.139710.17034RANDOM16.625
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]
-0.14-0.140.28
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.434
r_dihedral_angle_4_deg21.116
r_dihedral_angle_3_deg12.486
r_dihedral_angle_1_deg6.333
r_long_range_B_refined2.533
r_long_range_B_other2.126
r_scangle_other1.696
r_scbond_other1.394
r_scbond_it1.393
r_angle_refined_deg1.354
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.434
r_dihedral_angle_4_deg21.116
r_dihedral_angle_3_deg12.486
r_dihedral_angle_1_deg6.333
r_long_range_B_refined2.533
r_long_range_B_other2.126
r_scangle_other1.696
r_scbond_other1.394
r_scbond_it1.393
r_angle_refined_deg1.354
r_angle_other_deg1.272
r_mcangle_it1.253
r_mcangle_other1.253
r_mcbond_it0.96
r_mcbond_other0.952
r_rigid_bond_restr0.772
r_chiral_restr0.066
r_bond_refined_d0.006
r_gen_planes_refined0.006
r_gen_planes_other0.002
r_bond_other_d0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms963
Nucleic Acid Atoms
Solvent Atoms112
Heterogen Atoms31

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing