7PH0

Structure of light-adapted AsLOV2 Q513L


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2V0U 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP4.62980.1 M sodium acetate pH 4.6-5.0, 6-8% (w/v) PEG 4000, 30% (v/v) glycerol
Crystal Properties
Matthews coefficientSolvent content
1.9637.24

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 35.28α = 90
b = 56.04β = 90
c = 66.77γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 6M2020-06-04MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.10.9184BESSY14.1

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
10.97942.92599.70.99913.66.176537
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)
10.981.047.90.280.75.4

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE2V0U0.97942.92576537382799.6330.1130.11210.135715.108
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]
-0.110.415-0.306
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg28.683
r_dihedral_angle_4_deg20.164
r_dihedral_angle_3_deg12.55
r_dihedral_angle_1_deg6.951
r_lrange_it3.369
r_lrange_other3.26
r_scangle_it2.792
r_scangle_other2.791
r_rigid_bond_restr2.666
r_scbond_it2.392
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg28.683
r_dihedral_angle_4_deg20.164
r_dihedral_angle_3_deg12.55
r_dihedral_angle_1_deg6.951
r_lrange_it3.369
r_lrange_other3.26
r_scangle_it2.792
r_scangle_other2.791
r_rigid_bond_restr2.666
r_scbond_it2.392
r_scbond_other2.392
r_angle_refined_deg2.036
r_mcangle_it1.874
r_mcangle_other1.873
r_angle_other_deg1.509
r_mcbond_other1.399
r_mcbond_it1.398
r_nbd_refined0.396
r_symmetry_nbd_refined0.272
r_symmetry_nbd_other0.224
r_xyhbond_nbd_refined0.218
r_symmetry_xyhbond_nbd_refined0.218
r_nbd_other0.217
r_nbtor_refined0.18
r_chiral_restr0.105
r_symmetry_nbtor_other0.089
r_xyhbond_nbd_other0.053
r_symmetry_xyhbond_nbd_other0.049
r_bond_refined_d0.013
r_gen_planes_refined0.012
r_gen_planes_other0.002
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1185
Nucleic Acid Atoms
Solvent Atoms217
Heterogen Atoms62

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
pointlessdata scaling
PHASERphasing