7HGC | pdb_00007hgc

PanDDA analysis group deposition -- Crystal structure of HRP-2 PWWP domain in complex with Z1428159350


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.627728% PEG MME 2000; 0.15 M ammonium sulfate; 0.1 M sodium acetate pH 4.6
Crystal Properties
Matthews coefficientSolvent content
2.7655

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 41.64α = 90
b = 42.1β = 90
c = 158.69γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER2 XE 9M2021-05-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I04-10.918076DiamondI04-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)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
11.5142.199.80.0470.0520.0210.99915.16.144735
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.511.5599.51.5331.7150.7570.3475

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-Work (Depositor)R-Work (DCC)R-Free (Depositor)R-Free (DCC)R-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1.5140.7342306237199.590.207440.205070.21190.249840.2527RANDOM37.525
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]
0.230.1-0.33
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg12.498
r_long_range_B_refined8.418
r_dihedral_angle_1_deg8.097
r_dihedral_angle_2_deg5.797
r_mcangle_it4.714
r_scbond_it4.515
r_mcbond_it3.422
r_angle_refined_deg1.895
r_chiral_restr0.129
r_gen_planes_refined0.011
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2148
Nucleic Acid Atoms
Solvent Atoms278
Heterogen Atoms52

Software

Software
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
xia2data reduction
REFMACphasing