7PUS

ERK5 in complex with Pyrrole Carboxamide scaffold


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5O7I 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2935 % (V/V) PEG 6000, 0.1 M MES (PH 6.0), 5 MM DTT
Crystal Properties
Matthews coefficientSolvent content
2.9157.76

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 91.671α = 90
b = 91.671β = 90
c = 113.81γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2015-05-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I240.9795DiamondI24

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
12.5971.491000.3980.1450.9865.713.915740
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)
12.5971.391000.1140.1230.0450.98311

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-VALUE5O7I2.5971.49156917901000.2220.21920.285359.589
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]
1.551.55-3.1
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.603
r_dihedral_angle_4_deg22.149
r_dihedral_angle_3_deg16.831
r_lrange_it15.093
r_scangle_it10.901
r_mcangle_it8.891
r_scbond_it7.421
r_dihedral_angle_1_deg6.205
r_mcbond_it6.015
r_angle_refined_deg1.672
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.603
r_dihedral_angle_4_deg22.149
r_dihedral_angle_3_deg16.831
r_lrange_it15.093
r_scangle_it10.901
r_mcangle_it8.891
r_scbond_it7.421
r_dihedral_angle_1_deg6.205
r_mcbond_it6.015
r_angle_refined_deg1.672
r_nbtor_refined0.313
r_symmetry_xyhbond_nbd_refined0.268
r_symmetry_nbd_refined0.218
r_nbd_refined0.208
r_xyhbond_nbd_refined0.119
r_chiral_restr0.112
r_bond_refined_d0.007
r_gen_planes_refined0.007
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2713
Nucleic Acid Atoms
Solvent Atoms13
Heterogen Atoms25

Software

Software
Software NamePurpose
REFMACrefinement
REFMACrefinement
DIALSdata reduction
pointlessdata scaling
PHASERphasing