1ZMU

Catalytic and ubiqutin-associated domains of MARK2/PAR-1: Wild type


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1Y8GPDB ENTRY 1Y8G

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.5293PEG 3350, Ammonium Sulphate, BIS-TRIS, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.7655.3

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 120.269α = 90
b = 120.269β = 90
c = 99.533γ = 120
Symmetry
Space GroupP 61

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2004-05-08MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONEMBL/DESY, HAMBURG BEAMLINE X130.8046EMBL/DESY, HAMBURGX13

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
12.946.1499.90.06727.96.61822218222
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.92.951003.3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)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 DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1Y8G2.946.14182221822294299.920.199160.199160.195410.27006RANDOM62.182
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]
0.50.250.5-0.74
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.159
r_dihedral_angle_3_deg21.13
r_dihedral_angle_4_deg18.145
r_dihedral_angle_1_deg7.071
r_angle_refined_deg2.002
r_nbtor_refined0.334
r_symmetry_hbond_refined0.308
r_nbd_refined0.258
r_symmetry_vdw_refined0.219
r_xyhbond_nbd_refined0.163
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.159
r_dihedral_angle_3_deg21.13
r_dihedral_angle_4_deg18.145
r_dihedral_angle_1_deg7.071
r_angle_refined_deg2.002
r_nbtor_refined0.334
r_symmetry_hbond_refined0.308
r_nbd_refined0.258
r_symmetry_vdw_refined0.219
r_xyhbond_nbd_refined0.163
r_chiral_restr0.125
r_bond_refined_d0.02
r_gen_planes_refined0.007
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4664
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing
REFMACrefinement