2NPT

Crystal Structure of the complex of human mitogen activated protein kinase kinase 5 phox domain (MAP2K5-phox) with human mitogen activated protein kinase kinase kinase 2 phox domain (MAP3K2-phox)


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP8.52770.2M NH4(CH3COO), 0.1M TRIS, 25% PEG 3350, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
2.1843.45

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 46.333α = 90
b = 61.41β = 90
c = 143.651γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2006-09-23MSINGLE WAVELENGTH
21
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X10SASLSX10SA

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
11.7561.4399.90.0630.0637.36.74226142219
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.751.8499.50.8760.8760.85.5

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 (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTpdb entries 2CU1, 2C60, 1WI01.75324221840100203899.810.201660.199370.2475RANDOM22.244
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]
-0.430.63-0.2
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.856
r_dihedral_angle_4_deg15.387
r_dihedral_angle_3_deg13.416
r_dihedral_angle_1_deg5.831
r_scangle_it4.033
r_scbond_it2.733
r_mcangle_it1.859
r_angle_refined_deg1.519
r_mcbond_it1.191
r_angle_other_deg0.974
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.856
r_dihedral_angle_4_deg15.387
r_dihedral_angle_3_deg13.416
r_dihedral_angle_1_deg5.831
r_scangle_it4.033
r_scbond_it2.733
r_mcangle_it1.859
r_angle_refined_deg1.519
r_mcbond_it1.191
r_angle_other_deg0.974
r_symmetry_vdw_refined0.295
r_mcbond_other0.284
r_symmetry_vdw_other0.212
r_nbd_other0.208
r_nbd_refined0.207
r_xyhbond_nbd_refined0.182
r_symmetry_hbond_refined0.174
r_nbtor_refined0.172
r_chiral_restr0.091
r_nbtor_other0.086
r_bond_refined_d0.016
r_gen_planes_refined0.007
r_bond_other_d0.001
r_gen_planes_other0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2929
Nucleic Acid Atoms
Solvent Atoms320
Heterogen Atoms

Software

Software
Software NamePurpose
SCALAdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection
MOSFLMdata reduction
CCP4data scaling