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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 3 (MAP3K3B-phox)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2C60 pdb entries 2C60, 1WI0 experimental model PDB 1WI0 pdb entries 2C60, 1WI0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 277 0.02M CaCl2, 0.1M Na(CH3COO), 30% MPD, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.37 48.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.654 α = 90 b = 87.654 β = 90 c = 55.408 γ = 90
Symmetry Space Group P 41 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS 2006-11-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU
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) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.83 50 99.3 0.075 0.075 12.1 6.1 19661 19523
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) Redundancy Number Unique Reflections (All) 1 1.83 1.9 96.5 0.578 0.578 3.7 1836
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT pdb entries 2C60, 1WI0 1.83 46.83 19483 997 99.31 0.196 0.196 0.194 0.224 0.2582 RANDOM 16.491
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] -0.02 -0.02 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.369 r_dihedral_angle_4_deg 19.166 r_dihedral_angle_3_deg 12.093 r_dihedral_angle_1_deg 5.802 r_scangle_it 3.552 r_scbond_it 2.524 r_angle_refined_deg 1.577 r_mcangle_it 1.566 r_angle_other_deg 1.005 r_mcbond_it 1.005
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.369 r_dihedral_angle_4_deg 19.166 r_dihedral_angle_3_deg 12.093 r_dihedral_angle_1_deg 5.802 r_scangle_it 3.552 r_scbond_it 2.524 r_angle_refined_deg 1.577 r_mcangle_it 1.566 r_angle_other_deg 1.005 r_mcbond_it 1.005 r_mcbond_other 0.259 r_symmetry_vdw_other 0.231 r_symmetry_vdw_refined 0.227 r_nbd_refined 0.207 r_nbd_other 0.199 r_nbtor_refined 0.167 r_symmetry_hbond_refined 0.155 r_xyhbond_nbd_refined 0.122 r_nbtor_other 0.087 r_chiral_restr 0.086 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1371 Nucleic Acid Atoms Solvent Atoms 141 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection HKL-2000 data reduction HKL-2000 data scaling