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Structure of the CMGC CDK Kinase from Giardia lamblia in complex with AMP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OIT pdb entry 1oit modified by ccp4 program chainsaw
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 290 20% PEG 3350, 200MM NA MALONATE, 0.4UL + 0.4UL PROTEIN AT 27 MG/ML, PH 6.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K
Crystal Properties Matthews coefficient Solvent content 1.95 37.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.24 α = 90 b = 73.18 β = 90 c = 75.38 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD RIGAKU SATURN 944 2009-01-30 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2 99.1 0.079 16.44 20333 -3 35.41
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.05 92.9 0.65 2.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 Details Mean Isotropic B X-RAY DIFFRACTION MR THROUGHOUT pdb entry 1oit modified by ccp4 program chainsaw 2 19.3 20333 20333 1029 99.3 0.199 0.196 0.2011 0.265 0.2672 RANDOM 23.7
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 2.04 -1.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.255 r_dihedral_angle_4_deg 23.646 r_dihedral_angle_3_deg 14.643 r_dihedral_angle_1_deg 5.668 r_scangle_it 4.292 r_scbond_it 2.643 r_mcangle_it 1.962 r_angle_refined_deg 1.608 r_mcbond_it 1.092 r_angle_other_deg 0.939
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.255 r_dihedral_angle_4_deg 23.646 r_dihedral_angle_3_deg 14.643 r_dihedral_angle_1_deg 5.668 r_scangle_it 4.292 r_scbond_it 2.643 r_mcangle_it 1.962 r_angle_refined_deg 1.608 r_mcbond_it 1.092 r_angle_other_deg 0.939 r_mcbond_other 0.238 r_chiral_restr 0.095 r_bond_refined_d 0.018 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined 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 Atoms Number Protein Atoms 2186 Nucleic Acid Atoms Solvent Atoms 144 Heterogen Atoms 23
Software Software Software Name Purpose StructureStudio data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling