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Crystal Structure of Human Haspin with an Imidazo-pyridazine ligand
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VUW PDB ENTRY 2VUW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 0.1M Na/KPO4, 20% PEG 3350, 10% EtGly, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.94 58.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.416 α = 90 b = 77.307 β = 90 c = 85.575 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 MARMOSAIC 225 mm CCD 2008-08-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.9789 SLS X10SA
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 1.8 57.35 99.5 0.068 0.068 11.8 3.5 44667 44444 23.6
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 1.8 1.9 96.9 0.462 0.462 2 2.4 6256
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 (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 ENTRY 2VUW 1.8 57.35 42870 42643 1966 99.47 0.16235 0.16235 0.16126 0.18553 0.2196 RANDOM 13.449
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] 0.69 -0.08 -0.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.578 r_dihedral_angle_4_deg 12.888 r_dihedral_angle_3_deg 11.91 r_scangle_it 8.748 r_scbond_it 6.22 r_dihedral_angle_1_deg 6.114 r_mcangle_it 4.055 r_mcbond_it 2.797 r_angle_refined_deg 1.438 r_mcbond_other 0.971
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.578 r_dihedral_angle_4_deg 12.888 r_dihedral_angle_3_deg 11.91 r_scangle_it 8.748 r_scbond_it 6.22 r_dihedral_angle_1_deg 6.114 r_mcangle_it 4.055 r_mcbond_it 2.797 r_angle_refined_deg 1.438 r_mcbond_other 0.971 r_angle_other_deg 0.952 r_chiral_restr 0.092 r_bond_refined_d 0.015 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 2613 Nucleic Acid Atoms Solvent Atoms 323 Heterogen Atoms 48
Software Software Software Name Purpose CrystalClear data collection PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling