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Crystal structure of dimeric KlHxk1 in crystal form I
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1IG8 PDB entry 1IG8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9.4 292 1MICROL RESERVOIR + 1MICROL PROTEIN; RESERVOIR: 2.5M AMMONIA SULFATE, 0.1M CHES PH 9.4, PROTEIN: 10MG/ML KLHXK1, 10MM TRIS PH 7.4, 1MM EDTA, 1MM DTT, 0.5MM PMSF, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.37 48.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.692 α = 90 b = 113.219 β = 90 c = 91.234 γ = 90
Symmetry Space Group P 21 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 MAR scanner 345 mm plate Si, coated with 200 layers of Mo/Si 2005-02-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.3 0.8940 BESSY 14.3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2 30 99.8 0.07 22 6.2 69759 69639 -3 31.3
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) 2 2.05 98.9 0.505 4.9 6.2 5044
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 1IG8 2 29.97 68555 1033 99.87 0.18587 0.18501 0.2125 0.24366 0.2679 RANDOM 31.672
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] 0.07 1.58 -1.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.912 r_dihedral_angle_4_deg 23.938 r_dihedral_angle_3_deg 16.828 r_scangle_it 6.974 r_dihedral_angle_1_deg 6.493 r_scbond_it 5.2 r_mcangle_it 3.109 r_mcbond_it 2.333 r_angle_refined_deg 2.017 r_chiral_restr 0.146
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.912 r_dihedral_angle_4_deg 23.938 r_dihedral_angle_3_deg 16.828 r_scangle_it 6.974 r_dihedral_angle_1_deg 6.493 r_scbond_it 5.2 r_mcangle_it 3.109 r_mcbond_it 2.333 r_angle_refined_deg 2.017 r_chiral_restr 0.146 r_bond_refined_d 0.024 r_gen_planes_refined 0.011 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7391 Nucleic Acid Atoms Solvent Atoms 400 Heterogen Atoms 123
Software Software Software Name Purpose MAR345dtb data collection AMoRE phasing REFMAC refinement XDS data reduction XSCALE data scaling