☰ Navigation Tabs
Crystal structure of a putative dna binding protein (ape_0880a) from aeropyrum pernix k1 at 2.21 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4 277 NANODROP, 1.0M LiCl, 10.0% PEG 6000, 0.1M Citrate pH 4.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.54 51.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.84 α = 90 b = 109.84 β = 90 c = 36.76 γ = 90
Symmetry Space Group P 4 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 CCD MARMOSAIC 325 mm CCD Flat collimating mirror, toroid focusing mirror 2007-02-16 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91162, 0.97929 SSRL BL9-2
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 2.21 29.437 95.4 0.062 11.29 11747 52.45
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 2.21 2.27 63.1 0.464 2.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 2.21 29.43 11725 563 98.87 0.20083 0.19797 0.1981 0.25754 0.2626 RANDOM 40.916
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] -0.23 -0.23 0.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.916 r_dihedral_angle_4_deg 21.021 r_dihedral_angle_3_deg 17.542 r_scangle_it 7.142 r_dihedral_angle_1_deg 6.11 r_scbond_it 5.915 r_mcangle_it 3.117 r_mcbond_it 2.133 r_angle_refined_deg 1.65 r_angle_other_deg 0.936
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.916 r_dihedral_angle_4_deg 21.021 r_dihedral_angle_3_deg 17.542 r_scangle_it 7.142 r_dihedral_angle_1_deg 6.11 r_scbond_it 5.915 r_mcangle_it 3.117 r_mcbond_it 2.133 r_angle_refined_deg 1.65 r_angle_other_deg 0.936 r_mcbond_other 0.53 r_symmetry_vdw_other 0.229 r_symmetry_hbond_refined 0.211 r_nbd_refined 0.205 r_xyhbond_nbd_refined 0.204 r_symmetry_vdw_refined 0.195 r_nbd_other 0.181 r_nbtor_refined 0.177 r_nbtor_other 0.086 r_chiral_restr 0.075 r_bond_refined_d 0.016 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 Atoms Number Protein Atoms 1453 Nucleic Acid Atoms Solvent Atoms 34 Heterogen Atoms 51
Software Software Software Name Purpose MolProbity model building SHELX phasing REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction MAR345 data collection XDS data reduction SHELXD phasing SHARP phasing