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Hemoglobin protease (Hbp) passenger missing domain-2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WXR PDB ENTRY 1WXR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 293 9% PEG 1000, 10% PEG 8000, 0.1M NaOAc pH 5.0, 20% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K
Crystal Properties Matthews coefficient Solvent content 3.05 59.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 292.803 α = 90 b = 53.936 β = 107.32 c = 335.953 γ = 90
Symmetry Space Group C 1 2 1
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 ADSC QUANTUM 315 2005-05-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.000 SPring-8 BL41XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.2 50 93 3.69 239062 2
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 2.28 71.9 0.213 2.5 11129
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1WXR 2.2 48.56 227076 11985 100 0.2282 0.2255 0.2255 0.2257 0.2801 0.2802 RANDOM 32.732
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] -1.49 -2.3 2.06 -1.94
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.74 r_dihedral_angle_4_deg 20.883 r_dihedral_angle_3_deg 18.061 r_dihedral_angle_1_deg 7.777 r_scangle_it 4.056 r_scbond_it 2.592 r_angle_refined_deg 1.949 r_mcangle_it 1.672 r_mcbond_it 0.932 r_chiral_restr 0.134
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.74 r_dihedral_angle_4_deg 20.883 r_dihedral_angle_3_deg 18.061 r_dihedral_angle_1_deg 7.777 r_scangle_it 4.056 r_scbond_it 2.592 r_angle_refined_deg 1.949 r_mcangle_it 1.672 r_mcbond_it 0.932 r_chiral_restr 0.134 r_bond_refined_d 0.021 r_gen_planes_refined 0.009 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 28813 Nucleic Acid Atoms Solvent Atoms 1485 Heterogen Atoms 4
Software Software Software Name Purpose ADSC data collection EPMR phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling