☰ Navigation Tabs
Crystallographic Structure of HbII-oxy from Lucina pectinata at pH 4.0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Capillary Counterdiffusion 4 293 Sodium Formate, pH 4.0, Capillary Counterdiffusion, temperature 293.0K
Crystal Properties Matthews coefficient Solvent content 2.8 56.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.237 α = 90 b = 72.237 β = 90 c = 146.288 γ = 90
Symmetry Space Group P 42 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 ADSC QUANTUM 4r 2008-11-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM16 0.90750 ESRF BM16
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 3.17 20 97.1 0.145 0.145 8.6 7.4 6617 6617
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MOLECULAR REPLACEMENT THROUGHOUT 3.17 20 6586 6277 309 93.99 0.19978 0.19576 0.195 0.28708 0.2754 RANDOM 58.14
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] 0.73 0.73 -1.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.262 r_dihedral_angle_3_deg 18.769 r_dihedral_angle_4_deg 13.561 r_dihedral_angle_1_deg 5.509 r_scangle_it 2.529 r_angle_refined_deg 1.563 r_scbond_it 1.477 r_mcangle_it 1.253 r_mcbond_it 0.652 r_chiral_restr 0.096
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.262 r_dihedral_angle_3_deg 18.769 r_dihedral_angle_4_deg 13.561 r_dihedral_angle_1_deg 5.509 r_scangle_it 2.529 r_angle_refined_deg 1.563 r_scbond_it 1.477 r_mcangle_it 1.253 r_mcbond_it 0.652 r_chiral_restr 0.096 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 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 2339 Nucleic Acid Atoms Solvent Atoms 6 Heterogen Atoms 86
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection