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Structure of an orthorhombic crystal form of human cytosolic aconitase (IRP1)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.23 44.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.352 α = 90 b = 103.307 β = 90 c = 225.957 γ = 90
Symmetry Space Group C 2 2 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 MARRESEARCH 2004-02-26 M MAD 2 1 100
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A 1.741, 1.739, 1.283 ESRF BM30A
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 2.54 113.23 94.6 0.079 0.079 11.1 3.5 28614 28614
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 (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.54 113.23 27179 1435 96.88 0.183 0.18 0.225 0.2203 RANDOM 32.466
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] -0.36 -0.39 0.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.005 r_dihedral_angle_4_deg 18.255 r_dihedral_angle_3_deg 17.273 r_dihedral_angle_1_deg 5.822 r_scangle_it 2.079 r_scbond_it 1.414 r_mcangle_it 1.409 r_angle_refined_deg 1.23 r_mcbond_it 0.976 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.005 r_dihedral_angle_4_deg 18.255 r_dihedral_angle_3_deg 17.273 r_dihedral_angle_1_deg 5.822 r_scangle_it 2.079 r_scbond_it 1.414 r_mcangle_it 1.409 r_angle_refined_deg 1.23 r_mcbond_it 0.976 r_nbtor_refined 0.306 r_nbd_refined 0.203 r_symmetry_vdw_refined 0.195 r_symmetry_hbond_refined 0.19 r_xyhbond_nbd_refined 0.142 r_chiral_restr 0.092 r_bond_refined_d 0.01 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6928 Nucleic Acid Atoms Solvent Atoms 168 Heterogen Atoms 13
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XDS data scaling SHARP phasing