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X-ray structure of Ni, Ca concanavalin A at Ultra-high resolution (0. 94A)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1NLS PDB ENTRY 1NLS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 pH 6.5
Crystal Properties Matthews coefficient Solvent content 1.98 37.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.867 α = 90 b = 86.049 β = 90 c = 61.539 γ = 90
Symmetry Space Group I 2 2 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 CCD 2004-10-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID APS 19-ID
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 0.94 33.23 89.2 0.09 11.84 6 136027
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 0.94 0.99 54.4 0.33 1.98 2.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE PDB ENTRY 1NLS 0.94 33.23 136001 6827 89.22 0.12 0.142 0.1447 RANDOM
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 37 1752.31 2084.35
RMS Deviations Key Refinement Restraint Deviation s_non_zero_chiral_vol 0.135 s_approx_iso_adps 0.111 s_zero_chiral_vol 0.093 s_anti_bump_dis_restr 0.072 s_similar_adp_cmpnt 0.055 s_angle_d 0.037 s_from_restr_planes 0.0359 s_bond_d 0.018 s_rigid_bond_adp_cmpnt 0.007 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1809 Nucleic Acid Atoms Solvent Atoms 287 Heterogen Atoms 2
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC phasing SHELXL-97 phasing SHELXL-97 refinement