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STRUCTURE OF HUMAN LAMDA-6 LIGHT CHAIN DIMER JTO
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DCL MCG(PDBCODE:1DCL): VL DIMER WITH WITH CDR LOOPS DELETED.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 27.5% PEG6000, 0.08 M SODIUM CACODYLATE PH 6.5, 0.1 M SODIUM ACETATE
Crystal Properties Matthews coefficient Solvent content 1.97 38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.9 α = 90 b = 60.5 β = 90 c = 73.4 γ = 90
Symmetry Space Group P 21 21 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 IMAGE PLATE RIGAKU MIRRORS 1997-10-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200
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 1.9 30 95 0.076 13.5 4.87 15655 8.4
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) 1.9 1.94 89.8 0.311 3.3 3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (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 MCG(PDBCODE:1DCL): VL DIMER WITH WITH CDR LOOPS DELETED. 1.9 8 3 12188 1247 79.2 0.184 0.2045 0.24 0.2552 RANDOM 16.8
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] -0.98 0.4 0.57
RMS Deviations Key Refinement Restraint Deviation x_dihedral_angle_d 26.3 x_scangle_it 1.49 x_angle_deg 1.4 x_mcangle_it 1.35 x_scbond_it 1.04 x_mcbond_it 0.78 x_improper_angle_d 0.72 x_bond_d 0.006 x_bond_d_na x_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation x_dihedral_angle_d 26.3 x_scangle_it 1.49 x_angle_deg 1.4 x_mcangle_it 1.35 x_scbond_it 1.04 x_mcbond_it 0.78 x_improper_angle_d 0.72 x_bond_d 0.006 x_bond_d_na x_bond_d_prot x_angle_d x_angle_d_na x_angle_d_prot x_angle_deg_na x_angle_deg_prot x_dihedral_angle_d_na x_dihedral_angle_d_prot x_improper_angle_d_na x_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1670 Nucleic Acid Atoms Solvent Atoms 247 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing CNS refinement