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Crystal structure of the Surrogate Light Chain Variable Domain VpreBJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 277 0.1M Imidazole,
1M Sodium acetate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.84 56.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.811 α = 90 b = 67.176 β = 90 c = 99.83 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 OXFORD mirrors 2006-11-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE OXFORD DIFFRACTION ENHANCE ULTRA
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 2 55.73 99.36 0.09 17.5 7.7 9774 9712
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 2.05 92.38 0.235 7.3 5.6
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2 15.97 9774 9712 519 99.36 0.18338 0.18096 0.23015 0.2197 RANDOM 14.819
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] -0.05 0.08 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.453 r_dihedral_angle_1_deg 15.567 r_dihedral_angle_3_deg 14.724 r_dihedral_angle_4_deg 12.762 r_scangle_it 2.544 r_scbond_it 1.754 r_angle_refined_deg 1.622 r_mcangle_it 1.344 r_mcbond_it 0.831 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.453 r_dihedral_angle_1_deg 15.567 r_dihedral_angle_3_deg 14.724 r_dihedral_angle_4_deg 12.762 r_scangle_it 2.544 r_scbond_it 1.754 r_angle_refined_deg 1.622 r_mcangle_it 1.344 r_mcbond_it 0.831 r_nbtor_refined 0.307 r_symmetry_vdw_refined 0.281 r_nbd_refined 0.221 r_xyhbond_nbd_refined 0.197 r_symmetry_hbond_refined 0.179 r_chiral_restr 0.134 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other 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 960 Nucleic Acid Atoms Solvent Atoms 111 Heterogen Atoms 12
Software Software Software Name Purpose MOSFLM data reduction MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction SCALA data scaling