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Crystal Structure of VCBP3, domain 1, from Branchiostoma floridae
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 295 1.2-1.4 M ammonium sulfate, 0.1 M NaCl, 0.1 M tris-HCl (or HEPES), 12% glycerol, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.708 54.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.191 α = 90 b = 59.191 β = 90 c = 79.263 γ = 120
Symmetry Space Group P 31 2 1
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 210 Oxford Danfysik toroidal focusing mirror, Si(111) channel cut monochromator 2004-06-13 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X6A 0.9796, 0.97908, 0.95007 NSLS X6A
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 1.15 30 99.8 0.049 59.3 14 57420 57420
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) 1.15 1.16 99.7 0.37 6 1898
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 (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD FREE R 1.15 20 51693 51693 5835 89.8 0.1277 0.1277 0.1269 0.1434 0.1651 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 5 904.7 1214.85
RMS Deviations Key Refinement Restraint Deviation s_non_zero_chiral_vol 0.115 s_zero_chiral_vol 0.1 s_approx_iso_adps 0.083 s_angle_d 0.032 s_from_restr_planes 0.0318 s_anti_bump_dis_restr 0.031 s_similar_adp_cmpnt 0.023 s_bond_d 0.016 s_rigid_bond_adp_cmpnt 0.005 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1057 Nucleic Acid Atoms Solvent Atoms 223 Heterogen Atoms 5
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SHELX model building SHELXL-97 refinement SOLVE phasing