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Structure of Human Ubiquitin-Conjugating Enzyme (UBCi) Involved in Embryo Attachment and Implantation
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.8 298 NACL, SODIUM CACODYLATE, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K, pH 5.8
Crystal Properties Matthews coefficient Solvent content 2.84 56.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 126.442 α = 90 b = 126.442 β = 90 c = 104.872 γ = 90
Symmetry Space Group I 4 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 QUANTUM 210 MIRRORS 2005-05-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F1 CHESS F1
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 1.8 27.07 91.4 0.059 22.5 2.8 36041 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.86 94.2 2.4 2.7
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 SAD THROUGHOUT 1.8 27.08 36041 34253 1788 91.43 0.20143 0.1998 0.23239 0.2355 RANDOM 30.471
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] 1.28 1.28 -2.57
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.412 r_dihedral_angle_4_deg 18.012 r_dihedral_angle_3_deg 13.879 r_scangle_it 5.992 r_dihedral_angle_1_deg 5.815 r_scbond_it 4.159 r_mcangle_it 3.249 r_mcbond_it 2.259 r_angle_refined_deg 1.476 r_symmetry_vdw_refined 0.392
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.412 r_dihedral_angle_4_deg 18.012 r_dihedral_angle_3_deg 13.879 r_scangle_it 5.992 r_dihedral_angle_1_deg 5.815 r_scbond_it 4.159 r_mcangle_it 3.249 r_mcbond_it 2.259 r_angle_refined_deg 1.476 r_symmetry_vdw_refined 0.392 r_nbtor_refined 0.31 r_nbd_refined 0.206 r_xyhbond_nbd_refined 0.158 r_symmetry_hbond_refined 0.155 r_chiral_restr 0.105 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 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 2402 Nucleic Acid Atoms Solvent Atoms 224 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling SOLVE phasing