☰ Navigation Tabs
Crystal structure of protein-disulfide isomerase from Novosphingobium aromaticivorans
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.5 294 0.1M Sodium acetate pH 4.5, 3M Sodium chloride, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.52 51.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.526 α = 90 b = 101.526 β = 90 c = 58.413 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 90 CCD ADSC QUANTUM 315 Mirrors 2009-03-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 0.9793 NSLS X29A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.76 50.77 98.7 0.062 12.5 3.1 22299 -5 29.524
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 1.76 1.82 99.5 0.37 2 3.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.76 50.77 21355 714 98.97 0.18595 0.18456 0.1835 0.22908 0.2273 RANDOM 33.492
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] 0.08 0.04 0.08 -0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.047 r_dihedral_angle_3_deg 15.195 r_dihedral_angle_4_deg 12.165 r_scangle_it 7.202 r_scbond_it 5.206 r_dihedral_angle_1_deg 4.963 r_mcangle_it 4.217 r_mcbond_it 3.094 r_angle_refined_deg 1.321 r_nbtor_refined 0.299
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.047 r_dihedral_angle_3_deg 15.195 r_dihedral_angle_4_deg 12.165 r_scangle_it 7.202 r_scbond_it 5.206 r_dihedral_angle_1_deg 4.963 r_mcangle_it 4.217 r_mcbond_it 3.094 r_angle_refined_deg 1.321 r_nbtor_refined 0.299 r_symmetry_hbond_refined 0.207 r_xyhbond_nbd_refined 0.19 r_nbd_refined 0.176 r_symmetry_vdw_refined 0.155 r_chiral_restr 0.088 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 1538 Nucleic Acid Atoms Solvent Atoms 182 Heterogen Atoms 3
Software Software Software Name Purpose ADSC data collection SHELXD phasing REFMAC refinement DENZO data reduction HKL-2000 data scaling