☰ Navigation Tabs
1.55 ANGSTROM CRYSTAL STRUCTURE OF WILD TYPE DIPHTHERIA TOXIN
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MDT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 2 MICROLITERS OF PROTEIN SOLUTION CONSISTING OF:
8 MG/ML WILD TYPE DIPHTHERIA TOXIN MONOMER + APUP,
0.5 MILLIMOLAR EDTA,
50 MILLIMOLAR TRIS-HCL, PH 7.5
PLUS 2 MICROLITERS OF RESERVIOR SOLUTION CONSISTING OF:
17% PEG 8000,
1 MOLAR SODIUM CHLORIDE,
50 MILLIMOLAR TRIS-HCL, PH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2 38.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 167.77 α = 90 b = 134.88 β = 90 c = 46.87 γ = 90
Symmetry Space Group P 21 21 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 4 1997-11-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X12B NSLS X12B
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 1.55 40 97 0.057 6.8 3.9 583084 149412 20.1
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) 1.55 1.62 81.5 0.285 2.5 2.8 18092
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R 1MDT 1.55 40 149412 149412 7212 97 0.188 0.188 0.188 0.1902 0.238 0.2096 NCS-RELATED (G.PFLUEGL)
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 78 7782 9442
RMS Deviations Key Refinement Restraint Deviation s_non_zero_chiral_vol 0.045 s_zero_chiral_vol 0.044 s_anti_bump_dis_restr 0.039 s_similar_adp_cmpnt 0.031 s_from_restr_planes 0.0256 s_angle_d 0.023 s_bond_d 0.008 s_similar_dist s_rigid_bond_adp_cmpnt s_approx_iso_adps
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8300 Nucleic Acid Atoms Solvent Atoms 1809 Heterogen Atoms 95
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling SHELXL refinement SHELXL-97 refinement CCP4 data scaling