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Crystal Structure of Tendamistat
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HOE PDB ENTRY 1HOE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 1.5 20MG OF LYOPHILIZED PROTEIN WERE DISSOLVED IN 1ML OF DOUBLE-DISTILLED WATER. USING THE HANGING DROP METHOD WITH DROPS OF 2MUL PROTEIN SOLUTION (20 MG/ML) AND 2MUL RESERVOIR SOLUTION (0.1-0.5 M NACL ADJUSTED TO PH 1.3 WITH HYDROCHLORIC ACID), YIELDED TUFT-SHAPED AGGLOMERATES OF ESSENTIALLY ONE-DIMENSIONAL CRYSTALS. STREAK SEEDING {EM VIA} A CAT WHISKER AFTER TOUCHING THESE AGGLOMERATES GAVE SINGLE CRYSTALS WITH DIMENSIONS UP TO 0.1 X 0.01 X 0.01MM^3
Crystal Properties Matthews coefficient Solvent content 2 38.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 25.68 α = 90 b = 40.78 β = 90 c = 60.95 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate 1999-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 EMBL/DESY, HAMBURG X11
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 0.93 40 93.5 0.054 20.3 6.9 261064
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 0.93 0.95 79.9 0.326 4.3 3.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 THROUGHOUT PDB ENTRY 1HOE 0.93 10 2054 5 93.5 0.1029 0.1026 0.1105 0.13 0.1133 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 15
RMS Deviations Key Refinement Restraint Deviation s_from_restr_planes 0.341 s_non_zero_chiral_vol 0.097 s_approx_iso_adps 0.087 s_zero_chiral_vol 0.082 s_angle_d 0.033 s_similar_adp_cmpnt 0.033 s_anti_bump_dis_restr 0.026 s_bond_d 0.015 s_rigid_bond_adp_cmpnt 0.005 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 558 Nucleic Acid Atoms Solvent Atoms 159 Heterogen Atoms 13
Software Software Software Name Purpose SHELXL-97 refinement DENZO data reduction SCALEPACK data scaling