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Crystal structure of E.coli apo-HPPK(W89A) at 1.45 Angstrom resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HKA PDB ID 1HKA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.4 292 PEG4000, MAGNESIUM CHLORIDE, ACETATE, TRIS-HCL, IMIDAZOLE, pH 8.4, VAPOR DIFFUSION, HANGING DROP, temperature 292.0K
Crystal Properties Matthews coefficient Solvent content 1.92 28.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.132 α = 90 b = 46.57 β = 110.36 c = 43.365 γ = 90
Symmetry Space Group P 1 21 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 4 MIRROR 2000-06-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X9B NSLS X9B
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 1.45 30 97.7 0.06 19.3682 4.163 23408 23408 21.3
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) 1.45 1.5 95.8 0.63 1.864 3.58 2274
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) 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 MOLECULAR REPLACEMENT FREE R PDB ID 1HKA 1.45 30 2 4 22205 17141 1188 92.7 0.131 0.131 0.1478 0.174 0.1682 RANDOM 24.1
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 16 1120 1513
RMS Deviations Key Refinement Restraint Deviation s_anti_bump_dis_restr 0.414 s_non_zero_chiral_vol 0.082 s_approx_iso_adps 0.08 s_zero_chiral_vol 0.071 s_similar_adp_cmpnt 0.065 s_angle_d 0.032 s_from_restr_planes 0.031 s_bond_d 0.014 s_rigid_bond_adp_cmpnt 0.003 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1350 Nucleic Acid Atoms Solvent Atoms 252 Heterogen Atoms 3
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing SHELXL-97 refinement