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Crystal structure of the D100E mutant of the Indian Hedgehog N-terminal signalling domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VHH PDB ENTRY 1VHH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 289 30% PEG 4000, 0.2M (NH4)2SO4, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 1.81 31.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.16 α = 90 b = 52.4 β = 89.97 c = 34.66 γ = 90
Symmetry Space Group C 1 2 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 IMAGE PLATE MAR scanner 345 mm plate 2009-02-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54178
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 1.9 24.73 98.8 0.079 10.7 3.1 11849 23.67
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) 1.9 2 97.5 0.079 2.4 3.1 1680
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 THROUGHOUT PDB ENTRY 1VHH 1.9 18.721 1.35 11833 569 98.79 0.2035 0.1999 0.1944 0.2757 0.2655 RANDOM 26.239
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] -2.708 -7.897 6.847 -4.139
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 16.786 f_angle_d 0.886 f_chiral_restr 0.064 f_bond_d 0.006 f_plane_restr 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1181 Nucleic Acid Atoms Solvent Atoms 102 Heterogen Atoms 30
Software Software Software Name Purpose MAR345dtb data collection MOLREP phasing PHENIX refinement MOSFLM data reduction SCALA data scaling