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Structure of human IST1(NTD) - (residues 1-189)(P21)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GD5 PDB ENTRY 2GD5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.6 296 35% pentaethritol propexylate
180mM KCl
50 mM HEPES, pH 7.6
7% ethylene glycol, VAPOR DIFFUSION, SITTING DROP, temperature 296K
Crystal Properties Matthews coefficient Solvent content 2.05 39.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 29.251 α = 90 b = 92.364 β = 97.02 c = 33.251 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 IMAGE PLATE RIGAKU RAXIS IV 2008-08-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54
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 1.8 50 97.2 0.053 19.209 3.1 15886 15886 25.4
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) 1.8 1.86 79.1 0.163 4.5 1.8 1296
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 THROUGHOUT PDB ENTRY 2GD5 1.8 46.18 15861 15861 648 97.24 0.197 0.197 0.195 0.1938 0.247 0.2517 RANDOM 27.235
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] -0.7 0.72 0.12 0.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.673 r_dihedral_angle_3_deg 14.455 r_dihedral_angle_4_deg 13.29 r_dihedral_angle_1_deg 4.398 r_scangle_it 4.386 r_scbond_it 2.459 r_mcangle_it 1.435 r_angle_refined_deg 1.347 r_mcbond_it 0.754 r_chiral_restr 0.088
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.673 r_dihedral_angle_3_deg 14.455 r_dihedral_angle_4_deg 13.29 r_dihedral_angle_1_deg 4.398 r_scangle_it 4.386 r_scbond_it 2.459 r_mcangle_it 1.435 r_angle_refined_deg 1.347 r_mcbond_it 0.754 r_chiral_restr 0.088 r_bond_refined_d 0.011 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1549 Nucleic Acid Atoms Solvent Atoms 163 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection