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Crystal structure of Imidazole glycerol phosphate synthase subunit hisF (EC 4.1.3.-) (tm1036) from Thermotoga maritima at 1.64 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VH7 PDB entry 1vh7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP, NANODROP 6.9 273 0.2None Nal, 20.0% PEG-3350, No Buffer, pH 6.9, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 273K
Crystal Properties Matthews coefficient Solvent content 3.29 62.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.61 α = 90 b = 96.61 β = 90 c = 155.828 γ = 120
Symmetry Space Group P 61 2 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 315 Flat Mirror; Side-deflecting monochromator (Si 111) 2004-03-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-1 SSRL BL9-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.64 48.31 100 0.096 0.096 6.2 12.9 53271
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.64 1.68 100 0.014 0.01369 0.5 10.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1vh7 1.64 48.31 50488 2704 99.99 0.168 0.167 0.1778 0.192 0.2024 RANDOM 20.454
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] 0.03 0.01 0.03 -0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.281 r_dihedral_angle_4_deg 20.161 r_dihedral_angle_3_deg 10.15 r_scangle_it 7.148 r_dihedral_angle_1_deg 5.213 r_scbond_it 5.007 r_mcangle_it 3.04 r_angle_refined_deg 1.908 r_mcbond_it 1.901 r_angle_other_deg 1.699
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.281 r_dihedral_angle_4_deg 20.161 r_dihedral_angle_3_deg 10.15 r_scangle_it 7.148 r_dihedral_angle_1_deg 5.213 r_scbond_it 5.007 r_mcangle_it 3.04 r_angle_refined_deg 1.908 r_mcbond_it 1.901 r_angle_other_deg 1.699 r_mcbond_other 0.555 r_nbd_refined 0.241 r_nbd_other 0.194 r_symmetry_vdw_other 0.181 r_xyhbond_nbd_refined 0.167 r_symmetry_hbond_refined 0.167 r_chiral_restr 0.099 r_nbtor_other 0.096 r_symmetry_vdw_refined 0.086 r_bond_refined_d 0.017 r_gen_planes_other 0.017 r_gen_planes_refined 0.012 r_bond_other_d 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1915 Nucleic Acid Atoms Solvent Atoms 279 Heterogen Atoms 42
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction CCP4 data scaling MOLREP phasing