☰ Navigation Tabs
Crystal structure of N-acetylglucosamine kinase (TM1224) from Thermotoga maritima at 2.46 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP, NANODROP 7 277 0.2M KThioCyanate, 20.0% PEG-3350, No Buffer, pH 7.0, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.29 46.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.599 α = 90 b = 62.599 β = 90 c = 173.95 γ = 120
Symmetry Space Group P 31 1 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 collimating mirror, toroid focusing mirror 2004-06-11 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.891940, 0.979083, 0.979251 SSRL BL9-2
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 2.46 46.029 96.7 0.125 9.25 5.42 14118 47.99
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 2.46 2.55 91.9 0.91 1.79 1464
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 MAD THROUGHOUT 2.46 33.93 14086 710 97.38 0.219 0.216 0.2224 0.271 0.2727 RANDOM 39.153
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] 0.25 0.13 0.25 -0.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.589 r_dihedral_angle_4_deg 13.243 r_dihedral_angle_3_deg 11.417 r_scangle_it 6.249 r_scbond_it 4.127 r_dihedral_angle_1_deg 4.108 r_mcangle_it 2.256 r_mcbond_it 1.183 r_angle_refined_deg 1.031 r_angle_other_deg 0.625
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.589 r_dihedral_angle_4_deg 13.243 r_dihedral_angle_3_deg 11.417 r_scangle_it 6.249 r_scbond_it 4.127 r_dihedral_angle_1_deg 4.108 r_mcangle_it 2.256 r_mcbond_it 1.183 r_angle_refined_deg 1.031 r_angle_other_deg 0.625 r_nbd_refined 0.229 r_mcbond_other 0.211 r_symmetry_vdw_refined 0.195 r_nbd_other 0.191 r_nbtor_refined 0.181 r_symmetry_vdw_other 0.163 r_metal_ion_refined 0.14 r_xyhbond_nbd_refined 0.126 r_symmetry_hbond_refined 0.124 r_nbtor_other 0.086 r_chiral_restr 0.064 r_bond_refined_d 0.013 r_bond_other_d 0.001 r_gen_planes_refined 0.001 r_gen_planes_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2652 Nucleic Acid Atoms Solvent Atoms 15 Heterogen Atoms 7
Software Software Software Name Purpose MolProbity model building REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHARP phasing