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Crystal structure of the full-length Neurospora crassa T7H in complex with alpha-KG
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5C3O
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 289 0.1 M BIS-TRIS, 25%(W/v) PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.16 43.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.185 α = 90 b = 154.726 β = 90.6 c = 75.434 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 RAYONIX MX225HE 2014-11-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.9792 SSRF BL17U
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.1 50 99.3 0.079 0.095 0.052 10.9 3.3 75367 36.6
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.18 99.9 0.406 0.485 0.263 0.839 3.2 3.3 7543
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 (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 5C3O 2.1 50 71601 3731 98.96 0.1872 0.1854 0.1889 0.2219 0.2243 RANDOM 46.526
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] 1.34 -0.28 -0.27 -1.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.393 r_dihedral_angle_3_deg 13.809 r_dihedral_angle_4_deg 11.595 r_dihedral_angle_1_deg 5.595 r_angle_other_deg 3.564 r_mcangle_it 2.453 r_mcbond_it 1.478 r_mcbond_other 1.477 r_angle_refined_deg 1.077 r_chiral_restr 0.063
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.393 r_dihedral_angle_3_deg 13.809 r_dihedral_angle_4_deg 11.595 r_dihedral_angle_1_deg 5.595 r_angle_other_deg 3.564 r_mcangle_it 2.453 r_mcbond_it 1.478 r_mcbond_other 1.477 r_angle_refined_deg 1.077 r_chiral_restr 0.063 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 r_gen_planes_other 0.004 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10130 Nucleic Acid Atoms Solvent Atoms 495 Heterogen Atoms 104
Software Software Software Name Purpose HKL-2000 data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction