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N33Q mutant of FMN-binding protein from Desulfovibrio vulgaris (Miyazaki F)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FLM PDB ENTRY 1FLM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 277 20% PEG 6000, 0.1M Tris, 0.2M sodium acetate, 16.8% glycerol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.0K
Crystal Properties Matthews coefficient Solvent content 2.37 48.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.767 α = 90 b = 83.993 β = 93.74 c = 40.445 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 95 CCD ADSC QUANTUM 315r 2011-06-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-17A 0.9800 Photon Factory BL-17A
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 1.4 20 100 0.059 7.4 48156
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 1.4 1.48 100 0.279 7.4
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1FLM 1.4 20 45694 2434 99.98 0.16694 0.16604 0.18397 0.1924 RANDOM 15.91
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] -0.88 -0.05 0.48 0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.108 r_dihedral_angle_4_deg 10.978 r_dihedral_angle_3_deg 10.665 r_dihedral_angle_1_deg 5.839 r_scangle_it 2.781 r_scbond_it 1.722 r_angle_refined_deg 1.165 r_mcangle_it 1.109 r_mcbond_it 0.59 r_chiral_restr 0.083
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.108 r_dihedral_angle_4_deg 10.978 r_dihedral_angle_3_deg 10.665 r_dihedral_angle_1_deg 5.839 r_scangle_it 2.781 r_scbond_it 1.722 r_angle_refined_deg 1.165 r_mcangle_it 1.109 r_mcbond_it 0.59 r_chiral_restr 0.083 r_bond_refined_d 0.007 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1854 Nucleic Acid Atoms Solvent Atoms 341 Heterogen Atoms 63
Software Software Software Name Purpose HKL-2000 data collection MOLREP phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling