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Crystal structure of FMN-binding protein (NP_142786.1) from Pyrococcus horikoshii at 1.35 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.6 277 NANODROP, 0.2M Ammonium formate, 20.0% PEG 3350, No Buffer pH 6.6, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 1.88 34.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.2 α = 90 b = 46.2 β = 90 c = 267.59 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 MARMOSAIC 325 mm CCD Flat mirror (vertical focusing) 2007-07-20 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837, 0.97939, 0.97910 SSRL BL11-1
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 1.25 44.588 84.5 0.068 23.93 18.3 41184 15.957
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 1.25 1.29 28.2 0.318 3.2 3.3
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 (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 MAD THROUGHOUT 1.25 44.588 41182 2082 84.97 0.128 0.128 0.127 0.124 0.154 0.1486 RANDOM 12.524
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] 0.58 0.29 0.58 -0.87
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.349 r_dihedral_angle_4_deg 20.425 r_dihedral_angle_3_deg 12.533 r_sphericity_free 10.388 r_dihedral_angle_1_deg 6.341 r_scangle_it 5.458 r_sphericity_bonded 4.923 r_scbond_it 4.516 r_mcangle_it 3.552 r_mcbond_it 2.895
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.349 r_dihedral_angle_4_deg 20.425 r_dihedral_angle_3_deg 12.533 r_sphericity_free 10.388 r_dihedral_angle_1_deg 6.341 r_scangle_it 5.458 r_sphericity_bonded 4.923 r_scbond_it 4.516 r_mcangle_it 3.552 r_mcbond_it 2.895 r_rigid_bond_restr 2.843 r_mcbond_other 2.077 r_angle_refined_deg 1.549 r_angle_other_deg 1.083 r_symmetry_vdw_refined 0.339 r_symmetry_vdw_other 0.276 r_nbd_refined 0.211 r_nbd_other 0.206 r_nbtor_refined 0.189 r_symmetry_hbond_refined 0.177 r_xyhbond_nbd_refined 0.15 r_chiral_restr 0.103 r_nbtor_other 0.091 r_bond_refined_d 0.015 r_gen_planes_refined 0.011 r_bond_other_d 0.005 r_gen_planes_other 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1444 Nucleic Acid Atoms Solvent Atoms 208 Heterogen Atoms 44
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction MAR345 data collection XDS data reduction SHELXD phasing autoSHARP phasing