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Crystal structure of a duf861 family protein (tm1112) from thermotoga maritima at 1.83 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LKN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION,SITTING DROP,NANODROP 277 25.5% PEG-4000, 0.17M ammonium sulfate, 15% glycerol anhydrous , VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.48 49.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.627 α = 90 b = 74.729 β = 91.02 c = 42.21 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 ADSC QUANTUM 315 2001-06-03 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 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 1.81 36.76 94.9 0.045 18 2.6 21322 21322 36.92
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.81 1.85 34.6 0.307 3.1 1.8 461
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 1lkn 1.83 27.98 20232 1071 98.15 0.17277 0.17011 0.184 0.22239 0.1743 RANDOM 33.54
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] 0.84 0.38 -0.86 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.751 r_dihedral_angle_4_deg 24.74 r_dihedral_angle_3_deg 12.71 r_dihedral_angle_1_deg 7.884 r_scangle_it 3.506 r_scbond_it 2.821 r_angle_refined_deg 1.649 r_mcangle_it 1.496 r_mcbond_it 1.36 r_angle_other_deg 0.842
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.751 r_dihedral_angle_4_deg 24.74 r_dihedral_angle_3_deg 12.71 r_dihedral_angle_1_deg 7.884 r_scangle_it 3.506 r_scbond_it 2.821 r_angle_refined_deg 1.649 r_mcangle_it 1.496 r_mcbond_it 1.36 r_angle_other_deg 0.842 r_symmetry_vdw_other 0.343 r_symmetry_vdw_refined 0.227 r_nbd_refined 0.194 r_symmetry_hbond_refined 0.191 r_nbd_other 0.179 r_chiral_restr 0.117 r_nbtor_other 0.084 r_xyhbond_nbd_refined 0.078 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1504 Nucleic Acid Atoms Solvent Atoms 282 Heterogen Atoms 13
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing REFMAC refinement CCP4 data scaling