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HcgE from Methanothermobacter marburgensis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ZUD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 298 15%(w/v) PEG6000, 0.1M sodium citrate, pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.14 42.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.39 α = 90 b = 73.52 β = 118.05 c = 68.58 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 PIXEL PSI PILATUS 6M 2013-04-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.979 SLS X10SA
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 1.6 50 98.9 0.028 24.03 3.35 78396 -3 29.534
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.85 99.3 0.267 0.318 5.41
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 1ZUD 1.6 19.93 78334 3936 99.07 0.1671 0.1654 0.1658 0.1987 0.199 RANDOM 27.257
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] -0.17 -0.14 0.8 -0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.239 r_dihedral_angle_4_deg 20.729 r_dihedral_angle_3_deg 13.554 r_dihedral_angle_1_deg 5.815 r_scbond_it 3.817 r_mcangle_it 3.092 r_angle_refined_deg 2.308 r_mcbond_it 2.161 r_chiral_restr 0.183 r_bond_refined_d 0.023
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.239 r_dihedral_angle_4_deg 20.729 r_dihedral_angle_3_deg 13.554 r_dihedral_angle_1_deg 5.815 r_scbond_it 3.817 r_mcangle_it 3.092 r_angle_refined_deg 2.308 r_mcbond_it 2.161 r_chiral_restr 0.183 r_bond_refined_d 0.023 r_gen_planes_refined 0.013
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4572 Nucleic Acid Atoms Solvent Atoms 366 Heterogen Atoms 27
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction XDS data scaling XDS data reduction MOLREP phasing