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The crystal structure of human Glia Maturation Factor, Gamma (GMFG)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VKK PDB ENTRY 1VKK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 2.0M NaCl, 10% PEG 6000, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.19 43.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.87 α = 90 b = 78.15 β = 90 c = 57.3 γ = 90
Symmetry Space Group P 21 21 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 225 mm CCD 2009-09-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.9796 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.9 46.21 99.8 0.122 0.122 9.5 5 22857
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 2 100 0.865 0.865 1.9 5.1 16823
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1VKK 1.9 46.21 21685 21685 1172 99.66 0.19271 0.19271 0.18941 0.2112 0.25493 0.2719 RANDOM 12.504
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] -0.33 -0.47 0.8
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.391 r_dihedral_angle_4_deg 16.422 r_dihedral_angle_3_deg 14.62 r_scangle_it 9.388 r_scbond_it 8.201 r_dihedral_angle_1_deg 6.311 r_mcangle_it 5.681 r_mcbond_it 4.53 r_mcbond_other 1.948 r_angle_refined_deg 1.448
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.391 r_dihedral_angle_4_deg 16.422 r_dihedral_angle_3_deg 14.62 r_scangle_it 9.388 r_scbond_it 8.201 r_dihedral_angle_1_deg 6.311 r_mcangle_it 5.681 r_mcbond_it 4.53 r_mcbond_other 1.948 r_angle_refined_deg 1.448 r_angle_other_deg 0.859 r_chiral_restr 0.084 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2217 Nucleic Acid Atoms Solvent Atoms 157 Heterogen Atoms 2
Software Software Software Name Purpose MAR345 data collection PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling