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METHYLMALONYL-COA MUTASE, SUBSTRATE-FREE STATE (POOR QUALITY STRUCTURE)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2REQ PDB ENTRY 2REQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 PROTEIN SOLUTION: 20 MG/ML PROTEIN, 1MM ADENOSYLCOBALAMIN, 1MM DTT, TRIS PH 7.5. RESERVOIR: 14% PEG 4000 (W/V), 20% GLYCEROL (V/V), 100MM TRIS-HCL PH 7.5. EQUAL VOLUMES OF PROTEIN SOLUTION AND RESERVOIR MIXED, AND EQUILIBRATED BY VAPOR DIFFUSION., vapor diffusion
Crystal Properties Matthews coefficient Solvent content 2.6 53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 110.91 α = 90 b = 110.91 β = 90 c = 257.74 γ = 90
Symmetry Space Group P 41 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 IMAGE PLATE MAR scanner 300 mm plate 2 MIRRORS, 2 SI(111) CRYSTAL MONOCHROMATOR 1996-06-26 M
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 ESRF BM14
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 2.7 29 99.2 0.072 7.9 9 44606 6 78
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 2.7 2.85 98.7 0.381 2 6.8
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-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 2REQ 2.7 20 41745 2224 97.6 0.313 0.2765 0.393 0.3462 RANDOM 68
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]
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 35 p_staggered_tor 25 p_special_tor 15 p_scangle_it 6.1 p_planar_tor 5.3 p_mcangle_it 4.2 p_scbond_it 4.2 p_mcbond_it 2.6 p_multtor_nbd 0.166 p_chiral_restr 0.156
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 35 p_staggered_tor 25 p_special_tor 15 p_scangle_it 6.1 p_planar_tor 5.3 p_mcangle_it 4.2 p_scbond_it 4.2 p_mcbond_it 2.6 p_multtor_nbd 0.166 p_chiral_restr 0.156 p_xyhbond_nbd 0.133 p_singtor_nbd 0.128 p_planar_d 0.049 p_angle_d 0.046 p_plane_restr 0.03 p_bond_d 0.012 p_angle_deg p_hb_or_metal_coord p_xhyhbond_nbd p_orthonormal_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10176 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 109
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling AMoRE phasing REFMAC refinement CCP4 data scaling