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Crystal structure of Methionine aminopeptidase (TM1478) from Thermotoga maritima at 1.90 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MAT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.6 293 19% iso-propanol, 19% P4K, 0.095 M Na-citrate pH 5.6, 5% glycerol, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K, pH 5.60
Crystal Properties Matthews coefficient Solvent content 2.47 50.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.58 α = 90 b = 62.58 β = 90 c = 146.13 γ = 90
Symmetry Space Group P 43 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 ADSC QUANTUM 4 2001-05-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.3 ALS 5.0.3
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 1.9 50 90.6 0.07 16.53 21470 53
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.9 1.97 90 2.95
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 WITH PROGRAM AMORE FREE R 1MAT 1.9 47.53 21420 1098 90.3 0.203 0.203 0.193 0.254 0.2431 RANDOM 44.2
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] -1.278 -4.288 5.566
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 7.194 c_scbond_it 5.377 c_mcangle_it 3.998 c_mcbond_it 3.355 c_angle_deg 1.99 c_bond_d 0.018 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 7.194 c_scbond_it 5.377 c_mcangle_it 3.998 c_mcbond_it 3.355 c_angle_deg 1.99 c_bond_d 0.018 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1934 Nucleic Acid Atoms Solvent Atoms 195 Heterogen Atoms
Software Software Software Name Purpose Blu-Ice data collection MOSFLM data reduction CCP4 data reduction SCALEPACK data scaling SnB phasing MLPHARE phasing CCP4 model building SOLVE phasing CNS refinement CCP4 data scaling CCP4 phasing