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Crystal Structure of TRAF2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3M0A PDB ENTRY 3M0A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 293 8% PEG3350, 6% Tacsimate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.76 70.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 150.706 α = 90 b = 150.706 β = 90 c = 86.728 γ = 120
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 2009-11-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 1.08 NSLS X29A
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 2.64 50 92.2 0.068 0.053 13.4 5.8 20824 2 2
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) 2.64 2.69 45.5 0.376 5.1 515
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 PDB ENTRY 3M0A 2.67 36.13 20821 1053 99.73 0.194 0.192 0.2246 0.233 0.2195 RANDOM 56.46
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] -12.73 -12.73 25.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.118 r_dihedral_angle_3_deg 22.29 r_dihedral_angle_4_deg 17.384 r_dihedral_angle_1_deg 6.349 r_scangle_it 4.403 r_scbond_it 2.517 r_mcangle_it 1.428 r_angle_refined_deg 1.236 r_mcbond_it 0.66 r_chiral_restr 0.074
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.118 r_dihedral_angle_3_deg 22.29 r_dihedral_angle_4_deg 17.384 r_dihedral_angle_1_deg 6.349 r_scangle_it 4.403 r_scbond_it 2.517 r_mcangle_it 1.428 r_angle_refined_deg 1.236 r_mcbond_it 0.66 r_chiral_restr 0.074 r_bond_refined_d 0.009 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2625 Nucleic Acid Atoms Solvent Atoms 61 Heterogen Atoms
Software Software Software Name Purpose ADSC data collection MOLREP phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling