☰ Navigation Tabs
Atomic resolution crystal structure of E.coli dihydroneopterin aldolase in complex with neopterin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DHN PDB entry 1DHN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 292 SODIUM FORMATE, TRIS-HCL, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.45 49.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.192 α = 90 b = 81.192 β = 90 c = 81.054 γ = 90
Symmetry Space Group I 4 2 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 MIRROR 2003-04-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X9B 0.97950 NSLS X9B
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 1.07 30 95.1 0.043 40.8 9.111 56733 56733 12.5
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) 1.07 1.11 64.6 0.309 2.3 6.02 3789
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) 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 FREE R PDB entry 1DHN 1.07 21.7 2 4 53895 45617 2832 90.4 0.1312 0.1299 0.1299 0.1316 0.1497 0.1537 RANDOM
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 30 547 1176.67
RMS Deviations Key Refinement Restraint Deviation s_anti_bump_dis_restr 0.354 s_approx_iso_adps 0.109 s_zero_chiral_vol 0.09 s_non_zero_chiral_vol 0.086 s_similar_adp_cmpnt 0.048 s_angle_d 0.034 s_from_restr_planes 0.032 s_bond_d 0.019 s_rigid_bond_adp_cmpnt 0.006 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1001 Nucleic Acid Atoms Solvent Atoms 279 Heterogen Atoms 23
Software Software Software Name Purpose AMoRE phasing SHELXL-97 refinement ADSC data collection DENZO data reduction SCALEPACK data scaling