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crystal structure of dimethylarginine dimethylaminohydrolase I in complex with citrulline
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1H70 PDB ENTRY 1H70
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5 100 MM CITRIC ACID/NAOH, 20-40% PEG 8000, 2 MM TCEP, PH 5.0
Crystal Properties Matthews coefficient Solvent content 1.87 34.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.652 α = 90 b = 80.134 β = 108.07 c = 44.932 γ = 90
Symmetry Space Group P 1 21 1
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 MARRESEARCH 2004-03-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA SLS X06SA
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 1.2 30 98 0.08 10.8 2.98 91675 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) 1 1.16 1.2 77.9 0.37 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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-VALUE PDB ENTRY 1H70 1.2 20 81946 2580 96.2 0.1211 0.1215 0.1297 0.1688 0.1695 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 33 2084.3 2526.15
RMS Deviations Key Refinement Restraint Deviation s_approx_iso_adps 0.099 s_non_zero_chiral_vol 0.081 s_zero_chiral_vol 0.073 s_similar_adp_cmpnt 0.052 s_angle_d 0.03 s_from_restr_planes 0.0296 s_anti_bump_dis_restr 0.022 s_bond_d 0.013 s_rigid_bond_adp_cmpnt 0.004 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2108 Nucleic Acid Atoms Solvent Atoms 395 Heterogen Atoms 25
Software Software Software Name Purpose SHELXL-97 refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing