2P2G

Crystal Structure of Ornithine Carbamoyltransferase from Mycobacterium Tuberculosis (Rv1656): Orthorhombic Form


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1FB5PDB ID 1FB5

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.52730.1M Magnesium sulfate, 0.1M HEPES pH 7.5, 10% PEG 8000, 3% ETHANOL, Protein concentration 40mg/ml, VAPOR DIFFUSION, HANGING DROP, temperature 273K
Crystal Properties
Matthews coefficientSolvent content
2.7154.59

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 79.166α = 90
b = 144.646β = 90
c = 187.769γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315Vertical focusing mirror2006-11-26MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL9-10.979462SSRLBL9-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.74097.30.1637.93.9583295832962.4
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.72.890.80.6751.93.75375

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ID 1FB52.738.185531355313294896.670.204680.204680.201720.25903RANDOM43.695
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]
-1.330.141.19
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.464
r_dihedral_angle_3_deg18.898
r_dihedral_angle_4_deg18.37
r_dihedral_angle_1_deg5.918
r_scangle_it2.314
r_angle_refined_deg1.401
r_scbond_it1.373
r_mcangle_it0.939
r_mcbond_it0.529
r_nbtor_refined0.308
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.464
r_dihedral_angle_3_deg18.898
r_dihedral_angle_4_deg18.37
r_dihedral_angle_1_deg5.918
r_scangle_it2.314
r_angle_refined_deg1.401
r_scbond_it1.373
r_mcangle_it0.939
r_mcbond_it0.529
r_nbtor_refined0.308
r_nbd_refined0.191
r_symmetry_hbond_refined0.18
r_symmetry_vdw_refined0.179
r_xyhbond_nbd_refined0.17
r_chiral_restr0.098
r_bond_refined_d0.011
r_gen_planes_refined0.004
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms13487
Nucleic Acid Atoms
Solvent Atoms140
Heterogen Atoms80

Software

Software
Software NamePurpose
REFMACrefinement
Blu-Icedata collection
HKL-2000data reduction
SCALEPACKdata scaling
AMoREphasing