2GUH

Crystal Structure of the Putative TetR-family Transcriptional Regulator from Rhodococcus sp. RHA1


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.529525 % PEG3350, 0.2M MgCl2, 0.1M Bis-Tris, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties
Matthews coefficientSolvent content
2.1242.08

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 42.259α = 90
b = 72.13β = 90
c = 133.875γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDSBC-3mirror2006-04-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 19-BM0.97872APS19-BM

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
11.5223.3799.60.1339.69.86458263688
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)
11.521.5599.40.4443.98.23100

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 DIFFRACTIONSADTHROUGHOUT1.5223.375719657196642199.430.170450.170450.16850.18781RANDOM20.302
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]
0.04-0.480.43
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.964
r_dihedral_angle_4_deg18.901
r_dihedral_angle_3_deg14.873
r_dihedral_angle_1_deg5.152
r_scangle_it3.32
r_scbond_it2.179
r_mcangle_it1.488
r_angle_refined_deg1.406
r_mcbond_it0.874
r_nbd_refined0.236
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.964
r_dihedral_angle_4_deg18.901
r_dihedral_angle_3_deg14.873
r_dihedral_angle_1_deg5.152
r_scangle_it3.32
r_scbond_it2.179
r_mcangle_it1.488
r_angle_refined_deg1.406
r_mcbond_it0.874
r_nbd_refined0.236
r_symmetry_vdw_refined0.201
r_symmetry_hbond_refined0.182
r_xyhbond_nbd_refined0.175
r_metal_ion_refined0.129
r_chiral_restr0.087
r_bond_refined_d0.013
r_gen_planes_refined0.006
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2753
Nucleic Acid Atoms
Solvent Atoms450
Heterogen Atoms19

Software

Software
Software NamePurpose
REFMACrefinement
SBC-Collectdata collection
HKL-2000data reduction
HKL-2000data scaling
HKL-3000phasing
MLPHAREphasing
RESOLVEphasing
SHELXEmodel building
SHELXDphasing