2FJ1

Crystal Structure Analysis of Tet Repressor (class D) in Complex with 7-Chlortetracycline-Nickel(II)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2TCTPDB ENTRY 2TCT

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.22931.58 M Ammonium sulphate, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K
Crystal Properties
Matthews coefficientSolvent content
2.3146.67

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 68.937α = 90
b = 68.937β = 90
c = 180.893γ = 90
Symmetry
Space GroupI 41 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray277IMAGE PLATEMARRESEARCH1997-01-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODEENRAF-NONIUS FR5711.5418

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
12.264.597.60.0616.44.5107061070632.1
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.22.2580.2683.2751

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 ENTRY 2TCT2.264.55107061070654497.620.149420.149420.146380.2147RANDOM33.999
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]
0.780.78-1.55
RMS Deviations
KeyRefinement Restraint Deviation
r_scangle_it6.745
r_dihedral_angle_1_deg6.039
r_scbond_it4.094
r_mcangle_it3.042
r_angle_refined_deg2.464
r_mcbond_it1.609
r_angle_other_deg1.146
r_symmetry_vdw_other0.312
r_nbd_other0.252
r_symmetry_hbond_refined0.245
RMS Deviations
KeyRefinement Restraint Deviation
r_scangle_it6.745
r_dihedral_angle_1_deg6.039
r_scbond_it4.094
r_mcangle_it3.042
r_angle_refined_deg2.464
r_mcbond_it1.609
r_angle_other_deg1.146
r_symmetry_vdw_other0.312
r_nbd_other0.252
r_symmetry_hbond_refined0.245
r_nbd_refined0.242
r_symmetry_vdw_refined0.24
r_xyhbond_nbd_refined0.195
r_chiral_restr0.167
r_nbtor_other0.113
r_bond_refined_d0.034
r_gen_planes_refined0.014
r_gen_planes_other0.01
r_bond_other_d0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1641
Nucleic Acid Atoms
Solvent Atoms102
Heterogen Atoms37

Software

Software
Software NamePurpose
REFMACrefinement
MAR345data collection
SCALEPACKdata scaling