3HCY

The crystal structure of the domain of putative two-component sensor histidine kinase protein from Sinorhizobium meliloti 1021


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP4.62890.1M Sodium Acetate, 2.0M Sodium Formate, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties
Matthews coefficientSolvent content
2.9558.35

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 73.346α = 90
b = 73.346β = 90
c = 257.258γ = 120
Symmetry
Space GroupP 61 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315rSi 111 channel2008-07-11MMAD
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 19-ID0.9794, 0.9796APS19-ID

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
12.861.6699.80.10530.225.7103431032222
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)
12.82.87399.10.843.3824.5774

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 (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMADTHROUGHOUT2.861.66103431032252399.80.209690.206740.26018RANDOM28.36
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]
-2.12-1.06-2.123.18
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.421
r_dihedral_angle_3_deg22.727
r_dihedral_angle_4_deg22.474
r_dihedral_angle_1_deg10.738
r_scangle_it4.101
r_scbond_it2.418
r_angle_refined_deg2.052
r_mcangle_it1.793
r_angle_other_deg1.128
r_mcbond_it0.939
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.421
r_dihedral_angle_3_deg22.727
r_dihedral_angle_4_deg22.474
r_dihedral_angle_1_deg10.738
r_scangle_it4.101
r_scbond_it2.418
r_angle_refined_deg2.052
r_mcangle_it1.793
r_angle_other_deg1.128
r_mcbond_it0.939
r_mcbond_other0.141
r_chiral_restr0.122
r_bond_refined_d0.022
r_gen_planes_refined0.009
r_bond_other_d0.002
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2254
Nucleic Acid Atoms
Solvent Atoms12
Heterogen Atoms

Software

Software
Software NamePurpose
SBC-Collectdata collection
SOLVEphasing
REFMACrefinement
HKL-3000data reduction
HKL-3000data scaling