2Q4F

Ensemble refinement of the crystal structure of putative histidine-containing phosphotransfer protein from rice, Ak104879


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1YVIPDB entry 1YVI

Crystallization

Crystal Properties
Matthews coefficientSolvent content
2.855.6

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 100.558α = 90
b = 100.558β = 90
c = 69.568γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-rayAPS-1MSINGLE WAVELENGTH

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONRe-refinement using ensemble modelTHROUGHOUTPDB entry 1YVI237.77244161248990.1450.1450.222RANDOM19.6
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]
RMS Deviations
KeyRefinement Restraint Deviation
c_dihedral_angle_d18.3
c_scangle_it3.08
c_scbond_it2.35
c_mcangle_it1.93
c_angle_deg1.8
c_mcbond_it1.43
c_improper_angle_d1.16
c_bond_d0.023
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2181
Nucleic Acid Atoms
Solvent Atoms319
Heterogen Atoms

Software

Software
Software NamePurpose
CNSrefinement
PDB_EXTRACTdata extraction
CNSphasing