2Q4R

Ensemble refinement of the protein crystal structure of human phosphomannomutase 2 (PMM2)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2AMYPDB entry 2AMY

Crystallization

Crystal Properties
Matthews coefficientSolvent content
2.651.9

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 70.622α = 90
b = 70.622β = 90
c = 100.15γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray MSINGLE 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 2AMY2.0930.581751392499.40.2070.2070.298RANDOM41.9
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_d22
c_scangle_it2.65
c_mcangle_it2.22
c_scbond_it2.04
c_mcbond_it1.51
c_angle_deg1.3
c_improper_angle_d0.81
c_bond_d0.007
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1943
Nucleic Acid Atoms
Solvent Atoms142
Heterogen Atoms16

Software

Software
Software NamePurpose
CNSrefinement
PDB_EXTRACTdata extraction
CNSphasing