1UQU

Trehalose-6-phosphate from E. coli bound with UDP-glucose.


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1GZ5PDB ENTRY 1GZ5

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1830% PEG 4000, 200MM AMMONIUM ACETATE, 100MM TRISHCL PH 8
Crystal Properties
Matthews coefficientSolvent content
2.449.3

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 88.905α = 90
b = 102.31β = 90
c = 118.924γ = 90
Symmetry
Space GroupP 21 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100 MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-20.933ESRFID14-2

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
1220940.08412.43.169411
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)
122.07680.4491.792.2

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 DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1GZ5219.9665900350794.20.2340.2320.269RANDOM21.76
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]
-0.31-0.120.43
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.179
r_scangle_it2.787
r_scbond_it1.841
r_angle_refined_deg1.49
r_mcangle_it1.046
r_mcbond_it0.576
r_nbd_refined0.225
r_symmetry_hbond_refined0.22
r_symmetry_vdw_refined0.19
r_xyhbond_nbd_refined0.146
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.179
r_scangle_it2.787
r_scbond_it1.841
r_angle_refined_deg1.49
r_mcangle_it1.046
r_mcbond_it0.576
r_nbd_refined0.225
r_symmetry_hbond_refined0.22
r_symmetry_vdw_refined0.19
r_xyhbond_nbd_refined0.146
r_chiral_restr0.12
r_bond_refined_d0.014
r_gen_planes_refined0.005
r_bond_other_d
r_angle_other_deg
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
r_gen_planes_other
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
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_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7229
Nucleic Acid Atoms
Solvent Atoms95
Heterogen Atoms36

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALEPACKdata scaling
AMoREphasing