3CX4

Crystal Structure of E.coli GS mutant E377A in complex with ADP and oligosaccharides


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2QZSPDB ENTRY 2QZS

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.527740 % (w/v) PEG 4000, 0.1 M HEPPSO, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 126.324α = 90
b = 126.324β = 90
c = 152.334γ = 90
Symmetry
Space GroupI 41

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMAR CCD 165 mm2006-07-23MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 5ID-B1.0APS5ID-B

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
12.2997.1398.10.08514.53.21537001.0661.7
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)
2.292.33990.531.062.4725704

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 2QZS2.299.3153700272899.840.1870.1860.221RANDOM48.419
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]
1.241.24-2.48
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.676
r_dihedral_angle_4_deg22.17
r_dihedral_angle_3_deg16.964
r_dihedral_angle_1_deg6.058
r_mcangle_it1.618
r_angle_refined_deg1.433
r_scangle_it1.392
r_mcbond_it0.944
r_scbond_it0.944
r_nbtor_refined0.328
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.676
r_dihedral_angle_4_deg22.17
r_dihedral_angle_3_deg16.964
r_dihedral_angle_1_deg6.058
r_mcangle_it1.618
r_angle_refined_deg1.433
r_scangle_it1.392
r_mcbond_it0.944
r_scbond_it0.944
r_nbtor_refined0.328
r_nbd_refined0.243
r_symmetry_vdw_refined0.208
r_symmetry_hbond_refined0.204
r_xyhbond_nbd_refined0.17
r_chiral_restr0.105
r_bond_refined_d0.011
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3751
Nucleic Acid Atoms
Solvent Atoms201
Heterogen Atoms333

Software

Software
Software NamePurpose
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection
X-GENdata reduction