3GUH

Crystal Structure of Wild-type E.coli GS in complex with ADP and DGM


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1RZUPDB ENTRY 1RZU

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.127740% (w/v) PEG 4000, 0.2 M NaAc, 0.1 M HEPPSO, pH 8.1, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
5.6278.13

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 125.841α = 90
b = 125.841β = 90
c = 153.263γ = 90
Symmetry
Space GroupI 41

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray98CCDMAR CCD 165 mm2005-05-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 14-ID-B1.0APS14-ID-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
12.7997.1399.20.14623.9968.1295892954321.9162.3
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)
2.792.992.90.5166.12740

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (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 DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1RZU2.79502958929120147898.420.170.1690.2RANDOM40.525
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]
1.331.33-2.67
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.346
r_dihedral_angle_4_deg24.552
r_dihedral_angle_3_deg21.504
r_dihedral_angle_1_deg7.029
r_scangle_it4.311
r_scbond_it2.743
r_angle_refined_deg2.276
r_mcangle_it1.803
r_mcbond_it0.945
r_chiral_restr0.154
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.346
r_dihedral_angle_4_deg24.552
r_dihedral_angle_3_deg21.504
r_dihedral_angle_1_deg7.029
r_scangle_it4.311
r_scbond_it2.743
r_angle_refined_deg2.276
r_mcangle_it1.803
r_mcbond_it0.945
r_chiral_restr0.154
r_bond_refined_d0.023
r_gen_planes_refined0.009
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3735
Nucleic Acid Atoms
Solvent Atoms209
Heterogen Atoms111

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection