1LM1

Structural studies on the synchronization of catalytic centers in glutamate synthase: native enzyme


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1EA0 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8277PEG4000, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
4.5773.07

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 166.083α = 90
b = 166.083β = 90
c = 219.584γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 42001-11-03MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-30.9ESRFID14-3

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym 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
12.86299.40.120.123.85.77699576995
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.82.9496.60.5120.5121.74.610697

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 (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1EA02.8129.17389973899186999.660.23760.237640.236380.28677RANDOM35.074
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]
4.24.2-8.39
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg26.265
r_dihedral_angle_1_deg9.278
r_scangle_it3.61
r_scbond_it2.296
r_angle_refined_deg2.228
r_mcangle_it1.341
r_mcbond_it0.745
r_symmetry_vdw_refined0.351
r_nbd_refined0.328
r_xyhbond_nbd_refined0.227
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg26.265
r_dihedral_angle_1_deg9.278
r_scangle_it3.61
r_scbond_it2.296
r_angle_refined_deg2.228
r_mcangle_it1.341
r_mcbond_it0.745
r_symmetry_vdw_refined0.351
r_nbd_refined0.328
r_xyhbond_nbd_refined0.227
r_chiral_restr0.165
r_symmetry_hbond_refined0.143
r_bond_refined_d0.021
r_gen_planes_refined0.007
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms11311
Nucleic Acid Atoms
Solvent Atoms38
Heterogen Atoms46

Software

Software
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
AMoREphasing
REFMACrefinement
CCP4data scaling