2QC8

Crystal structure of human glutamine synthetase in complex with ADP and methionine sulfoximine phosphate


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2OJWPDB ENTRY 2OJW

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
172981.1M Sodium malonate, 0.5% Jeffamine ED-2001, 0.1M HEPES, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K, pH 7.00
Crystal Properties
Matthews coefficientSolvent content
2.4850.31

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 181.21α = 90
b = 126.08β = 92.14
c = 188.17γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152007-02-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID29ESRFID29

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
12.64099.80.120.09215.67.5129787
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)
12.62.71000.5260.3244.17.2

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 2OJW2.639.9412343364971000.1680.1660.217RANDOM37.49
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
r_dihedral_angle_2_deg37.616
r_dihedral_angle_4_deg16.467
r_dihedral_angle_3_deg14.998
r_dihedral_angle_1_deg11.089
r_scangle_it2.178
r_angle_refined_deg1.592
r_scbond_it1.491
r_angle_other_deg0.943
r_mcangle_it0.893
r_mcbond_it0.72
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.616
r_dihedral_angle_4_deg16.467
r_dihedral_angle_3_deg14.998
r_dihedral_angle_1_deg11.089
r_scangle_it2.178
r_angle_refined_deg1.592
r_scbond_it1.491
r_angle_other_deg0.943
r_mcangle_it0.893
r_mcbond_it0.72
r_symmetry_vdw_refined0.438
r_symmetry_vdw_other0.293
r_nbd_refined0.213
r_nbd_other0.202
r_nbtor_refined0.186
r_xyhbond_nbd_refined0.141
r_mcbond_other0.133
r_chiral_restr0.1
r_symmetry_hbond_refined0.087
r_nbtor_other0.086
r_bond_refined_d0.015
r_gen_planes_refined0.007
r_bond_other_d0.002
r_gen_planes_other0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms28146
Nucleic Acid Atoms
Solvent Atoms231
Heterogen Atoms460

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
MOLREPphasing