Experiment: 5MT7

 5MT7

Structure of E.coli GlpG in complex with peptide derived inhibitor Ac-VRHA-cmk


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2XOV 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP72952M sodium chloride
Crystal Properties
Matthews coefficientSolvent content
3.563.47

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 110.944α = 90
b = 110.944β = 90
c = 126.343γ = 120
Symmetry
Space GroupH 3 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M-F2015-11-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I020.9794DiamondI02

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)CC (Half)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
12.0544.999.70.0360.999289.918936
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.052.1196.50.950.7952.49.4

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 REPLACEMENTTHROUGHOUT2XOV2.0544.91802290899.660.202830.201840.22479RANDOM59.712
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]
-1.72-0.86-1.725.58
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg28.967
r_dihedral_angle_3_deg12.572
r_dihedral_angle_4_deg11.422
r_long_range_B_refined5.849
r_long_range_B_other5.844
r_dihedral_angle_1_deg5.137
r_scangle_other4.107
r_mcangle_it2.713
r_mcangle_other2.713
r_scbond_it2.565
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1467
Nucleic Acid Atoms
Solvent Atoms18
Heterogen Atoms1

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
Aimlessdata scaling
PHASERphasing