4OWG

Crystal structure of rabbit muscle triosephosphate isomerase-PEP complex


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1R2R 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.52930.1 M MES pH: 6.5, 25% PEG 8000
Crystal Properties
Matthews coefficientSolvent content
2.0138.95

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 36.848α = 90
b = 72.071β = 90
c = 161.204γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2011-07-14SINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I240.9795DiamondI24

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
11.5543.0893.482.759113

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 REPLACEMENTFREE R-VALUE1R2R1.5543.0855957298792.90.1690.1670.203RANDOM16.82
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]
-0.010.06-0.05
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.959
r_dihedral_angle_4_deg12.247
r_dihedral_angle_3_deg12.148
r_dihedral_angle_1_deg5.945
r_long_range_B_refined4.82
r_long_range_B_other4.722
r_scangle_other3.965
r_scbond_it2.595
r_scbond_other2.595
r_angle_other_deg2.405
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.959
r_dihedral_angle_4_deg12.247
r_dihedral_angle_3_deg12.148
r_dihedral_angle_1_deg5.945
r_long_range_B_refined4.82
r_long_range_B_other4.722
r_scangle_other3.965
r_scbond_it2.595
r_scbond_other2.595
r_angle_other_deg2.405
r_mcangle_it2.335
r_mcangle_other2.335
r_angle_refined_deg1.905
r_mcbond_it1.676
r_mcbond_other1.676
r_chiral_restr0.117
r_bond_refined_d0.02
r_gen_planes_other0.015
r_gen_planes_refined0.01
r_bond_other_d0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3713
Nucleic Acid Atoms
Solvent Atoms425
Heterogen Atoms20

Software

Software
Software NamePurpose
MOSFLMdata reduction
PHASERphasing
REFMACrefinement