5APY

Sequence MATKDDIAN inserted between GCN4 adaptors - Structure T9(9)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2WPQPDB ENTRY 2WPQ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
10.1 M CITRIC ACID PH 5.0, 20 %(V/V) ISOPROPANOL
Crystal Properties
Matthews coefficientSolvent content
2.550

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 60.77α = 90
b = 35.09β = 100.39
c = 112.19γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2009-09-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06DASLSX06DA

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
1219.598.70.0419.53.7315902-3
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)
122.1297.50.632.253.73

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 2WPQ219.521510679398.810.213470.21130.25467RANDOM42.616
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]
5.620.6613.14-18.76
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.895
r_dihedral_angle_3_deg14.934
r_dihedral_angle_4_deg9.769
r_dihedral_angle_1_deg3.922
r_mcangle_it2.589
r_scbond_it2.163
r_mcbond_it1.804
r_mcbond_other1.779
r_angle_refined_deg0.789
r_angle_other_deg0.666
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.895
r_dihedral_angle_3_deg14.934
r_dihedral_angle_4_deg9.769
r_dihedral_angle_1_deg3.922
r_mcangle_it2.589
r_scbond_it2.163
r_mcbond_it1.804
r_mcbond_other1.779
r_angle_refined_deg0.789
r_angle_other_deg0.666
r_chiral_restr0.037
r_bond_refined_d0.005
r_gen_planes_refined0.002
r_bond_other_d0.001
r_gen_planes_other0.001
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_mcangle_other
r_scbond_other
r_scangle_it
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1460
Nucleic Acid Atoms
Solvent Atoms113
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
MOLREPphasing