1ZL1

Crystal structure of the complex of signalling protein from sheep (SPS-40) with a designed peptide Trp-His-Trp reveals significance of Asn79 and Trp191 in the complex formation


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1R2Vpdb entry 1r2v

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.829825mM tris HCl,50mM NaCl, 11% ethanol, pH 7.8, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties
Matthews coefficientSolvent content
2.856

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 62.79α = 90
b = 66.309β = 90
c = 107.382γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray298IMAGE PLATEMARRESEARCHMIRROR2004-11-04MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU3001.5418

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
13.55689.10.24.5510535
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
13.53.5685.10.592.1

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 REPLACEMENTTHROUGHOUTpdb entry 1r2v3.5565105486923684.80.180.177640.176010.21035RANDOM25.56
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]
-1.851.86
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg19.238
r_scangle_it4.662
r_scbond_it2.649
r_mcangle_it2.019
r_angle_refined_deg2.005
r_dihedral_angle_1_deg1.917
r_angle_other_deg1.374
r_mcbond_it1.049
r_nbtor_other0.54
r_symmetry_vdw_refined0.298
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg19.238
r_scangle_it4.662
r_scbond_it2.649
r_mcangle_it2.019
r_angle_refined_deg2.005
r_dihedral_angle_1_deg1.917
r_angle_other_deg1.374
r_mcbond_it1.049
r_nbtor_other0.54
r_symmetry_vdw_refined0.298
r_nbd_refined0.288
r_symmetry_vdw_other0.284
r_symmetry_hbond_refined0.256
r_nbd_other0.255
r_xyhbond_nbd_refined0.158
r_chiral_restr0.137
r_xyhbond_nbd_other0.12
r_bond_refined_d0.019
r_gen_planes_refined0.007
r_gen_planes_other0.005
r_bond_other_d0.004
r_dihedral_angle_2_deg
r_dihedral_angle_4_deg
r_nbtor_refined
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2907
Nucleic Acid Atoms
Solvent Atoms54
Heterogen Atoms39

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling
AMoREphasing