1E4W

crossreactive binding of a circularized peptide to an anti-TGFalpha antibody Fab-fragment


X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
18.5PROTEIN IN TRIS-HCL, 8.5 11-14 MG/ML PRECIPITANT: 12% PEG MME 2000, 5 MM NICL2, 0.1 M TRIS-HCL, PH 8.5
Crystal Properties
Matthews coefficientSolvent content
351.1

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 49.22α = 90
b = 94.35β = 90
c = 121.79γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDXRAY RESEARCH1999-06-17MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONMPG/DESY, HAMBURG BEAMLINE BW6MPG/DESY, HAMBURGBW6

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
11.9574.594.60.08119.59.93996830
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)
11.951.9854.20.2885.76.3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1FBI1.952041695209994.60.2040.269RANDOM35.9
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
p_transverse_tor21.6
p_staggered_tor18.4
p_planar_tor8.2
p_scangle_it4.378
p_mcangle_it3.317
p_scbond_it3.148
p_mcbond_it2.508
p_chiral_restr0.288
p_multtor_nbd0.259
p_singtor_nbd0.188
RMS Deviations
KeyRefinement Restraint Deviation
p_transverse_tor21.6
p_staggered_tor18.4
p_planar_tor8.2
p_scangle_it4.378
p_mcangle_it3.317
p_scbond_it3.148
p_mcbond_it2.508
p_chiral_restr0.288
p_multtor_nbd0.259
p_singtor_nbd0.188
p_planar_d0.066
p_angle_d0.045
p_plane_restr0.0284
p_bond_d0.024
p_angle_deg
p_hb_or_metal_coord
p_xhyhbond_nbd
p_xyhbond_nbd
p_orthonormal_tor
p_special_tor
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3331
Nucleic Acid Atoms
Solvent Atoms409
Heterogen Atoms2

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing