4EDX

Nerve Growth Factor in Complex with Fab from mouse mAb 911


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.3300PEG 3350, zinc acetate, pH 6.3, VAPOR DIFFUSION, HANGING DROP, temperature 300K
Crystal Properties
Matthews coefficientSolvent content
2.4850.38

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 57.748α = 104.34
b = 69.931β = 94.13
c = 83.736γ = 110.42
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110CCDADSC QUANTUM 3152006-07-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL11-11.0SSRLBL11-1

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
12.550960.067132.53809838098-257

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 REPLACEMENTTHROUGHOUT2.530.49378663786610151000.209320.209320.208040.2579RANDOM52.337
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]
2.140.451.74-0.19-0.07-1.42
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.165
r_mcangle_it3.669
r_scangle_it3.547
r_scbond_it2.323
r_mcbond_it2.196
r_angle_refined_deg1.116
r_angle_other_deg0.768
r_symmetry_vdw_other0.22
r_nbd_other0.217
r_symmetry_hbond_refined0.214
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.165
r_mcangle_it3.669
r_scangle_it3.547
r_scbond_it2.323
r_mcbond_it2.196
r_angle_refined_deg1.116
r_angle_other_deg0.768
r_symmetry_vdw_other0.22
r_nbd_other0.217
r_symmetry_hbond_refined0.214
r_nbd_refined0.169
r_xyhbond_nbd_refined0.155
r_symmetry_vdw_refined0.104
r_nbtor_other0.082
r_chiral_restr0.07
r_bond_refined_d0.008
r_gen_planes_refined0.003
r_bond_other_d0.002
r_gen_planes_other0.002
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
r_nbtor_refined
r_xyhbond_nbd_other
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 Atoms8200
Nucleic Acid Atoms
Solvent Atoms98
Heterogen Atoms

Software

Software
Software NamePurpose
Blu-Icedata collection
PHASERphasing
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling