3LMJ

Structure of human anti HIV 21c Fab


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7.528970% 2-methyl-2,4-pentanediol, 0.1 M Hepes pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties
Matthews coefficientSolvent content
3.2361.87

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 98.103α = 90
b = 98.103β = 90
c = 220.324γ = 120
Symmetry
Space GroupP 65 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 325 mm CCD2008-06-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL12-20.9762SSRLBL12-2

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
12.240.899.7325643246722

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 REPLACEMENTTHROUGHOUT2.240.830814164899.570.193970.192620.21858RANDOM16.919
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]
-0.87-0.43-0.871.3
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.074
r_dihedral_angle_4_deg17.064
r_dihedral_angle_3_deg15.7
r_dihedral_angle_1_deg8.936
r_scangle_it5.112
r_scbond_it3.412
r_mcangle_it2.207
r_angle_refined_deg1.557
r_mcbond_it1.226
r_angle_other_deg0.916
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.074
r_dihedral_angle_4_deg17.064
r_dihedral_angle_3_deg15.7
r_dihedral_angle_1_deg8.936
r_scangle_it5.112
r_scbond_it3.412
r_mcangle_it2.207
r_angle_refined_deg1.557
r_mcbond_it1.226
r_angle_other_deg0.916
r_mcbond_other0.345
r_chiral_restr0.122
r_bond_refined_d0.017
r_gen_planes_refined0.011
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_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3262
Nucleic Acid Atoms
Solvent Atoms181
Heterogen Atoms16

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing