2IJL

The structure of a putative ModE from Agrobacterium tumefaciens.


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.52930.2M LiSO4, 0.1M Bis-Tris ph 5.5, 25% PEG3350 , VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.244.13

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 40.719α = 90
b = 79.536β = 106.7
c = 43.994γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152005-11-02MMAD
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 19-ID0.97945, 0.97929APS19-ID

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
12.339.7793.960.09312.33.11071910719-3

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 (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMADTHROUGHOUT2.339.77107191071953493.960.176650.173740.23623RANDOM43.975
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]
2.231.9-2.110.97
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.397
r_dihedral_angle_4_deg18.392
r_dihedral_angle_3_deg17.872
r_dihedral_angle_1_deg6.031
r_scangle_it4.469
r_scbond_it3.118
r_mcbond_it1.73
r_mcangle_it1.677
r_angle_refined_deg1.48
r_symmetry_hbond_refined0.365
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.397
r_dihedral_angle_4_deg18.392
r_dihedral_angle_3_deg17.872
r_dihedral_angle_1_deg6.031
r_scangle_it4.469
r_scbond_it3.118
r_mcbond_it1.73
r_mcangle_it1.677
r_angle_refined_deg1.48
r_symmetry_hbond_refined0.365
r_nbtor_refined0.305
r_nbd_refined0.21
r_symmetry_vdw_refined0.179
r_xyhbond_nbd_refined0.175
r_chiral_restr0.107
r_bond_refined_d0.016
r_gen_planes_refined0.006
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_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 Atoms1746
Nucleic Acid Atoms
Solvent Atoms106
Heterogen Atoms64

Software

Software
Software NamePurpose
REFMACrefinement
SBC-Collectdata collection
HKL-2000data reduction
HKL-2000data scaling
HKL-3000phasing
SHELXphasing
MLPHAREphasing
DMphasing
RESOLVEphasing
ARP/wARPmodel building
Omodel building
Cootmodel building