3BJQ

CRYSTAL STRUCTURE OF A PHAGE-RELATED PROTEIN (BB3626) FROM BORDETELLA BRONCHISEPTICA RB50 AT 2.05 A RESOLUTION


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP5.79277NANODROP, 25.1% PEG 200, 5.0% PEG 3000, 0.1M MES pH 5.79, VAPOR DIFFUSION, SITTING DROP, temperature 277K
2VAPOR DIFFUSION, SITTING DROP6277NANODROP, 30.0% PEG 200, 5.0% PEG 3000, 0.1M MES pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 93.39α = 90
b = 188.32β = 106.6
c = 105.15γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCDAdjustable focusing mirrors in K-B geometry2007-10-25MSINGLE WAVELENGTH
22x-ray100CCDMARMOSAIC 325 mm CCDFlat mirror (vertical focusing)2007-04-09MMAD
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 23-ID-D0.91840APS23-ID-D
2SYNCHROTRONSSRL BEAMLINE BL11-10.97916, 0.91162SSRLBL11-1

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
1,22.0549.14799.70.09111.245.49216795-333.52
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)
1,22.052.0899.30.8471.73.78

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 DIFFRACTIONMADTHROUGHOUT2.0549.14721678935321000.1860.1860.227THIN SHELLS43.017
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]
1.640.1-1.2-0.39
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.124
r_dihedral_angle_3_deg12.783
r_dihedral_angle_4_deg11.565
r_scangle_it5.874
r_dihedral_angle_1_deg4.751
r_scbond_it4.244
r_mcangle_it2.337
r_mcbond_it1.491
r_angle_refined_deg1.399
r_angle_other_deg0.892
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.124
r_dihedral_angle_3_deg12.783
r_dihedral_angle_4_deg11.565
r_scangle_it5.874
r_dihedral_angle_1_deg4.751
r_scbond_it4.244
r_mcangle_it2.337
r_mcbond_it1.491
r_angle_refined_deg1.399
r_angle_other_deg0.892
r_mcbond_other0.417
r_symmetry_vdw_other0.216
r_symmetry_hbond_refined0.213
r_nbd_refined0.204
r_nbd_other0.193
r_nbtor_refined0.178
r_symmetry_vdw_refined0.165
r_xyhbond_nbd_refined0.157
r_nbtor_other0.087
r_chiral_restr0.08
r_xyhbond_nbd_other0.073
r_bond_refined_d0.013
r_gen_planes_refined0.005
r_bond_other_d0.002
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms22752
Nucleic Acid Atoms
Solvent Atoms1336
Heterogen Atoms262

Software

Software
Software NamePurpose
REFMACrefinement
PHENIXrefinement
SHELXphasing
MolProbitymodel building
XSCALEdata scaling
PDB_EXTRACTdata extraction
MAR345data collection
XDSdata reduction
MOSFLMdata reduction
SCALAdata scaling
SHARPphasing
SHELXDphasing