2FGS

Crystal structure of Campylobacter jejuni YCEI protein, structural genomics


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1Y0GPDB ENTRY 1Y0G

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.52903.2M AMMONIUM SULFATE, 0.1M BIS-TRIS, pH 6.50, VAPOR DIFFUSION, SITTING DROP, temperature 290K
Crystal Properties
Matthews coefficientSolvent content
6.178.25

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 179.535α = 90
b = 179.535β = 90
c = 50.577γ = 120
Symmetry
Space GroupP 6 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS IVMIRRORS2005-12-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU2001.5418

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
12.95099.80.1240.0886.214.11112911129
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.931000.3980.462.213.81092

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (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 REPLACEMENTTHROUGHOUTPDB ENTRY 1Y0G2.920105241052453199.710.2620.244920.243140.27986RANDOM69.73
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]
3.651.823.65-5.47
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg42.183
r_dihedral_angle_4_deg36.512
r_dihedral_angle_3_deg19.925
r_scangle_it7.164
r_dihedral_angle_1_deg6.373
r_scbond_it4.537
r_mcangle_it2.977
r_mcbond_it1.575
r_angle_refined_deg1.25
r_nbtor_refined0.306
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg42.183
r_dihedral_angle_4_deg36.512
r_dihedral_angle_3_deg19.925
r_scangle_it7.164
r_dihedral_angle_1_deg6.373
r_scbond_it4.537
r_mcangle_it2.977
r_mcbond_it1.575
r_angle_refined_deg1.25
r_nbtor_refined0.306
r_nbd_refined0.19
r_xyhbond_nbd_refined0.156
r_symmetry_vdw_refined0.144
r_symmetry_hbond_refined0.11
r_chiral_restr0.087
r_bond_refined_d0.008
r_gen_planes_refined0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1328
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms5

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing
REFMACrefinement