1NQG

OUTER MEMBRANE COBALAMIN TRANSPORTER (BTUB) FROM E. COLI, WITH BOUND CALCIUM


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1NQFPDB ENTRY 1NQF

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.6293PEG 3350, MAGNESIUM ACETATE, BIS-TRIS, N-OCTYL TETRAOXYETHYLENE, pH 6.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
3.2762.37

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 81.632α = 90
b = 81.632β = 90
c = 225.685γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2002-08-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 17-ID1.255APS17-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
13.33595.60.07930.49.71374513146-3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
13.33.3395.80.228.69.4316

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 1NQF3.3120129611232764295.110.2360.2360.2340.259RANDOM31.768
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]
-0.55-0.27-0.550.82
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg21.592
r_scangle_it14.94
r_scbond_it10.808
r_mcangle_it7.536
r_dihedral_angle_1_deg7.094
r_mcbond_it4.91
r_angle_refined_deg2.619
r_angle_other_deg1.053
r_nbd_refined0.372
r_nbd_other0.354
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg21.592
r_scangle_it14.94
r_scbond_it10.808
r_mcangle_it7.536
r_dihedral_angle_1_deg7.094
r_mcbond_it4.91
r_angle_refined_deg2.619
r_angle_other_deg1.053
r_nbd_refined0.372
r_nbd_other0.354
r_symmetry_vdw_other0.325
r_xyhbond_nbd_other0.32
r_symmetry_vdw_refined0.262
r_symmetry_hbond_refined0.228
r_xyhbond_nbd_refined0.226
r_chiral_restr0.135
r_nbtor_other0.058
r_bond_refined_d0.028
r_gen_planes_refined0.012
r_gen_planes_other0.008
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4555
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms130

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing
REFMACrefinement