1NQE

OUTER MEMBRANE COBALAMIN TRANSPORTER (BTUB) FROM E. COLI


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
3.0459.54

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 81.59α = 90
b = 81.59β = 90
c = 210.078γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 4Rh-coated Si mirror2000-08-26MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCHESS BEAMLINE F10.900CHESSF1

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
122599.30.06531.58.45608555698-3
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)
122.0797.80.4121.695.95362

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 1NQF224.925608552523279399.320.196180.196180.19430.23154RANDOM41.151
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]
1.510.761.51-2.27
RMS Deviations
KeyRefinement Restraint Deviation
r_scangle_it16.629
r_scbond_it14.006
r_mcangle_it8.675
r_mcbond_it6.434
r_dihedral_angle_1_deg6.206
r_angle_refined_deg1.626
r_angle_other_deg1.211
r_symmetry_vdw_refined0.506
r_symmetry_vdw_other0.398
r_nbd_other0.328
RMS Deviations
KeyRefinement Restraint Deviation
r_scangle_it16.629
r_scbond_it14.006
r_mcangle_it8.675
r_mcbond_it6.434
r_dihedral_angle_1_deg6.206
r_angle_refined_deg1.626
r_angle_other_deg1.211
r_symmetry_vdw_refined0.506
r_symmetry_vdw_other0.398
r_nbd_other0.328
r_nbd_refined0.246
r_xyhbond_nbd_refined0.166
r_symmetry_hbond_refined0.146
r_chiral_restr0.113
r_nbtor_other0.099
r_bond_other_d0.084
r_gen_planes_other0.031
r_bond_refined_d0.018
r_gen_planes_refined0.014
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4350
Nucleic Acid Atoms
Solvent Atoms235
Heterogen Atoms148

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing