2FNC

Thermotoga maritima maltotriose binding protein bound with maltotriose.


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3MBP 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.52900.2M Na Acetate, 0.1M Na Cacodylate pH 6.5, 30% w/v PEG8000, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Crystal Properties
Matthews coefficientSolvent content
2.1342.21

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 35.836α = 90
b = 56.183β = 94.67
c = 88.794γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCD2004-03-14MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-ID1.0APS22-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
11.635098.70.0732.54357643576
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)
11.631.6999.80.531.82.44382

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 REPLACEMENTTHROUGHOUT3MBP1.7503826838268191398.550.1950.1950.1940.23RANDOM23.972
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]
-0.360.58-0.761.22
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.876
r_dihedral_angle_4_deg21.839
r_dihedral_angle_3_deg14.055
r_dihedral_angle_1_deg5.515
r_scangle_it2.921
r_scbond_it2.122
r_angle_refined_deg1.321
r_mcangle_it1.211
r_mcbond_it1.078
r_angle_other_deg0.816
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.876
r_dihedral_angle_4_deg21.839
r_dihedral_angle_3_deg14.055
r_dihedral_angle_1_deg5.515
r_scangle_it2.921
r_scbond_it2.122
r_angle_refined_deg1.321
r_mcangle_it1.211
r_mcbond_it1.078
r_angle_other_deg0.816
r_symmetry_hbond_refined0.222
r_nbd_refined0.21
r_symmetry_vdw_other0.203
r_mcbond_other0.197
r_nbtor_refined0.182
r_symmetry_vdw_refined0.17
r_nbd_other0.168
r_xyhbond_nbd_refined0.143
r_nbtor_other0.084
r_chiral_restr0.077
r_bond_refined_d0.013
r_gen_planes_refined0.005
r_bond_other_d0.002
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2926
Nucleic Acid Atoms
Solvent Atoms330
Heterogen Atoms34

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
AMoREphasing