1GQJ

Structure of Pseudomonas cellulosa alpha-D-glucuronidase complexed with xylobiose


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelOtherNATIVE ALPHA-D-GLUCURONIDASE

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP830MG/ML, 15% PEG3350, 250MM MGCL2, 5MM TRIS PH8.0, 20% ETHYLENE GLYCOL 100MM XYLOTRIOSE, pH 8.00
Crystal Properties
Matthews coefficientSolvent content
2.447.8

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 69.561α = 115.23
b = 74.609β = 93.15
c = 87.45γ = 109.17
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110IMAGE PLATEMARRESEARCHMSC/RIGAKU FOCUSSING MIRRORS2001-08-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU200

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
11.920950.0899.42.5109005
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)
11.91.9393.40.3972.12.3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-Work (Depositor)R-Work (DCC)R-Free (Depositor)R-Free (DCC)R-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTNATIVE ALPHA-D-GLUCURONIDASE1.92010815083094.70.1730.1720.180.2210.22RANDOM17.64
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]
1.770.29-0.25-0.61-1.02-1.86
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg16.234
r_dihedral_angle_1_deg4.528
r_scangle_it3.054
r_scbond_it2.016
r_angle_other_deg1.771
r_angle_refined_deg1.561
r_mcangle_it1.222
r_mcbond_it0.729
r_nbtor_other0.456
r_nbd_refined0.219
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms11376
Nucleic Acid Atoms
Solvent Atoms1383
Heterogen Atoms94

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling