4BE3

crystal structure of the exolytic PL7 alginate lyase AlyA5 from Zobellia galactanivorans


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2Z42PDB ENTRY 2Z42

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1722% PEG 3350 AND 0.2 M SODIUM/POTASSIUM TARTRATE, pH 7
Crystal Properties
Matthews coefficientSolvent content
3.6366

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 93.42α = 90
b = 93.91β = 90
c = 130.15γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315rMIRRORS2011-04-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSOLEIL BEAMLINE PROXIMA 1SOLEILPROXIMA 1

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
11.7541.9599.40.116.538.471141680.1
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)
11.751.893.30.842.38.4

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 REPLACEMENTTHROUGHOUTPDB ENTRY 2Z421.7541.95108458570999.440.157440.156340.160.178020.18RANDOM28.959
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]
0.320.98-1.3
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.779
r_dihedral_angle_4_deg24.16
r_dihedral_angle_3_deg14.946
r_dihedral_angle_1_deg7.109
r_angle_refined_deg2.896
r_chiral_restr0.382
r_bond_refined_d0.033
r_gen_planes_refined0.017
r_bond_other_d
r_angle_other_deg
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4960
Nucleic Acid Atoms
Solvent Atoms579
Heterogen Atoms31

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
MOLREPphasing