2FVG

Crystal structure of Endoglucanase (tm1049) from THERMOTOGA MARITIMA at 2.01 A resolution


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION,SITTING DROP,NANODROP10.52770.2M NaCl, 20.0% PEG-8000, 0.1M CAPS pH 10.5 , VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
2.2645.46

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 63.15α = 90
b = 67.54β = 90
c = 82.78γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCDAdjustable focusing mirrors in K-B geometry2005-10-31MSINGLE WAVELENGTH
21x-ray100CCDADSC QUANTUM 2102005-09-29MMAD
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 23-ID-D0.979815APS23-ID-D
2SYNCHROTRONALS BEAMLINE 8.2.10.9797, 1.0000ALS8.2.1

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
1,22.0129.585.90.08511.063.4922815
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)
1,22.012.0846.80.3981.97

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)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 DIFFRACTIONMADTHROUGHOUT2.0129.521615117793.810.2050.204780.202770.24423RANDOM35.477
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]
4.360.44-4.8
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.192
r_dihedral_angle_4_deg13.835
r_dihedral_angle_3_deg10.251
r_scangle_it7.038
r_scbond_it5.021
r_dihedral_angle_1_deg3.08
r_mcangle_it2.978
r_mcbond_it1.941
r_angle_refined_deg1.539
r_nbtor_refined0.312
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.192
r_dihedral_angle_4_deg13.835
r_dihedral_angle_3_deg10.251
r_scangle_it7.038
r_scbond_it5.021
r_dihedral_angle_1_deg3.08
r_mcangle_it2.978
r_mcbond_it1.941
r_angle_refined_deg1.539
r_nbtor_refined0.312
r_nbd_refined0.205
r_symmetry_vdw_refined0.185
r_xyhbond_nbd_refined0.131
r_symmetry_hbond_refined0.122
r_chiral_restr0.102
r_bond_refined_d0.012
r_gen_planes_refined0.005
r_metal_ion_refined
r_metal_ion_other
r_sphericity_bonded
r_symmetry_vdw_other
r_nbd_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_angle_other_deg
r_mcbond_other
r_nbtor_other
r_gen_planes_other
r_bond_other_d
r_rigid_bond_restr
r_sphericity_free
r_xyhbond_nbd_other
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2351
Nucleic Acid Atoms
Solvent Atoms113
Heterogen Atoms12

Software

Software
Software NamePurpose
REFMACrefinement
XSCALEdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction
SOLVEphasing