4W8B

Crystal structure of XEG5B, a GH5 xyloglucan-specific beta-1,4-glucanase from ruminal metagenomic library, in complex with XXLG

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5.5	291	ammonium sulfate, sodium citrate, glycerol

Crystal Properties
Matthews coefficient	Solvent content
2.9	57.64

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 120.632	α = 90
b = 120.632	β = 90
c = 59.004	γ = 120

Symmetry
Space Group	P 61

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	MARMOSAIC 225 mm CCD		2014-01-01	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	LNLS BEAMLINE W01B-MX2	0.954	LNLS	W01B-MX2

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Net I Over Average Sigma (I)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	1.15	50	95.7	0.053	0.056	26.38	8.3		165780		-3	11.637

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Rrim I (All)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.15	1.22	85.9		0.294

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION		THROUGHOUT	1.15	39.49	157480	8301	95.71	0.1041	0.1031	0.1224	RANDOM	9.959

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]
-1.28			-1.28		2.56

RMS Deviations
Key	Refinement Restraint Deviation
r_sphericity_free	45.427
r_dihedral_angle_2_deg	37.677
r_dihedral_angle_4_deg	18.619
r_sphericity_bonded	13.746
r_dihedral_angle_3_deg	11.349
r_rigid_bond_restr	7.752
r_dihedral_angle_1_deg	6.535
r_angle_refined_deg	2.192
r_mcangle_it	1.6
r_angle_other_deg	1.541

RMS Deviations
Key	Refinement Restraint Deviation
r_sphericity_free	45.427
r_dihedral_angle_2_deg	37.677
r_dihedral_angle_4_deg	18.619
r_sphericity_bonded	13.746
r_dihedral_angle_3_deg	11.349
r_rigid_bond_restr	7.752
r_dihedral_angle_1_deg	6.535
r_angle_refined_deg	2.192
r_mcangle_it	1.6
r_angle_other_deg	1.541
r_mcbond_it	1.277
r_mcbond_other	1.274
r_chiral_restr	0.166
r_bond_refined_d	0.025
r_gen_planes_refined	0.012
r_gen_planes_other	0.004
r_bond_other_d	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3012
Nucleic Acid Atoms
Solvent Atoms	678
Heterogen Atoms	164

Software

Software
Software Name	Purpose
XDS	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
XSCALE	data scaling

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.