8J5M

Structure of GH1 Br2 beta-glucosidase E350G mutant from bovine rumen metagenome

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
other	PDB	1W3J

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.4	277	0.1M sodium acetate trihydrate pH 7.4, 1.6M ammonium sulfate

Crystal Properties
Matthews coefficient	Solvent content
2.58	51.77

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 105.297	α = 90
b = 113.605	β = 90
c = 180.86	γ = 90

Symmetry
Space Group	P 21 21 21

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	ADSC QUANTUM 315r		2018-06-06	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSRRC BEAMLINE BL13C1	0.975	NSRRC	BL13C1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym I (Observed)	Rrim I (All)	CC (Half)	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	1.62	50	99.2	0.066	0.074	0.999	13.18	4.9		271392			29.082

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Rrim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.62	1.72	97.1		0.727	0.816	0.745	1.96	4.8

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 (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1.621	42.237	269390	2001	99.17	0.161	0.1609	0.1877	23.012

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]
-0.56			0.802		-0.242

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.514
r_dihedral_angle_4_deg	17.441
r_dihedral_angle_3_deg	11.59
r_dihedral_angle_1_deg	6.656
r_lrange_it	5.382
r_lrange_other	5.381
r_scangle_it	3.607
r_scangle_other	3.607
r_scbond_it	2.426
r_scbond_other	2.426
r_mcangle_it	2.049
r_mcangle_other	2.049
r_mcbond_it	1.46
r_mcbond_other	1.458
r_angle_other_deg	1.435
r_angle_refined_deg	1.381
r_nbd_refined	0.213
r_symmetry_nbd_refined	0.206
r_nbd_other	0.204
r_nbtor_refined	0.177
r_symmetry_nbd_other	0.173
r_symmetry_xyhbond_nbd_refined	0.153
r_xyhbond_nbd_refined	0.139
r_symmetry_xyhbond_nbd_other	0.105
r_chiral_restr	0.076
r_symmetry_nbtor_other	0.075
r_ncsr_local_group_4	0.074
r_ncsr_local_group_6	0.072
r_ncsr_local_group_2	0.07
r_ncsr_local_group_5	0.069
r_ncsr_local_group_3	0.065
r_ncsr_local_group_1	0.053
r_bond_refined_d	0.008
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	14459
Nucleic Acid Atoms
Solvent Atoms	2107
Heterogen Atoms	201

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
PHENIX	phasing