5XZU | pdb_00005xzu

Crystal structure of GH10 xylanase from Bispora. sp MEY-1 with xylobiose

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.5	298.15	19% PEG 3350, 0.4 M magnesium chloride, 0.1 M BIS-TRIS HYDROCHLORIDE pH 6.5

Crystal Properties
Matthews coefficient	Solvent content
2.45	49.7

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 135.274	α = 90
b = 83.136	β = 94.25
c = 65.387	γ = 90

Symmetry
Space Group	C 1 2 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	PIXEL	DECTRIS PILATUS 6M		2013-10-17	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSRRC BEAMLINE BL15A1	1.00919	NSRRC	BL15A1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	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	1.7	25	99.9	5.96	4.2		79182

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION		THROUGHOUT	1.7	25	75179	4011	99.71	0.12691	0.12376	0.1277	0.18323	0.1884	RANDOM	33.035

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]
-1.53		2.2	-0.72		1.89

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.681
r_sphericity_free	23.55
r_dihedral_angle_3_deg	14.827
r_sphericity_bonded	14.046
r_dihedral_angle_4_deg	12.297
r_dihedral_angle_1_deg	7.787
r_scangle_other	6.773
r_rigid_bond_restr	6.349
r_scbond_it	6.33
r_scbond_other	6.33
r_long_range_B_refined	5.715
r_long_range_B_other	5.653
r_mcangle_it	4.488
r_mcangle_other	4.488
r_mcbond_it	4.126
r_mcbond_other	4.123
r_angle_refined_deg	1.489
r_angle_other_deg	0.811
r_chiral_restr	0.113
r_gen_planes_refined	0.015
r_bond_refined_d	0.011
r_gen_planes_other	0.002
r_bond_other_d	0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5286
Nucleic Acid Atoms
Solvent Atoms	608
Heterogen Atoms	93

Software

Software
Software Name	Purpose
REFMAC	refinement
xia2	data reduction
xia2	data scaling
PHASER	phasing