9J4J

Crystal structure of GH9l Inulin fructotransferases(IFTase)incomplex with nystose(F3)

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	7VHT

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8.5	293	0.2 M lithium sulfate monohydrate 0.1 M Tris (pH 8.5) 25% (w/v) polyethylene glycol 3350

Crystal Properties
Matthews coefficient	Solvent content
2.67	53.91

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 167.642	α = 90
b = 167.642	β = 90
c = 85.297	γ = 120

Symmetry
Space Group	P 65

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	RIGAKU SATURN 944+		2014-12-31	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU FR-E SUPERBRIGHT	1.54178

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	2.8	50	100	0.155	11.22	5.4		33668

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.8	2.85			0.495

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	2.803	48.441	33625	1701	99.736	0.161	0.1582	0.2079	31.522

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]
0.011	0.005		0.011		-0.034

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	40.315
r_dihedral_angle_4_deg	20.335
r_dihedral_angle_3_deg	15.856
r_dihedral_angle_1_deg	8.325
r_lrange_it	5.091
r_lrange_other	5.091
r_scangle_it	3.588
r_scangle_other	3.588
r_mcangle_it	2.892
r_mcangle_other	2.892
r_scbond_it	2.428
r_scbond_other	2.428
r_mcbond_it	1.871
r_mcbond_other	1.871
r_angle_refined_deg	1.772
r_angle_other_deg	1.2
r_nbd_other	0.235
r_nbd_refined	0.194
r_symmetry_nbd_other	0.191
r_symmetry_xyhbond_nbd_refined	0.17
r_nbtor_refined	0.154
r_symmetry_nbd_refined	0.147
r_xyhbond_nbd_refined	0.142
r_symmetry_nbtor_other	0.078
r_chiral_restr	0.061
r_bond_refined_d	0.009
r_gen_planes_refined	0.006
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	9081
Nucleic Acid Atoms
Solvent Atoms	14
Heterogen Atoms	293

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling
RESOLVE	phasing