9J4L | pdb_00009j4l

Crystal structure of GH9l Inulin fructotransferases (IFTase)

X-RAY DIFFRACTION

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Crystallization

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

Crystal Properties
Matthews coefficient	Solvent content
2.42	49.23

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 167.68	α = 90
b = 167.68	β = 90
c = 85.66	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+		2014-01-23	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU FR-E SUPERBRIGHT	1.54

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	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	2.15	19.95	98.5	0.993	9.58	4.7		73905

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.15	2.21			0.512

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	SAD	FREE R-VALUE	2.15	9.62	73905	3724	99.038	0.206	0.205	0.2072	0.233	0.2377	21.252

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]
0.026	0.013		0.026		-0.085

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.369
r_dihedral_angle_4_deg	20.367
r_dihedral_angle_3_deg	14.791
r_dihedral_angle_1_deg	8.044
r_lrange_other	4.697
r_lrange_it	4.696
r_scangle_it	3.966
r_scangle_other	3.966
r_scbond_it	3.117
r_scbond_other	3.116
r_mcangle_it	2.737
r_mcangle_other	2.737
r_angle_other_deg	2.412
r_mcbond_it	2.03
r_mcbond_other	2.029
r_angle_refined_deg	1.863
r_nbd_other	0.257
r_symmetry_nbd_other	0.243
r_nbd_refined	0.205
r_nbtor_refined	0.179
r_xyhbond_nbd_refined	0.141
r_chiral_restr	0.139
r_symmetry_nbd_refined	0.138
r_symmetry_nbtor_other	0.09
r_symmetry_xyhbond_nbd_refined	0.082
r_bond_other_d	0.036
r_symmetry_xyhbond_nbd_other	0.035
r_bond_refined_d	0.016
r_gen_planes_other	0.014
r_gen_planes_refined	0.011

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	9080
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

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