3LM9

Crystal structure of fructokinase with ADP and Fructose bound in the active site

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8.5	291	1.4 M Ammonium sulfate 0.1 M TRIS 10mM L-Fructose 20mM ADP, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Properties
Matthews coefficient	Solvent content
4.07	69.8

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 112.333	α = 90
b = 112.333	β = 90
c = 73.958	γ = 120

Symmetry
Space Group	P 31 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		CCD	ADSC QUANTUM 315	mirrors	2007-05-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 19-ID	0.9794	APS	19-ID

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	2.45	40	100	0.11	24	10.6	20173	20173	2	2

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	2.45	2.49	100		0.71	3.5	9.5	989

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Cut-off Sigma (I)	Cut-off Sigma (F)	Number Reflections (All)	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	MOLECULAR REPLACEMENT	THROUGHOUT	3EPQ	2.45	40	2	2	20093	19068	1024	99.87	0.15926	0.1573	0.19619	RANDOM	22.437

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]
-0.81	-0.4		-0.81		1.21

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.669
r_dihedral_angle_4_deg	17.254
r_dihedral_angle_3_deg	14.999
r_dihedral_angle_1_deg	6.233
r_scangle_it	4.782
r_scbond_it	2.975
r_angle_refined_deg	1.876
r_mcangle_it	1.794
r_angle_other_deg	0.965
r_mcbond_it	0.919
r_mcbond_other	0.204
r_chiral_restr	0.097
r_bond_refined_d	0.023
r_gen_planes_refined	0.008
r_bond_other_d	0.001
r_gen_planes_other	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_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2252
Nucleic Acid Atoms
Solvent Atoms	82
Heterogen Atoms	45

Software

Software
Software Name	Purpose
SBC-Collect	data collection
MOLEMAN2	model building
CCP4	model building
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling
MOLEMAN2	phasing
CCP4	phasing