1RZU | pdb_00001rzu

Crystal structure of the glycogen synthase from A. tumefaciens in complex with ADP

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.5	291	PEG 4000, isopropanol, HEPES, ADP, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Properties
Matthews coefficient	Solvent content
2.5	50.5

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 69.357	α = 90
b = 88.115	β = 98.19
c = 84.463	γ = 90

Symmetry
Space Group	P 1 21 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	110	CCD	ADSC QUANTUM 210	channel - cut Si monochromator + cylindrical grazing incidence mirror	2003-08-02	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID29	0.9393	ESRF	ID29

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	R Sym 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	2.3	50	90.7	0.084	0.062	6.9	1.8	40385	40385			42.18

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.3	2.42	85.5		0.337	0.062	2.9	1.8	5557

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	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	MOLECULAR REPLACEMENT	THROUGHOUT	Non complexed form of glycogen synthase (Agrobacterium tumefaciens)	2.3	50	40371	40371	4055	90.7	0.18434	0.18434	0.17983	0.18	0.22328	0.23	RANDOM	22.453

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]
-0.75		-0.4	1.47		-0.84

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	16.586
r_scangle_it	3.604
r_dihedral_angle_1_deg	3.525
r_scbond_it	2.232
r_angle_refined_deg	1.804
r_mcangle_it	1.33
r_angle_other_deg	0.848
r_mcbond_it	0.741
r_symmetry_hbond_refined	0.379
r_symmetry_vdw_refined	0.296
r_nbd_refined	0.242
r_nbd_other	0.227
r_symmetry_vdw_other	0.225
r_xyhbond_nbd_refined	0.161
r_xyhbond_nbd_other	0.15
r_chiral_restr	0.126
r_bond_refined_d	0.019
r_gen_planes_refined	0.006
r_gen_planes_other	0.003
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	7232
Nucleic Acid Atoms
Solvent Atoms	207
Heterogen Atoms	54

Software

Software
Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
CCP4	data scaling
TRUNCATE	data scaling
AMoRE	phasing