1LM1

Structural studies on the synchronization of catalytic centers in glutamate synthase: native enzyme

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1EA0

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8	277	PEG4000, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Properties
Matthews coefficient	Solvent content
4.57	73.07

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 166.083	α = 90
b = 166.083	β = 90
c = 219.584	γ = 90

Symmetry
Space Group	P 43 21 2

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	ADSC QUANTUM 4		2001-11-03	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-3	0.9	ESRF	ID14-3

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	2.8	62	99.4	0.12	0.12	3.8	5.7	76995	76995

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	2.8	2.94	96.6		0.512	0.512	1.7	4.6	10697

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	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	1EA0	2.8	129.1	73899	73899	1869	99.66	0.2376	0.23764	0.23638	0.28677	RANDOM	35.074

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]
4.2			4.2		-8.39

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	26.265
r_dihedral_angle_1_deg	9.278
r_scangle_it	3.61
r_scbond_it	2.296
r_angle_refined_deg	2.228
r_mcangle_it	1.341
r_mcbond_it	0.745
r_symmetry_vdw_refined	0.351
r_nbd_refined	0.328
r_xyhbond_nbd_refined	0.227

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	26.265
r_dihedral_angle_1_deg	9.278
r_scangle_it	3.61
r_scbond_it	2.296
r_angle_refined_deg	2.228
r_mcangle_it	1.341
r_mcbond_it	0.745
r_symmetry_vdw_refined	0.351
r_nbd_refined	0.328
r_xyhbond_nbd_refined	0.227
r_chiral_restr	0.165
r_symmetry_hbond_refined	0.143
r_bond_refined_d	0.021
r_gen_planes_refined	0.007

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	11311
Nucleic Acid Atoms
Solvent Atoms	38
Heterogen Atoms	46

Software

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

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.