2LIQ | pdb_00002liq

Solution structure of CCL2 in complex with glycan

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-15N HSQC	1 mM [U-100% 13C; U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	90% H2O/10% D2O	150	4.7	ambient	310
2	2D 15N-HSQC	1 mM [U-100% 13C; U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	90% H2O/10% D2O	150	4.7	ambient	310
3	2D NOESY	1 mM [U-100% 13C; U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	90% H2O/10% D2O	150	4.7	ambient	310
4	3D 15N edited NOESY	1 mM [U-100% 13C; U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	90% H2O/10% D2O	150	4.7	ambient	310
5	2D 15N F1-filtered,F2-filtered NOESY	1 mM [U-100% 13C; U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	90% H2O/10% D2O	150	4.7	ambient	310
6	2D NOESY	1 mM [U-100% 13C; U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	100% D2O	150	4.7	ambient	310
7	2D TOCSY	1 mM [U-100% 13C; U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	100% D2O	150	4.7	ambient	310
8	2D 13C-HSQC (at natural abundance)	1 mM [U-100% 13C; U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	100% D2O	150	4.7	ambient	310
9	2D 15N-HSQC (for H/D exchange)	1 mM [U-100% 13C; U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	100% D2O	150	4.7	ambient	310
10	2D 13C-HSQC for aliphatic region	1 mM [U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	90% H2O/10% D2O	150	4.7	ambient	310
11	2D 13C-HSQC for aromatic region	1 mM [U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	90% H2O/10% D2O	150	4.7	ambient	310
12	3D 13Cedited-NOESY for aliphatic region	1 mM [U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	90% H2O/10% D2O	150	4.7	ambient	310
13	2D 13Cedited NOESY for aromatic region	1 mM [U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	90% H2O/10% D2O	150	4.7	ambient	310
14	3D HNCA	1 mM [U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	90% H2O/10% D2O	150	4.7	ambient	310
15	3D HNCACB	1 mM [U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	90% H2O/10% D2O	150	4.7	ambient	310
16	3D HNCO	1 mM [U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	90% H2O/10% D2O	150	4.7	ambient	310
17	2D 13C-HSQC for aliphatic region	1 mM [U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	100% D2O	150	4.7	ambient	310
18	2D 13C-HSQC for aromatic region	1 mM [U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	100% D2O	150	4.7	ambient	310
19	3D HCCH-COSY	1 mM [U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	100% D2O	150	4.7	ambient	310
20	2D 13C F1-filtered TOCSY	1 mM [U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	100% D2O	150	4.7	ambient	310
21	2D 13C F1-filtered NOESY	1 mM [U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	100% D2O	150	4.7	ambient	310
22	2D 13C F1-filtered, F2-filtered NOESY	1 mM [U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	100% D2O	150	4.7	ambient	310
23	3D 13C F1-edited, F3-filtered NOESY for aliphatic region	1 mM [U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	100% D2O	150	4.7	ambient	310
24	3D 13C F1-edited, F3-filtered NOESY for aromatic region	1 mM [U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, ~41 mM [U-100% 2H] acetic acid	100% D2O	150	4.7	ambient	310
25	2D constant-time 13C-HSQC to unambiguously assign the stereochemical methyl groups of VAL and LEU	1 mM [U-1% 13C; U-100% 15N] CCL2, 1 mM SUGAR (3-MER), 50 mM potassium phosphate, 100 mM sodium chloride, 41 mM [U-100% 2H] acetic acid 95%H2O/5% D2O	95% H2O/5% D2O	150	4.7	ambient	310

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE	500
2	Bruker	AVANCE	600
3	Bruker	AVANCE	750
4	Bruker	AVANCE	900

NMR Refinement
Method	Details	Software
simulated annealing		Amber

NMR Ensemble Information
Conformer Selection Criteria	structures with the least restraint violations
Conformers Calculated Total Number	300
Conformers Submitted Total Number	20
Representative Model	1 (closest to the average)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	TopSpin		Bruker Biospin
2	processing	TopSpin		Bruker Biospin
3	data analysis	Sparky		Goddard
4	chemical shift assignment	Sparky		Goddard
5	structure solution	CYANA		Herrmann, Guntert and Wuthrich
6	structure solution	CYANA		Guntert, Mumenthaler and Wuthrich
7	refinement	Amber		Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, and Kollman
8	data analysis	TALOS		Cornilescu, Delaglio and Bax