2LU7 | pdb_00002lu7

Solution NMR Structure of Ig like domain (1277-1357) of Obscurin-like protein 1 from Homo sapiens, Northeast Structural Genomics Consortium (NESG) Target HR8578D

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D 1H-15N HSQC	0.56 mM [U-100% 13C; U-100% 15N] HR8578D.005, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
2	2D 1H-13C HSQC aliphatic	0.56 mM [U-100% 13C; U-100% 15N] HR8578D.005, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
3	3D HNCO	0.56 mM [U-100% 13C; U-100% 15N] HR8578D.005, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
4	3D CBCA(CO)NH	0.56 mM [U-100% 13C; U-100% 15N] HR8578D.005, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
5	3D HNCACB	0.56 mM [U-100% 13C; U-100% 15N] HR8578D.005, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
6	3D HBHA(CO)NH	0.56 mM [U-100% 13C; U-100% 15N] HR8578D.005, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
7	3D simutaneous 13C-aromatic,13C-aliphatic,15N edited 1H-1H NOESY	0.56 mM [U-100% 13C; U-100% 15N] HR8578D.005, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
8	2D 1H-13C HSQC (CT-28 ms) aliphatic	0.52 mM [U-5% 13C; U-100% 15N] HR8578D.006, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
9	2D 1H-13C HSQC aromatic	0.56 mM [U-100% 13C; U-100% 15N] HR8578D.005, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
10	2D 1H-13C HSQC (CT-16 ms) aromatic	0.56 mM [U-100% 13C; U-100% 15N] HR8578D.005, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
11	2D 1H-13C HSQC (CT-27 ms) aliphatic	0.56 mM [U-100% 13C; U-100% 15N] HR8578D.005, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
12	3D C(CO)NH-TOCSY	0.56 mM [U-100% 13C; U-100% 15N] HR8578D.005, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
13	3D H(CCO)NH-TOCSY	0.56 mM [U-100% 13C; U-100% 15N] HR8578D.005, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
14	3D HCCH-TOCSY	0.56 mM [U-100% 13C; U-100% 15N] HR8578D.005, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
15	3D-HCCH-COSY-ali	0.56 mM [U-100% 13C; U-100% 15N] HR8578D.005, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
16	3D HCCH-COSY-aro	0.56 mM [U-100% 13C; U-100% 15N] HR8578D.005, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
17	2D 1H-13C HSQC (CT-56 ms) aliphatic	0.52 mM [U-5% 13C; U-100% 15N] HR8578D.006, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298
18	3D HN(CA)CO	0.56 mM [U-100% 13C; U-100% 15N] HR8578D.005, 100 mM NaCl, 5 mM DTT, 0.02 % NaN3, 10 mM Tris-HCl pH 7.5	90% H2O/10% D2O		7.5	ambient	298

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Varian	INOVA	750
2	Varian	INOVA	600

NMR Refinement
Method	Details	Software
simulated annealing	STRUCTURE DETERMINATION WAS PERFORMED BY CYANA AND AUTOSTRUCTURE IN PARALLEL USING NOE-BASED CONSTRAINTS AND PHI AND PSI DIHEDRAL ANGLE CONSTRAINTS. CONSENSUS PEAK ASSIGNMENTS GENERATED FROM THESE PARALLEL RUNS WERE SELECTED AND USED FOR FURTHER REFINEMENT WITH CYANA, THE RDC CONSTRAINTS WERE ADDED AT LATER STAGES. A TOTAL OF 20 CONFORMERS OUT OF 100 CONFORMERS WITH THE LOWEST TARGET FUNCTION WERE SELECTED FOR REFINEMENT WITH CNS USING CNS WATER BATH REFINEMENT.	CNS

NMR Ensemble Information
Conformer Selection Criteria	target function
Conformers Calculated Total Number	100
Conformers Submitted Total Number	20
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	refinement	CNS		Brunger, Adams, Clore, Gros, Nilges and Read
2	structure solution	CNS		Brunger, Adams, Clore, Gros, Nilges and Read
3	solution,geometry optimization	CNS		Brunger, Adams, Clore, Gros, Nilges and Read
4	refinement	CYANA	3.0	Guntert, Mumenthaler and Wuthrich
5	geometry optimization	CYANA	3.0	Guntert, Mumenthaler and Wuthrich
6	structure solution	CYANA	3.0	Guntert, Mumenthaler and Wuthrich
7	data analysis	AutoStructure	2.1	Huang, Tejero, Powers and Montelione
8	refinement	AutoStructure	2.1	Huang, Tejero, Powers and Montelione
9	data analysis	AutoAssign	2.1	Zimmerman, Moseley, Kulikowski and Montelione
10	chemical shift assignment	AutoAssign	2.1	Zimmerman, Moseley, Kulikowski and Montelione
11	chemical shift assignment	CARA	1.8.4	Keller and Wuthrich
12	data collection	VnmrJ		Varian
13	secondary structure analysis	CSI		(CSI) Wishart and Sykes
14	processing	PROSA	6.4	Guntert
15	geometry optimization	TALOS+		Shen, Cornilescu, Delaglio and Bax
16	structure validation	PSVS		Bhattacharya, Montelione

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.