2JPH | pdb_00002jph

NMR solution structure of the Rho GTPase binding domain of human plexin-b1

SOLUTION NMR

---

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	3D 1H-15N NOESY	1.75 mM [U-100% 13C; U-100% 15N] protein, 90%H2O/10% D2O	90% H2O/10% D2O	0.1	6.8	ambient	298
2	3D 1H-13C NOESY	1.25 mM [U-100% 13C; U-100% 15N; 80% 2H] protein	90% H2O/10% D2O	0.1	6.8	ambient	298

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Varian	INOVA	600
2	Bruker	AVANCE	600
3	Bruker	AVANCE	800

NMR Refinement
Method	Details	Software
torsion angle dynamics, simulated annealing	Following Nederveen AJ et al., Proteins 2005, 59: 662-672 but in presence of a 10angstrom explicit water shell, final minimization in presence of 4.5 Angstrom explicit water shell	NMRView

NMR Ensemble Information
Conformer Selection Criteria	structures with the least restraint violations
Conformers Calculated Total Number	100
Conformers Submitted Total Number	20
Representative Model	1 (fewest violations)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	chemical shift assignment	NMRView		Johnson, One Moon Scientific
2	data analysis	NMRView		Johnson, One Moon Scientific
3	data analysis	NMRPipe		Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
4	chemical shift assignment	CYANA	2.3	Guntert, Mumenthaler and Wuthrich
5	geometry optimization	CYANA	2.3	Guntert, Mumenthaler and Wuthrich
6	structure solution	X-PLOR NIH	2.17.0	Schwieters, Kuszewski, Tjandra and Clore
7	refinement	X-PLOR NIH	2.17.0	Schwieters, Kuszewski, Tjandra and Clore