1YCW | pdb_00001ycw

Clustered abasic lesions in dna: nmr solution structures of clustered bistranded-1 abasic lesion

SOLUTION NMR

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NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	2D NOESY	2mM DUPLEX, 25mM PHOSPHATE BUFFER, 50mM NaCl, 0.5mM EDTA	25 mM PHOSPHATE BUFFER; PH 6.8; 50 mM NaCl; 0.5 mM EDTA.	NOT DETERMINED	6.8	AMBIENT	298
2	2D TOCSY	2mM DUPLEX, 25mM PHOSPHATE BUFFER, 50mM NaCl, 0.5mM EDTA	25 mM PHOSPHATE BUFFER; PH 6.8; 50 mM NaCl; 0.5 mM EDTA.	NOT DETERMINED	6.8	AMBIENT	298
3	DQF-COSY	2mM DUPLEX, 25mM PHOSPHATE BUFFER, 50mM NaCl, 0.5mM EDTA	25 mM PHOSPHATE BUFFER; PH 6.8; 50 mM NaCl; 0.5 mM EDTA.	NOT DETERMINED	6.8	AMBIENT	298
4	COSY, COSY45	2mM DUPLEX, 25mM PHOSPHATE BUFFER, 50mM NaCl, 0.5mM EDTA	25 mM PHOSPHATE BUFFER; PH 6.8; 50 mM NaCl; 0.5 mM EDTA.	NOT DETERMINED	6.8	AMBIENT	298

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Varian	INOVA	500
2	Varian	INOVA	600

NMR Refinement
Method	Details	Software
RESTRAINED MOLECULAR DYNAMICS	1) HEATING STAGE: FROM 150 TO 500 K IN 70PS. INTRODUCTION OF EXPERIMENTAL RESTRAINTS AT THE END OF THIS STAGE. 2) HIGH TEMPERATURE STAGE: 50 PS DYNAMICS AT 500K 3) COOLING STAGE: FROM 500 TO 300K IN 40PS. 4) EQUILIBRATION STAGE: 120PS DYNAMICS AT 300K	X-PLOR

NMR Ensemble Information
Conformer Selection Criteria	structures with the least restraint violations
Conformers Calculated Total Number	20
Conformers Submitted Total Number	5
Representative Model	1 (closest to the average)

Additional NMR Experimental Information
Details	This structure was determined using standard 2D homonuclear techniques.

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	refinement	X-PLOR	3.1	A. BRUNGER
2	data analysis	Felix	98
3	data analysis	INSIGHT 95, MIDAS PLUS, CURVES 5