1DE8: Base Pair Morphology Parameters

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NDB ID: PD0093 PDB ID: 1DE8

Base Pair Morphology Parameters

CSV Format

Model Number	Pair Number	Pair Name	Shear	Stretch	Stagger	Buckle	Propellor	Opening
1	4	X_DA4:DT19_Y	-0.389	0.403	0.084	7.833	-2.43	5.458
1	7	X_DA8:DT15_Y	-0.911	-0.085	0.593	3.227	-6.191	3.015
1	2	X_DC2:DG21_Y	0.32	-0.054	-0.01	4.897	-6.781	-5.402
1	5	X_DC5:DG18_Y	1.298	0.979	0.033	-3.689	-2.861	19.681
1	9	X_DC10:DG13_Y	0.985	-0.196	-0.144	0.093	-9.185	6.137
1	1	X_DG1:DC22_Y	-0.004	0.28	-0.932	-1.699	9.575	1.935
1	6	X_DG7:DC16_Y	0.925	-0.513	0.055	-1.054	-3.538	-3.849
1	10	X_DG11:DC12_Y	0.543	-0.385	0.386	-7.694	-22.149	-6.756
1	3	X_DT3:DA20_Y	0.152	0.595	0.276	-6.796	-2.38	12.616
1	8	X_DT9:DA14_Y	-0.98	0.344	-0.113	1.761	-14.481	7.488
1	14	U_DA34:DT49_V	1.339	-0.304	-0.4	2.36	-6.93	-3.84
1	17	U_DA38:DT45_V	-0.522	-0.584	1.781	7.818	7.837	-1.859
1	12	U_DC32:DG51_V	-0.66	-0.081	-0.624	4.483	-4.968	-0.7
1	15	U_DC35:DG48_V	0.502	0.277	-0.362	-0.692	-6.117	16.289
1	19	U_DC40:DG43_V	0.297	0.038	0.95	-19.356	5.504	5.031
1	11	U_DG31:DC52_V	-0.084	0.046	-0.037	10.368	0.295	-4.852
1	16	U_DG37:DC46_V	0.114	0.232	0.191	2.213	-8.392	0.255
1	20	U_DG41:DC42_V	0.746	-0.551	0.024	-5.087	-22.683	-0.109
1	13	U_DT33:DA50_V	0.469	0.025	-0.24	5.967	-3.193	0.053
1	18	U_DT39:DA44_V	-0.38	-0.186	1.523	-14.536	0.53	10.291

The above values were obtained using first alternate conformation only and calculated by 3DNA program.
Xiang-Jun Lu & Wilma K. Olson (2003). '3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures', Nucleic Acids Res.31(17), 5108-21.
Xiang-Jun Lu & Wilma K. Olson (2008). '3DNA: a versatile, integrated software system for the analysis, rebuilding and visualization of three-dimensional nucleic-acid structures', Nat Protoc.3(7), 1213-27.