1K61: Base Pair Morphology Parameters

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NDB ID: PD0257 PDB ID: 1K61

Base Pair Morphology Parameters

CSV Format

Model Number	Pair Number	Pair Name	Shear	Stretch	Stagger	Buckle	Propellor	Opening
1	2	E_DA3:DT41_F	-0.059	-0.136	-0.123	9.928	-6.085	0.952
1	6	E_DA7:DT37_F	0.384	-3.613	-0.141	2.518	10.527	67.293
1	7	E_DA8:DT36_F	-0.061	-0.118	-0.05	-1.666	-16.694	15.903
1	11	E_DA12:DT32_F	0.006	-0.008	-0.08	-6.69	-0.829	2.13
1	15	E_DA16:DT28_F	-0.417	-0.09	-0.103	-11.635	-5.599	9.631
1	17	E_DA18:DT26_F	0.237	-0.077	0.265	-8.391	-9.729	4.391
1	1	E_DC2:DG42_F	0.213	-0.013	-0.218	-6.781	-0.665	1.155
1	10	E_DC11:DG33_F	0.443	0.01	0.146	-7.93	-15.919	1.753
1	16	E_DC17:DG27_F	0.185	-0.081	-0.003	-4.481	-8.847	1.684
1	18	E_DC19:DG25_F	0.113	-0.004	-0.139	1.723	-7.736	0.412
1	20	E_DC21:DG23_F	0.592	-0.361	-0.634	10.556	-6.843	0.835
1	4	E_DG5:DC39_F	-0.441	-0.003	-0.383	-2.495	-8.552	2.249
1	19	E_DG20:DC24_F	-0.276	-0.182	0.024	4.537	-5.449	-3.919
1	3	E_DT4:DA40_F	0.161	-0.117	-0.006	21.386	-4.12	2.905
1	5	E_DT6:DA38_F	0.226	-0.054	-0.179	1.332	-11.357	9.081
1	8	E_DT9:DA35_F	-0.079	-0.07	0.019	-4.621	-12.185	-0.512
1	9	E_DT10:DA34_F	0.262	-0.093	-0.232	-0.715	-11.768	2.64
1	12	E_DT13:DA31_F	0.024	-0.025	0.03	9.848	-9.484	1.224
1	13	E_DT14:DA30_F	-0.127	-0.064	0.033	0.393	-21.396	5.242
1	14	E_DT15:DA29_F	-0.155	-0.077	-0.233	3.312	-13.89	2.567

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.