1H38: Base Pair Morphology Parameters

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NDB ID: PH0018 PDB ID: 1H38

Base Pair Morphology Parameters

CSV Format

Model Number	Pair Number	Pair Name	Shear	Stretch	Stagger	Buckle	Propellor	Opening
1	3	E_DA4:DT7_G	0.355	-0.376	1.301	2.19	-18.972	14.622
1	4	E_DA5:DT6_G	0.124	-0.13	0.854	-12.299	-12.898	2.808
1	8	E_DA9:DT2_G	-0.172	-0.51	-1.427	-8.75	-16.532	23.25
1	9	E_DA11:U8_F	0.016	-0.19	-0.05	-10.512	11.09	6.061
1	6	E_DC7:DG4_G	0.414	-0.157	0.008	5.427	-21.572	-2.257
1	11	E_DC13:G6_F	0.095	-0.191	0.136	4.632	-4.496	2.771
1	13	E_DC15:G4_F	0.345	-0.217	-0.065	9.093	-3.525	0.514
1	14	E_DC16:G3_F	-0.021	0.026	-0.223	11.946	-8.52	4.038
1	16	E_DC18:G1_F	-0.092	-0.195	-0.45	7.298	-10.849	-3.421
1	1	E_DG2:DC9_G	0.391	0.039	-0.515	3.422	6.685	-2.756
1	2	E_DG3:DC8_G	-0.051	-0.034	0.898	-4.285	-15.612	1.885
1	7	E_DG8:DC3_G	-0.327	-0.434	-1.179	-12.406	-11.634	0.845
1	12	E_DG14:C5_F	-0.192	-0.342	0.049	9.211	-0.543	-0.868
1	15	E_DG17:C2_F	-0.236	-0.339	-0.336	-3.755	-8.127	0.366
1	5	E_DT6:DA5_G	-0.201	-0.051	0.493	-9.006	-6.405	12.899
1	10	E_DT12:A7_F	0.009	-0.262	-0.081	2.395	-11.493	2.896
1	19	H_DA4:DT7_J	0.264	-0.104	0.374	2.408	-22.33	3.219
1	20	H_DA5:DT6_J	-0.25	0.183	0.056	5.799	-22.466	-2.835
1	24	H_DA9:DT2_J	-0.29	-0.169	0.287	30.442	-4.379	-4.28
1	25	H_DA11:U8_I	0.041	-0.142	-0.129	-12.44	9.21	6.27
1	22	H_DC7:DG4_J	-0.222	-0.197	-0.022	9.898	1.446	-5.09
1	27	H_DC13:G6_I	0.076	-0.177	0.162	6.868	-2.552	3.442
1	29	H_DC15:G4_I	0.357	-0.192	-0.041	9.725	-3.049	0.316
1	30	H_DC16:G3_I	-0.007	0.025	0.133	7.969	-8.825	4.713
1	32	H_DC18:G1_I	-0.096	-0.207	-0.486	7.649	-11.084	-3.451
1	17	H_DG2:DC9_J	-0.022	-0.056	0.366	24.16	-7.56	1.772
1	18	H_DG3:DC8_J	-0.347	0.048	0.226	18.444	-24.139	4.778
1	23	H_DG8:DC3_J	0.062	0.225	0.111	13.459	-3.145	2.491
1	28	H_DG14:C5_I	-0.178	-0.326	0.151	9.206	-2.764	0.321
1	31	H_DG17:C2_I	-0.256	-0.328	-0.317	-3.776	-6.885	0.6
1	21	H_DT6:DA5_J	-0.307	-0.13	-0.056	8.744	-0.692	-0.094
1	26	H_DT12:A7_I	0.054	-0.259	-0.152	3.07	-9.36	3.371
1	35	K_DA4:DT7_M	0.148	-0.034	-0.5	-8.223	-3.236	6.75
1	36	K_DA5:DT6_M	0.058	0.18	-0.51	-4.195	-4.643	3.505
1	40	K_DA9:DT2_M	0.347	0.196	1.248	40.697	-0.324	-13.58
1	41	K_DA11:U8_L	0.018	-0.088	-0.075	-14.568	12.089	7.209
1	38	K_DC7:DG4_M	-0.207	-0.372	-0.821	13.722	-1.293	-3.116
1	43	K_DC13:G6_L	0.07	-0.145	0.056	6.042	-5.351	4.137
1	45	K_DC15:G4_L	0.352	-0.206	-0.059	9.651	-5.139	0.078
1	46	K_DC16:G3_L	-0.002	0.023	-0.087	10.459	-7.809	3.94
1	48	K_DC18:G1_L	-0.086	-0.211	-0.429	8.046	-10.035	-3.399
1	33	K_DG2:DC9_M	-0.223	0.265	-0.41	9.352	-2.079	0.013
1	34	K_DG3:DC8_M	-0.385	-0.269	-0.137	-10.163	-8.195	-1.147
1	39	K_DG8:DC3_M	-0.281	-0.25	0.324	10.301	-2.057	-0.601
1	44	K_DG14:C5_L	-0.167	-0.319	0.053	9.281	-1.966	0.23
1	47	K_DG17:C2_L	-0.234	-0.36	-0.324	-2.853	-8.335	0.116
1	37	K_DT6:DA5_M	-0.201	-0.258	-1.314	25.532	-7.703	2.824
1	42	K_DT12:A7_L	0.012	-0.24	-0.107	2.833	-9.598	2.186
1	51	N_DA4:DT7_P	0.064	-0.058	0.182	-6.056	-24.352	4.04
1	52	N_DA5:DT6_P	-0.443	-0.015	0.304	-2.174	-22.1	-0.155
1	56	N_DA9:DT2_P	-0.154	-0.104	0.787	36.889	1.092	-3.415
1	57	N_DA11:U8_O	0.008	-0.149	-0.036	-10.456	11.108	6.606
1	54	N_DC7:DG4_P	0.134	-0.299	-0.428	8.285	-12.817	0.255
1	59	N_DC13:G6_O	0.106	-0.163	0.026	7.336	-2.999	3.638
1	61	N_DC15:G4_O	0.37	-0.18	-0.104	11.097	-3.743	0.934
1	62	N_DC16:G3_O	0.031	0.038	-0.082	11.517	-8.124	4.307
1	64	N_DC18:G1_O	-0.078	-0.198	-0.43	7.557	-10.188	-3.452
1	49	N_DG2:DC9_P	0.01	-0.089	0.872	39.705	-8.243	-0.565
1	50	N_DG3:DC8_P	0.36	0.026	0.849	26.727	-10.253	-1.112
1	55	N_DG8:DC3_P	-0.368	0.244	0.584	14.526	5.481	-0.845
1	60	N_DG14:C5_O	-0.166	-0.305	0.107	11.227	-3.183	-0.096
1	63	N_DG17:C2_O	-0.249	-0.329	-0.333	-3.219	-8.055	0.427
1	53	N_DT6:DA5_P	-0.181	-0.105	-0.067	-6.366	6.604	12.165
1	58	N_DT12:A7_O	0.009	-0.28	-0.265	4.003	-8.235	2.645

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.