5F99: Base Pair Morphology Parameters

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As of 22-Jun-2022 number of released structures: 12128

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NDB ID: 5F99 PDB ID: 5F99

Base Pair Morphology Parameters

CSV Format

Model Number	Pair Number	Pair Name	Shear	Stretch	Stagger	Buckle	Propellor	Opening
1	1	I_DA-73:DT73_J	-0.409	-0.071	0.019	-16.207	6.46	1.994
1	7	I_DA-67:DT67_J	0.174	0.176	0.378	17.676	-8.189	2.484
1	8	I_DA-66:DT66_J	1.293	0.458	0.192	19.349	-24.556	5.636
1	10	I_DA-64:DT64_J	0.434	-0.203	-0.912	10.994	-21.773	4.953
1	16	I_DA-58:DT58_J	0.294	-0.041	0.611	20.433	-28.407	-11.091
1	17	I_DA-57:DT57_J	0.898	0.176	0.499	7.261	-31.149	-4.885
1	19	I_DA-55:DT55_J	0.122	0.169	0.694	2.246	-11.458	12.673
1	22	I_DA-51:DT51_J	0.811	-0.17	0.534	15.884	-0.752	-11.748
1	50	I_DA-23:DT23_J	1.127	0.162	-0.893	-3.553	-16.495	-5.781
1	66	I_DA-5:DT5_J	0.571	-0.523	1.231	10.222	-7.995	-1.804
1	70	I_DA-1:DT1_J	-0.988	-0.209	0.921	-5.181	2.464	-4.622
1	77	I_DA6:DT-6_J	-0.327	-0.286	1.429	7.665	-9.224	-5.215
1	84	I_DA13:DT-13_J	-0.214	0.054	0.535	15.617	-5.551	-3.635
1	86	I_DA15:DT-15_J	0.008	0.105	0.173	0.537	-30.971	-3.497
1	99	I_DA28:DT-28_J	-1.526	-0.226	0.114	4.383	-1.021	13.579
1	101	I_DA30:DT-30_J	-0.569	0.2	0.134	13.384	-15.486	4.444
1	110	I_DA39:DT-39_J	-0.121	0.086	-0.273	15.529	-18.484	-1.13
1	116	I_DA45:DT-45_J	-0.731	0.144	1.354	-1.261	-6.579	2.995
1	126	I_DA55:DT-55_J	0.599	0.413	0.794	31.53	-12.202	13.803
1	134	I_DA63:DT-63_J	-0.52	0.214	-0.44	-2.184	-4.638	-9.459
1	136	I_DA65:DT-65_J	0.588	-0.16	0.417	23.004	-14.784	0.464
1	143	I_DA72:DT-72_J	-1.259	-0.414	-0.057	-24.219	-11.367	-12.341
1	3	I_DC-71:DG71_J	-0.17	0.035	0.549	-6.778	-15.416	7.534
1	6	I_DC-68:DG68_J	-1.066	0.095	-0.056	16.913	-13.066	-6.778
1	9	I_DC-65:DG65_J	0.274	0.29	-0.717	28.013	-5.352	5.646
1	13	I_DC-61:DG61_J	-0.618	0.444	-0.412	8.953	-16.136	-2.122
1	14	I_DC-60:DG60_J	0.028	-0.057	0.717	3.471	5.124	6.668
1	18	I_DC-56:DG56_J	0.774	-0.078	0.543	-4.08	-11.606	-1.778
1	21	I_DC-52:DG52_J	-0.521	0.128	-0.81	21.478	-12.954	6.365
1	23	I_DC-50:DG50_J	-0.422	0.04	0.302	11.379	-9.363	-5.279
1	24	I_DC-49:DG49_J	-0.43	-0.111	0.615	-0.677	-2.608	-5.228
1	26	I_DC-47:DG47_J	0.557	-0.032	0.578	-6.117	-6.706	1.827
1	41	I_DC-32:DG32_J	-0.12	0.323	0.025	15.545	-4.42	0.737
1	46	I_DC-27:DG27_J	-0.455	0.08	-0.315	-2.829	-1.652	9.601
1	48	I_DC-25:DG25_J	0.729	-0.007	-0.471	0.204	13.619	8.643
1	49	I_DC-24:DG24_J	0.083	0.373	-0.509	14.063	-10.624	0.372
1	52	I_DC-21:DG21_J	-0.149	0.191	-1.105	27.179	-0.565	-10.779
1	53	I_DC-20:DG20_J	0.355	0.077	-1.216	21.543	2.788	7.995
1	54	I_DC-19:DG19_J	1.423	0.356	-0.793	12.411	2.87	13.686
1	56	I_DC-16:DG16_J	-0.87	-0.28	-1.601	35.467	-10.592	-7.468
1	58	I_DC-14:DG13_J	1.1	-0.057	-0.681	-12.909	15.866	-29.881
1	60	I_DC-11:DG11_J	-0.698	-0.296	0.508	-3.285	2.828	-4.923
1	62	I_DC-9:DG9_J	0.554	-0.193	-1.568	28.881	-33.197	5.991
1	65	I_DC-6:DG6_J	0.291	-0.1	0.083	24.829	-42.19	3.469
1	67	I_DC-4:DG4_J	-1.26	0.585	0.773	4.179	-8.722	-1.855
1	72	I_DC1:DG-1_J	0.264	-0.005	0.348	-7.726	-13.955	-3.297
1	73	I_DC2:DG-2_J	-1.094	-0.13	0.877	-19.352	0.828	-1.2
1	76	I_DC5:DG-5_J	0.374	0.44	-0.287	16.081	-15.458	9.664
1	78	I_DC7:DG-7_J	-0.515	0.356	0.308	6.526	-0.13	5.894
1	82	I_DC11:DG-11_J	-0.796	-0.187	0.358	-2.692	-2.162	1.026
1	83	I_DC12:DG-12_J	0.126	0.041	-0.022	2.645	1.408	3.988
1	91	I_DC20:DG-20_J	-0.114	-0.184	-0.259	4.388	-12.97	4.377
1	92	I_DC21:DG-21_J	0.242	-0.498	-0.438	3.65	-5.745	-4.066
1	93	I_DC22:DG-22_J	-0.036	-0.206	-0.586	3.659	-0.386	8.922
1	94	I_DC23:DG-23_J	-0.231	-0.081	0.608	-7.847	-3.513	-0.553
1	95	I_DC24:DG-24_J	-0.45	0.045	0.681	-2.421	-5.393	6.617
1	96	I_DC25:DG-25_J	0.238	-0.398	0.367	-1.507	3.49	-2.232
1	98	I_DC27:DG-27_J	0.574	-0.159	-0.11	11.568	-11.466	4.943
1	102	I_DC31:DG-31_J	0.306	-0.07	0.111	8.868	-11.08	-0.221
1	103	I_DC32:DG-32_J	-0.209	-0.469	0.02	5.385	-13.91	0.558
1	104	I_DC33:DG-33_J	-0.831	0.276	0.365	-1.374	-6.085	-5.405
1	105	I_DC34:DG-34_J	0.173	-0.232	1.284	-11.42	11.533	3.699
1	108	I_DC37:DG-37_J	-0.49	-0.048	1.45	-7.109	-10.505	-4.668
1	111	I_DC40:DG-40_J	-0.598	0.111	-1.884	33.534	-20.259	-6.913
1	112	I_DC41:DG-41_J	-0.512	-0.637	-0.968	10.028	-25.269	5.49
1	113	I_DC42:DG-42_J	-0.403	0.033	1.102	-0.717	5.107	3.574
1	115	I_DC44:DG-44_J	0.114	-0.058	1.367	-12.445	-3.254	2.528
1	120	I_DC49:DG-49_J	0.539	0.089	0.409	-0.727	-22.016	11.108
1	123	I_DC52:DG-52_J	0.58	0.001	0.19	-0.141	-9.964	1.786
1	124	I_DC53:DG-53_J	0.279	0.961	-0.675	21.037	-9.55	22.243
1	127	I_DC56:DG-56_J	-0.187	0.188	0.384	14.64	-19.931	-12.149
1	130	I_DC59:DG-59_J	0.945	0.632	0.035	-0.621	-11.539	9.245
1	133	I_DC62:DG-62_J	-0.543	-0.095	0.302	7.364	-1.715	-5.486
1	135	I_DC64:DG-64_J	0.301	-0.266	-0.642	1.29	-6.85	-14.076
1	5	I_DG-69:DC69_J	-0.295	0.103	-0.418	-7.45	-10.874	10.91
1	11	I_DG-63:DC63_J	0.062	-0.502	-0.886	-4.726	-3.734	-5.376
1	29	I_DG-44:DC44_J	-0.842	0.384	0.282	1.87	-2.259	7.985
1	31	I_DG-42:DC42_J	-0.242	-0.459	0.854	16.358	0.069	-4.894
1	33	I_DG-40:DC40_J	0.916	-0.176	-0.56	-7.546	-2.991	-9.072
1	37	I_DG-36:DC36_J	-0.577	-0.195	0.041	-2.028	-1.31	4.048
1	39	I_DG-34:DC34_J	-0.483	0.256	1.169	20.936	0.148	5.993
1	43	I_DG-30:DC30_J	1.044	-0.057	-0.634	-20.322	-9.826	8.161
1	47	I_DG-26:DC26_J	0.003	-0.155	0.688	-12.492	-31.852	-11.442
1	55	I_DG-18:DC18_J	-0.876	0.128	-0.461	-10.27	4.713	-1.722
1	59	I_DG-12:DC12_J	-1.217	-0.29	-0.511	-12.876	-18.268	10.551
1	63	I_DG-8:DC8_J	0.403	0.039	0.818	11.44	-0.785	0.482
1	85	I_DG14:DC-14_J	0.033	-0.128	0.116	10.857	-10.466	-1.885
1	87	I_DG16:DC-16_J	0.028	-0.134	-0.211	2.749	-0.458	-6.566
1	88	I_DG17:DC-17_J	-0.493	0.172	0.434	7.836	-7.829	-1.531
1	89	I_DG18:DC-18_J	0.136	0.044	-0.005	-5.141	-6.842	2.028
1	97	I_DG26:DC-26_J	0.478	-0.162	0.047	2.01	-13.27	0.423
1	100	I_DG29:DC-29_J	-0.483	0.414	-0.251	9.177	-10.502	1.789
1	106	I_DG35:DC-35_J	-0.055	-0.109	1.748	1.51	-24.095	-6.904
1	107	I_DG36:DC-36_J	-1.437	-0.553	0.756	-6.992	1.425	-11.123
1	109	I_DG38:DC-38_J	-1.081	0.154	1.084	25.135	0.261	5.157
1	117	I_DG46:DC-46_J	-0.302	0.148	1.142	2.802	-17.763	8.295
1	118	I_DG47:DC-47_J	0.913	0.028	1.814	11.104	-18.239	2.044
1	121	I_DG50:DC-50_J	0.706	0.41	-0.074	-21.186	-26.449	0.644
1	122	I_DG51:DC-51_J	-0.145	-0.344	1.479	10.97	-6.276	-4.858
1	125	I_DG54:DC-54_J	0.262	-0.196	0.457	18.811	-18.879	4.969
1	129	I_DG58:DC-58_J	0.431	0.346	0.414	-19.372	-29.005	0.194
1	131	I_DG60:DC-60_J	-0.784	0.171	0.983	8.92	-6.571	6.353
1	132	I_DG61:DC-61_J	0.084	0.116	0.449	6.047	-24.997	8.368
1	137	I_DG66:DC-66_J	0.741	-0.277	1.023	11.015	-8.6	-1.374
1	142	I_DG71:DC-71_J	-0.479	-0.51	0.555	-19.589	7.302	-2.468
1	2	I_DT-72:DA72_J	-0.577	0.258	0.149	-0.457	-15.483	-0.963
1	4	I_DT-70:DA70_J	-0.154	0.212	-0.224	6.943	-15.544	6.918
1	12	I_DT-62:DA62_J	0.803	-0.327	-0.228	6.639	-3.717	-11.657
1	15	I_DT-59:DA59_J	0.13	0.379	0.771	7.146	-6.389	-15.862
1	20	I_DT-53:DA53_J	-0.545	-0.341	-0.572	12.773	-24.537	14.818
1	25	I_DT-48:DA48_J	-0.726	0.073	-0.124	-4.061	-15.805	-9.37
1	27	I_DT-46:DA46_J	-0.936	0.19	0.298	-15.286	-27.702	-9.006
1	28	I_DT-45:DA45_J	0.498	-0.022	-0.303	-15.884	-37.31	7.624
1	30	I_DT-43:DA43_J	0.362	0.296	0.178	13.565	-8.836	-7.929
1	32	I_DT-41:DA41_J	1.034	-0.298	-0.822	19.34	-4.914	-11.197
1	34	I_DT-39:DA39_J	-0.209	0.147	1.075	0.092	-1.115	-0.162
1	35	I_DT-38:DA38_J	0.183	-0.049	0.731	-8.381	3.72	1.25
1	36	I_DT-37:DA37_J	-1.159	0.061	0.418	-9.195	-7.834	-15.012
1	38	I_DT-35:DA35_J	1.195	0.19	-0.296	16.799	-26.283	-7.091
1	40	I_DT-33:DA33_J	-0.817	-0.101	-0.108	10.716	-14.641	2.67
1	42	I_DT-31:DA31_J	0.126	-0.301	-0.367	8.462	-17.063	5.597
1	44	I_DT-29:DA29_J	-0.174	0.189	0.837	-6.55	9.706	1.055
1	45	I_DT-28:DA28_J	-0.941	0.274	-0.43	3.642	-24.827	6.654
1	51	I_DT-22:DA22_J	1.01	-0.25	-0.761	23.664	-7.751	0.204
1	57	I_DT-15:DA15_J	0.093	0.032	0.776	3.596	-36.519	-3.131
1	61	I_DT-10:DA10_J	-1.04	-0.264	-0.237	7.447	-13.554	-2.969
1	64	I_DT-7:DA7_J	0.587	-0.052	-0.799	20.848	3.517	-14.121
1	68	I_DT-3:DA3_J	-0.252	0.26	0.895	5.469	-2.837	0.836
1	69	I_DT-2:DA2_J	0.318	-0.394	0.31	4.611	-14.582	-1.528
1	71	I_DT0:DA0_J	0.17	-0.362	1.177	-13.575	-6.475	3.006
1	74	I_DT3:DA-3_J	-0.78	0.145	-0.064	-5.911	-20.739	-5.277
1	75	I_DT4:DA-4_J	-0.681	0.23	-0.955	10.232	-26.143	-0.613
1	79	I_DT8:DA-8_J	-0.124	0.085	0.665	-5.911	-9.505	-5.347
1	80	I_DT9:DA-9_J	0.164	-0.225	-0.158	0.465	-13.801	3.168
1	81	I_DT10:DA-10_J	-0.611	0.048	0.042	-3.447	-11.837	5.288
1	90	I_DT19:DA-19_J	-0.308	-0.121	-0.164	9.703	-19.698	1.255
1	114	I_DT43:DA-43_J	-0.7	-0.265	1.167	-11.293	-4.297	-8.309
1	119	I_DT48:DA-48_J	-0.326	0.523	0.893	-0.178	-15.039	7.787
1	128	I_DT57:DA-57_J	1.045	0.028	-0.132	11.753	-16.653	-9.635
1	138	I_DT67:DA-67_J	0.082	0.118	0.149	13.949	-14.975	-13.794
1	139	I_DT68:DA-68_J	0.544	-0.692	0.144	3.01	-16.553	-1.211
1	140	I_DT69:DA-69_J	-0.087	-0.432	0.435	7.454	3.045	-3.302
1	141	I_DT70:DA-70_J	-1.243	-0.253	-0.187	27.396	12.315	-5.652
1	144	I_DT73:DA-73_J	-0.125	-0.354	0.498	-27.528	-4.296	-9.2

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.