4RDU: Base Pair Morphology Parameters

A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 22-Jun-2022 number of released structures: 12128

Search for released structures

NDB ID: NA3178 PDB ID: 4RDU

Base Pair Morphology Parameters

CSV Format

Model Number	Pair Number	Pair Name	Shear	Stretch	Stagger	Buckle	Propellor	Opening
1	2	B_DA3:DT12_C	-0.048	-0.12	0.271	3.022	-13.654	-1.542
1	5	B_DA6:DT9_C	0.054	-0.097	-0.162	7.465	-9.803	4.793
1	6	B_DA7:DT8_C	0.05	-0.174	0.092	7.589	-14.117	3.25
1	9	B_DA10:DT5_C	-0.045	-0.19	-0.231	-7.868	-7.934	5.037
1	3	B_DC4:DG11_C	0.13	-0.213	0.461	1.157	-15.114	-1.185
1	12	B_DC13:DG2_C	0.415	-0.152	-0.103	3.86	-4.931	2.401
1	1	B_DG2:DC13_C	-0.362	-0.241	-0.19	7.868	-0.065	-0.137
1	10	B_DG11:DC4_C	-0.327	-0.219	-0.027	-10.015	-7.467	0.329
1	13	B_DG14:DC1_C	0.192	-0.139	0.473	7.643	-16.037	-7.425
1	4	B_DT5:DA10_C	-0.078	-0.117	0.086	-3.17	-12.692	2.98
1	7	B_DT8:DA7_C	0.067	-0.043	0.0	4.404	-14.58	6.649
1	8	B_DT9:DA6_C	-0.07	-0.123	-0.341	3.37	-15.084	4.027
1	11	B_DT12:DA3_C	0.114	-0.037	0.122	-7.766	-7.203	-0.88
1	15	E_DA3:DT12_F	0.441	0.023	0.096	10.331	-13.373	0.932
1	18	E_DA6:DT9_F	-0.199	-0.136	0.004	6.12	-14.221	3.5
1	19	E_DA7:DT8_F	-0.13	-0.04	0.134	3.015	-14.7	1.219
1	22	E_DA10:DT5_F	0.096	-0.167	-0.293	-12.526	-6.452	6.245
1	16	E_DC4:DG11_F	0.058	-0.08	0.145	4.824	-18.09	5.351
1	25	E_DC13:DG2_F	0.208	-0.073	-0.001	-0.037	-0.931	3.578
1	14	E_DG2:DC13_F	-0.414	0.205	-0.082	6.232	-2.407	5.895
1	23	E_DG11:DC4_F	-0.196	-0.122	0.006	-8.62	-5.83	-0.787
1	26	E_DG14:DC1_F	0.104	-0.131	0.153	4.441	-10.55	-10.064
1	17	E_DT5:DA10_F	0.22	-0.359	0.124	3.65	-6.665	1.723
1	20	E_DT8:DA7_F	-0.073	-0.078	0.298	1.012	-16.242	6.029
1	21	E_DT9:DA6_F	-0.099	-0.079	-0.071	-0.24	-13.267	2.709
1	24	E_DT12:DA3_F	-0.019	0.042	0.22	-6.15	-6.41	-1.284

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.