A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 14-Aug-2019 number of released structures: 10334
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NDB ID: PR0076  PDB ID: 1M5P 


Base Pair Morphology Parameters

CSV Format

Model NumberPair NumberPair NameShearStretchStaggerBucklePropellorOpening
14A_A5:U87_B-0.7060.198-0.009-3.35-6.73110.242
18A_A10:U12_B0.411-0.021-0.285-7.296-9.83-3.441
12A_C3:G89_B0.3410.7470.675.706-23.15922.312
13A_C4:G88_B-0.920.045-1.46713.607-4.1081.662
15A_C6:G86_B1.558-0.005-0.31820.001-18.6845.356
16A_C7:G85_B0.802-0.269-0.129-7.917-2.9020.063
19A_C11:G11_B0.618-0.1340.0542.009-3.0917.431
11A_G2:C90_B-0.818-0.4770.2955.819-26.549-11.593
17A_G9:C13_B0.3990.068-0.113-7.489-11.0186.51
127M_5CG13:C25_B-0.69-0.06-0.141-25.052-25.662-3.117
111M_C16:G6_B-1.7930.092-1.19119.186-16.08112.567
113M_C18:G4_B0.751-0.311-0.32411.954-6.9560.616
115M_C20:G2_B0.8850.19-0.6647.125-6.8225.896
116M_C21:G1_B0.166-0.1070.18-5.973-0.9360.583
110M_U14:G8_B-7.457-2.203-0.62313.525-4.7412.311
112M_U17:A5_B-0.262-0.249-0.4276.1590.9786.848
114M_U19:A3_B-0.1760.008-0.1913.587-11.7853.563
128B_A57:A24_B-4.9073.783-0.2672.26-9.865-157.229
129B_A59:A23_B3.9411.101-0.896-0.872-26.118-98.529
131B_A62:G21_B-6.998-4.407-0.0666.9544.842-7.599
138B_A69:U84_B-0.7580.0860.015-3.619-16.247-8.767
132B_C63:A20_B-2.4760.149-0.48613.218-8.0636.362
133B_C64:G19_B1.005-0.3760.09-1.955-6.554-0.254
139B_C70:G83_B-1.445-0.097-0.53215.327-24.2532.199
117B_G46:C35_B-0.207-0.20.5126.7631.1481.139
118B_G47:C34_B-0.282-0.09-0.348-2.733-17.5072.913
119B_G48:C33_B0.361-0.162-0.515-14.418-17.879-3.199
122B_G51:C30_B-0.143-0.108-0.653-2.735-13.226.595
123B_G52:C29_B-0.197-0.1740.024-6.618-16.1172.444
125B_G54:C27_B-0.129-0.09-0.165-11.819-20.9611.457
126B_G55:A26_B0.3931.59-0.64717.136-7.288-6.756
135B_G66:C17_B0.169-0.0770.1470.267-8.8813.515
136B_G67:C16_B-1.690.2280.2296.183-12.9818.431
140B_G71:C82_B-0.6080.2860.171-7.023-14.28716.547
141B_G72:U81_B-1.724-0.866-0.745-12.582-19.183-1.395
142B_G73:U80_B-0.984-1.7910.17520.28512.21691.751
143B_G74:C79_B-2.634-0.374-0.162-2.2622.8844.164
144B_G75:A78_B7.091-5.0030.38128.29916.928-27.488
145B_U43:C44_B6.9762.1440.558-27.478-24.65811.13
120B_U49:A32_B-0.431-0.1820.19-13.177-15.981-0.483
121B_U50:A31_B-0.661-0.067-0.1150.28-13.9214.526
124B_U53:A28_B0.133-0.1580.186-5.43-7.9165.431
130B_U60:A22_B4.312-1.9860.06-1.2491.737-107.64
134B_U65:A18_B-0.2860.3920.377-4.301-5.12311.306
137B_U68:A15_B0.468-0.176-0.359-0.088-6.235-3.657
150D_A5:U87_E0.4530.027-0.630.412-5.574-7.466
155D_A10:U12_E0.2360.080.421-4.181-5.688-0.861
157D_A12:A9_E6.75-3.2550.0417.0123.886-23.502
148D_C3:G89_E1.5210.293-0.0164.384-24.824.341
149D_C4:G88_E0.020.2580.365-1.74-7.81313.803
151D_C6:G86_E1.374-0.235-0.23514.481-19.598-2.721
152D_C7:G85_E0.6550.063-0.323-9.5154.1142.66
156D_C11:G11_E0.2160.120.591-1.26-4.8389.718
146D_G1:C91_E1.233-0.4181.48313.914-20.569-6.981
147D_G2:C90_E0.060.332-0.735-11.102-21.84-16.018
154D_G9:C13_E-0.0570.0160.285-3.862-8.4265.894
153D_U8:A14_E0.6180.2790.018-12.049-10.5034.564
176P_5CG13:C25_E-0.033-0.2750.672-14.546-14.024-5.987
159P_C15:A7_E-2.240.175-1.41523.925-26.892-2.133
160P_C16:G6_E0.0810.058-0.28713.83-18.343-11.893
162P_C18:G4_E-0.0330.495-0.1968.257-10.7145.017
164P_C20:G2_E0.832-0.181-0.84616.559-16.7751.526
165P_C21:G1_E0.216-0.1170.512.848-3.073-2.072
158P_U14:G8_E-7.398-2.614-0.7326.94-10.1411.46
161P_U17:A5_E-0.2680.206-0.2592.052-19.9542.423
163P_U19:A3_E-0.283-0.029-0.0058.729-5.747-4.062
177E_A57:A24_E-5.0743.939-0.101-8.465-16.683-158.818
178E_A59:A23_E3.8541.434-0.667-1.983-22.755-104.868
180E_A62:G21_E-7.285-4.9030.17512.5820.144-7.325
187E_A69:U84_E-1.715-0.249-0.085.526-16.1153.416
181E_C63:A20_E-2.4990.191-0.72817.923-10.7297.87
182E_C64:G19_E0.178-0.18-0.6699.77-10.0971.319
188E_C70:G83_E0.5990.2070.4183.524-16.26914.228
166E_G46:C35_E-0.1590.2140.1995.1397.0555.418
167E_G47:C34_E-0.1920.178-0.08-1.69-7.8063.028
168E_G48:C33_E-0.428-0.021-0.215-16.613-15.5153.322
171E_G51:C30_E-0.104-0.064-0.124-6.213-18.1760.473
172E_G52:C29_E-0.1110.109-0.151-8.791-19.4736.509
174E_G54:C27_E-0.5660.077-0.187-14.1-19.2165.219
175E_G55:A26_E0.3671.627-0.52514.597-12.197-15.736
184E_G66:C17_E-0.556-0.233-0.0194.29-9.6265.712
185E_G67:C16_E-0.785-0.258-0.2441.829-11.189-2.272
189E_G71:C82_E1.007-0.056-0.129-2.794-10.788-6.301
190E_G73:U80_E-1.3680.145-0.402-2.154-4.976-5.096
191E_G74:C79_E-2.4610.0010.331-9.987-23.52410.993
169E_U49:A32_E-0.209-0.161-0.062-12.38-16.838-1.239
170E_U50:A31_E-0.276-0.235-0.074-4.315-13.643-6.017
173E_U53:A28_E-0.046-0.273-0.08-0.399-8.18811.214
179E_U60:A22_E4.172-1.369-0.62.4991.878-105.592
183E_U65:A18_E-0.2340.1030.51-2.584-4.44411.128
186E_U68:A15_E-0.044-0.247-0.0781.2444.3780.891

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.