A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 29-Jun-2022 number of released structures: 12153
Search for released structures

NDB ID: PH0049  PDB ID: 3E3J 


Base Pair Morphology Parameters

CSV Format

Model NumberPair NumberPair NameShearStretchStaggerBucklePropellorOpening
19T_DA10:U6_R-0.243-0.070.35-0.63622.395-2.203
118T_DA23:DT110_N0.757-0.124-0.220.261-19.5772.573
124T_DA29:DT104_N-0.779-0.024-0.404-2.067-27.4315.545
127T_DA32:DT101_N0.6290.427-0.257-7.617-19.413-9.065
12T_DC2:DG131_N0.317-0.1360.040.3474.185-6.542
13T_DC3:DG130_N0.317-0.1360.0380.3854.185-6.572
110T_DC11:G5_R0.078-0.0160.340.73722.475-0.413
112T_DC13:G3_R0.1120.1050.2641.74221.783-0.261
113T_DC14:G2_R0.130.1180.2161.79621.191-0.154
114T_DC15:G1_R0.1320.1310.1691.55520.63-0.026
121T_DC26:DG107_N0.401-0.2550.39-10.711-15.059-4.899
11T_DG1:DC132_N-0.317-0.1350.038-0.3434.188-6.561
14T_DG4:DC129_N-0.316-0.1360.041-0.3284.192-6.553
115T_DG20:DC113_N0.4170.8640.414-7.426-18.1089.58
117T_DG22:DC111_N0.189-0.104-0.0545.071-0.437-3.842
119T_DG24:DC109_N-0.129-0.0240.3980.373-6.61-5.224
122T_DG27:DC106_N-0.6460.1890.768-9.306-9.8118.305
15T_DT5:DA128_N0.076-0.090.015-0.0394.333-7.806
16T_DT6:DA127_N0.078-0.0890.02-0.0724.382-7.831
17T_DT8:A8_R1.2260.291-1.37121.3130.00815.048
18T_DT9:A7_R0.09-0.1530.352-0.66421.923-2.296
111T_DT12:A4_R-0.080.1150.330.93422.373-2.424
116T_DT21:DA112_N-0.4640.0430.755-15.457-6.84713.509
120T_DT25:DA108_N0.64-0.046-0.0871.593-17.029-7.532
123T_DT28:DA105_N0.327-0.1810.7015.039-7.113.621
125T_DT30:DA103_N0.2740.3220.2091.447-24.97318.177
126T_DT31:DA102_N-0.27-0.04-0.1823.614-17.1938.76
142X_DA23:DT110_Y0.756-0.124-0.2170.207-19.5412.552
148X_DA29:DT104_Y-0.777-0.027-0.4-2.047-27.4655.503
151X_DA32:DT101_Y0.6320.421-0.267-7.788-19.544-8.986
129X_DC2:DG131_Y0.318-0.1360.0380.3534.207-6.557
130X_DC3:DG130_Y0.317-0.1360.0370.3484.214-6.548
137X_DC11:G5_Z3.5280.3761.0253.7721.91422.448
138X_DC13:G3_Z2.9780.7451.602-18.358-8.67231.74
145X_DC26:DG107_Y0.404-0.2570.388-10.708-15.083-4.808
128X_DG1:DC132_Y-0.316-0.1360.037-0.3564.212-6.566
131X_DG4:DC129_Y-0.318-0.1350.039-0.3344.214-6.533
139X_DG20:DC113_Y0.5960.675-0.433-19.738-12.6465.507
141X_DG22:DC111_Y0.19-0.104-0.0575.035-0.45-3.842
143X_DG24:DC109_Y-0.131-0.0230.3980.324-6.647-5.186
146X_DG27:DC106_Y-0.6480.1880.771-9.315-9.8458.299
132X_DT5:DA128_Y0.076-0.0890.02-0.0814.336-7.801
133X_DT6:DA127_Y0.076-0.0890.018-0.0564.326-7.825
134X_DT7:DA126_Y-1.580.412-0.1396.64811.736-23.336
135X_DT8:A8_Z-0.867-0.6570.2081.381-3.1253.271
136X_DT9:A7_Z-0.6570.0390.37118.0698.483-2.824
140X_DT21:DA112_Y-0.4630.0470.758-15.561-6.86213.512
144X_DT25:DA108_Y0.639-0.045-0.0881.63-17.042-7.515
147X_DT28:DA105_Y0.324-0.1890.7094.878-7.1583.532
149X_DT30:DA103_Y0.2690.3180.211.361-24.93418.181
150X_DT31:DA102_Y-0.27-0.039-0.1843.583-17.1728.79

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.