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: 5B2J  PDB ID: 5B2J 


Base Pair Morphology Parameters

CSV Format

Model NumberPair NumberPair NameShearStretchStaggerBucklePropellorOpening
112I_5CM-61:DG61_J1.488-0.2710.2012.987-14.3457.282
165I_5CM-5:DG5_J0.678-0.365-0.2284.715-0.38-1.236
175I_5CM5:DG-5_J0.676-0.340.13114.176-21.2020.332
1130I_5CM61:DG-61_J1.847-0.097-0.4418.244-18.85610.567
11I_DA-72:DT72_J0.296-0.0020.071-25.156-16.2388.773
14I_DA-69:DT69_J0.229-0.0640.1344.233-14.3839.311
15I_DA-68:DT68_J0.475-0.0220.4375.576-18.9755.596
17I_DA-66:DT66_J0.876-0.3430.8078.983-19.682-2.288
111I_DA-62:DT62_J0.538-0.2290.1676.962-13.436-17.918
118I_DA-55:DT55_J0.346-0.0450.106-1.7-16.0584.254
121I_DA-51:DT51_J1.5690.310.207-8.264-13.99215.116
125I_DA-45:DT45_J0.042-0.1450.29510.066-17.4770.524
126I_DA-44:DT44_J0.147-0.1560.57811.226-7.153-0.984
127I_DA-43:DT43_J0.521-0.3171.09115.001-13.6271.791
132I_DA-38:DT38_J0.8980.5120.477-0.284-10.8573.977
138I_DA-32:DT32_J-0.743-0.075-1.16614.753-32.6222.244
139I_DA-31:DT31_J-1.4230.024-0.37412.129-37.1126.945
140I_DA-30:DT30_J-0.3940.4320.096-4.287-42.77212.756
146I_DA-24:DT24_J0.2060.0850.68313.0472.2111.76
147I_DA-23:DT23_J0.3390.3151.47223.621-12.3210.931
151I_DA-19:DT19_J1.326-0.132-1.3610.328-24.7226.872
152I_DA-18:DT18_J1.041-0.324-0.7713.855-21.5012.698
153I_DA-17:DT17_J0.972-0.1840.248-10.46-10.4230.645
154I_DA-16:DT16_J0.465-0.430.064-12.154-19.1830.16
158I_DA-12:DT12_J-1.9220.616-0.093-22.642-43.59939.167
164I_DA-6:DT6_J0.267-0.0350.003-6.004-32.347-1.933
169I_DA-1:DT1_J-0.015-0.050.1975.639-14.9545.867
170I_DA0:DT0_J0.366-0.139-0.023-6.439-13.7523.575
174I_DA4:DT-4_J0.677-0.1350.6947.608-24.48-7.43
179I_DA9:DT-9_J-0.161-0.0850.1492.502-18.2792.816
180I_DA10:DT-10_J0.584-0.108-0.202-0.486-14.4634.148
182I_DA12:DT-12_J0.477-0.0940.2063.566-16.6375.224
192I_DA22:DT-22_J-0.137-0.052-0.281-19.981-14.6969.891
196I_DA26:DT-26_J0.675-0.4250.94.672-36.704-1.891
199I_DA29:DT-29_J-0.0660.294-0.083-11.685-18.57612.014
1106I_DA36:DT-36_J-0.076-0.5871.0521.723-17.063-3.531
1107I_DA37:DT-37_J0.404-0.2611.48718.88-4.8180.272
1108I_DA38:DT-38_J-0.041-0.0661.1061.503-13.7666.39
1110I_DA40:DT-40_J-1.038-0.007-0.303-5.701-16.93416.073
1112I_DA42:DT-42_J0.216-0.2790.5412.013-15.1591.993
1121I_DA51:DT-51_J-1.266-0.0890.277-6.178-14.81912.369
1123I_DA54:DT-54_J0.6460.17-0.375-2.654-28.2589.107
1129I_DA60:DT-60_J-0.749-0.111-0.28-10.827-25.54111.512
1135I_DA66:DT-66_J-0.133-0.083-0.131-0.812-10.341.361
1137I_DA68:DT-68_J0.207-0.2660.361-7.016-12.3790.937
1141I_DA72:DT-72_J0.707-0.180.18711.655-3.592-3.553
13I_DC-70:DG70_J1.1170.475-0.4131.597-11.8822.149
19I_DC-64:DG64_J-0.8130.0080.228-4.846-18.93.745
110I_DC-63:DG63_J-1.1450.6130.141-1.46-12.9823.308
116I_DC-57:DG57_J0.724-0.101-0.0866.515-17.4573.855
117I_DC-56:DG56_J-0.9070.2980.59-2.628-30.08210.56
123I_DC-48:DG48_J-0.3040.5610.856-4.306-16.12610.12
124I_DC-47:DG47_J-0.2010.423-0.27131.994-20.6347.881
141I_DC-29:DG29_J-0.1680.3580.688-1.758-28.82213.488
143I_DC-27:DG27_J1.149-0.093-0.70521.639-38.78117.092
144I_DC-26:DG26_J0.2770.1151.585-16.4744.86412.836
148I_DC-22:DG22_J0.0910.5270.15424.738-15.4430.062
157I_DC-13:DG13_J0.3090.0851.0223.549-9.9677.592
163I_DC-7:DG7_J0.290.106-0.49417.627-11.0484.732
173I_DC3:DG-3_J0.089-0.1290.171-0.868-13.1662.226
181I_DC11:DG-11_J0.0150.0030.231-1.341-8.4825.997
185I_DC15:DG-15_J0.086-0.0820.7561.271-34.9182.138
186I_DC16:DG-16_J0.248-0.1920.971-19.235-8.896-1.819
191I_DC21:DG-21_J0.7230.076-0.591-2.691-12.6913.398
1104I_DC34:DG-34_J-0.9210.4450.001-9.8896.48711.586
1105I_DC35:DG-35_J-0.051-0.1451.061-0.947-14.808-0.538
1111I_DC41:DG-41_J-0.888-0.306-0.048-7.335-19.571-1.261
1113I_DC43:DG-43_J0.793-0.0150.379-2.216-17.65313.387
1124I_DC55:DG-55_J1.1920.1860.702-2.051-28.92122.966
1128I_DC59:DG-59_J-0.8270.2830.507-6.805-11.5062.643
113I_DG-60:5CM60_J0.0670.081-0.0433.48-20.51713.008
115I_DG-58:DC58_J-0.6910.087-0.089-10.33-15.196-5.648
119I_DG-54:DC54_J-1.0480.197-0.419-9.889-33.80721.928
128I_DG-42:DC42_J-1.2060.1880.17-1.262-8.73313.931
130I_DG-40:DC40_J-0.051-0.11-0.148-1.674-25.72110.313
136I_DG-34:DC34_J0.4110.254-0.055-20.169-33.3720.517
137I_DG-33:DC33_J1.2310.693-0.1545.4453.60817.643
150I_DG-20:DC20_J-1.0-0.463-0.40421.625-7.937.181
155I_DG-15:DC15_J0.357-0.087-0.195-8.485-13.5966.066
156I_DG-14:DC14_J-1.341-0.642.28126.19116.2566.492
160I_DG-10:DC10_J0.262-0.163-0.274-8.789-10.785.261
166I_DG-4:5CM4_J-0.3020.354-0.105-9.305-17.8094.099
168I_DG-2:DC2_J-0.155-0.123-0.091-2.843-15.651.612
176I_DG6:5CM-6_J-0.531-0.376-0.183-12.866-15.942-0.919
178I_DG8:DC-8_J-0.337-0.0030.1651.432-6.4087.577
184I_DG14:DC-14_J0.207-0.3940.5248.6617.9792.426
193I_DG23:DC-23_J0.1020.3090.079-11.017-10.7983.961
197I_DG27:DC-27_J-0.077-0.1421.21818.9717.4253.098
198I_DG28:DC-28_J-0.241-0.0630.8458.701-20.8820.918
1100I_DG30:DC-30_J0.2730.2970.07-6.935-18.53617.106
1118I_DG48:DC-48_J-0.6060.814-1.08-36.869-26.71515.482
1119I_DG49:DC-49_J0.2420.275-0.342-11.766-15.623-2.169
1126I_DG57:DC-57_J0.465-0.121.1829.582-22.2730.795
1127I_DG58:DC-58_J-0.351-0.1030.012-15.675-20.772-0.272
1131I_DG62:5CM-62_J-0.473-0.184-0.197-2.964-3.008-1.875
1133I_DG64:DC-64_J-0.366-0.614-0.337-3.534-11.23-4.141
1134I_DG65:DC-65_J1.3630.395-0.4012.608-12.12122.038
1140I_DG71:DC-71_J-0.3190.3050.64815.676-2.1289.845
12I_DT-71:DA71_J-0.90.166-0.158-6.774-6.0654.884
16I_DT-67:DA67_J0.02-0.1960.28513.437-17.043.142
18I_DT-65:DA65_J0.646-0.16-0.0980.158-18.452-3.028
114I_DT-59:DA59_J0.9390.015-0.1974.135-41.31725.182
120I_DT-53:DA53_J-0.880.067-0.0421.217-23.99710.381
122I_DT-50:DA50_J0.4260.1060.095-3.134-27.34922.065
129I_DT-41:DA41_J0.059-0.1220.2560.744-4.7161.554
131I_DT-39:DA39_J0.394-0.471-0.6086.412-15.1135.854
133I_DT-37:DA37_J-0.256-0.1361.4490.715-15.7734.471
134I_DT-36:DA36_J-0.02-0.4031.031-3.601-8.6391.385
135I_DT-35:DA35_J0.021-0.0531.142-13.529-11.053.409
142I_DT-28:DA28_J-1.2320.411-0.1322.158-15.36115.921
145I_DT-25:DA25_J0.085-0.4370.946-1.955-36.0280.388
149I_DT-21:DA21_J0.542-0.0510.62244.014-23.438-1.366
159I_DT-11:DA11_J0.105-0.1530.01-4.193-20.5454.113
161I_DT-9:DA9_J-0.372-0.0890.707-14.951-15.7945.661
162I_DT-8:DA8_J-0.105-0.0160.095-2.308-15.6573.477
167I_DT-3:DA3_J-0.278-0.0520.198-1.224-15.751.502
171I_DT1:DA-1_J0.334-0.0420.29-3.388-13.9843.774
172I_DT2:DA-2_J-0.683-0.165-0.11-6.069-12.6946.492
177I_DT7:DA-7_J-0.179-0.0090.029-5.08-16.8252.804
183I_DT13:DA-13_J-0.202-0.1920.459-0.05-10.5864.399
187I_DT17:DA-17_J-0.949-0.0850.703-17.894-33.399-0.342
188I_DT18:DA-18_J0.591-0.0720.169-7.871-22.1254.26
189I_DT19:DA-19_J-0.0610.031-0.061-12.332-16.87511.562
190I_DT20:DA-20_J-0.375-0.048-0.209-5.623-10.8045.866
194I_DT24:DA-24_J-0.385-0.2051.066-12.994-8.1263.145
195I_DT25:DA-25_J-0.167-0.0320.264-0.4474.0126.621
1101I_DT31:DA-31_J-0.786-0.330.5850.534-32.3643.174
1102I_DT32:DA-32_J-0.21-0.0880.5181.316-23.27914.364
1103I_DT33:DA-33_J-0.534-0.141-0.142-11.632-24.208-1.023
1109I_DT39:DA-39_J0.350.38-0.07612.093-12.1876.086
1114I_DT44:DA-44_J-0.8620.0190.438-20.59-22.5795.66
1115I_DT45:DA-45_J0.306-0.171.161-27.704-9.655-1.299
1116I_DT46:DA-46_J-0.306-0.1960.401-13.415-17.6455.365
1117I_DT47:DA-47_J-0.2060.3330.728-26.392-44.3494.811
1120I_DT50:DA-50_J0.1410.144-0.3685.268-28.29312.348
1122I_DT52:DA-52_J0.1430.553-0.0917.283-13.0696.204
1125I_DT56:DA-56_J-0.9260.5720.5691.475-12.4315.403
1132I_DT63:DA-63_J0.7720.0960.336-7.313-15.9777.428
1136I_DT67:DA-67_J-0.429-0.1110.1185.286-14.5364.863
1138I_DT69:DA-69_J-0.63-0.3410.34-6.605-18.5280.283
1139I_DT70:DA-70_J0.125-0.0280.045-7.309-5.5368.31
1142I_DT73:DA-73_J1.736-0.1040.22313.115-19.46212.865

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.