A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 21-Aug-2019 number of released structures: 10343
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NDB ID: 5CPK  PDB ID: 5CPK 


Base Pair Morphology Step Parameters

CSV Format

Model NumberStep NumberStep NameShiftSlideRiseTiltRollTwistX-DisplacementY-DisplacementHelical RiseInclinationTipHelical Twist
150II_5CM60DG61:5CM85DG86_JJ0.51.5984.5364.64929.23725.713-3.4270.1764.25749.282-7.83639.023
170II_5CM83DG84:5CM62DG63_JJ-0.2261.5313.4495.1819.79630.067-0.8651.2343.66333.698-8.81736.236
180II_5CM93DG94:5CM52DG53_JJ0.5971.0183.522-2.76121.02721.318-3.26-1.843.16944.9615.90329.983
192II_5CM109DG110:5CM36DG37_JJ0.0971.3713.941-2.17824.66730.791-1.971-0.4983.94439.4343.48239.325
1101II_5CM119DG120:5CM26DG27_JJ1.1651.7414.0415.601-3.26536.4673.286-0.9024.004-5.167-8.86437.02
1113II_5CM132DG133:5CM13DG14_JJ0.164-0.2472.7961.3623.66821.081-4.107-0.0911.70148.845-2.80631.623
11II_DA1DT2:DA144DT145_JJ0.028-1.2053.2726.04214.37639.721-3.0330.5382.67620.237-8.50542.557
14II_DA4DT5:DA141DT142_JJ-0.509-0.7073.251-3.51-7.04327.0730.2480.1993.362-14.6567.30328.173
18II_DA8DA9:DT137DT138_JJ0.5330.2292.441-14.927-4.40923.1541.212-3.61.719-9.70532.85227.839
19II_DA9DT10:DA136DT137_JJ-0.065-0.6633.4961.713-5.76540.573-0.2670.2953.548-8.259-2.45440.997
112II_DA12DT13:DA132DT134_JJ1.478-0.1335.846-2.5283.34965.811-0.363-1.545.7813.0792.32465.929
115II_DA16DA17:DT129DT130_JJ1.1950.3243.045-3.111-16.19841.0191.811-1.8572.649-22.074.23944.078
116II_DA17DT18:DA128DT129_JJ-0.748-0.8823.624-2.902-2.97525.108-1.0310.7523.762-6.7846.61825.444
120II_DA21DA23:DT123DT125_JJ0.1560.0336.448-9.5529.09164.087-0.712-0.9256.3268.4738.90265.288
121II_DA23DT24:DA122DT123_JJ0.104-0.1872.808-2.312-4.07136.3460.183-0.4382.8-6.4943.68736.636
124II_DA26DA27:DC119DT120_JJ-0.220.1943.5031.4482.26425.601-0.2450.9293.495.091-3.25725.739
127II_DA31DA32:DT114DT115_JJ1.0110.5282.968-6.7995.29229.5440.075-3.092.72510.10912.98930.748
128II_DA32DT33:DA113DT114_JJ0.274-0.5194.039-6.1183.94139.156-1.32-1.2683.8875.829.03339.801
136II_DA44DC45:DG101DT102_JJ-0.05-0.0612.838-8.9134.56927.707-0.972-1.5622.6819.1717.88729.429
139II_DA48DA49:DT97DT98_JJ-0.9910.6442.508-18.516-2.66135.5591.197-0.3312.639-4.03128.05540.039
140II_DA49DA50:DT96DT97_JJ0.012-0.3923.4923.0286.11328.318-2.1930.6753.31912.271-6.07929.112
141II_DA50DT51:DA95DT96_JJ0.187-0.6732.928-0.327-0.06324.138-1.592-0.5412.927-0.150.78324.14
145II_DA54DA55:DT91DT92_JJ-0.4120.4462.909-1.3981.98534.0210.4790.5042.9433.3872.38634.105
146II_DA55DT57:DA89DT91_JJ0.2611.856.28215.0-7.5180.2421.7780.5276.088-5.77-11.52481.686
152II_DA62DC64:DG82DT84_JJ1.4820.0545.467-10.31224.56446.388-2.545-2.7514.56728.59512.00553.125
154II_DA65DG67:DC79DT81_JJ1.4441.6987.06525.2610.25469.2221.4060.6367.1770.216-21.5373.144
159II_DA72DA73:DT73DT74_JJ-0.1670.5073.154-7.71212.76732.726-1.01-0.8363.09521.33212.88635.88
160II_DA73DT74:DA72DT73_JJ0.4-0.1963.0222.1265.40527.489-1.578-0.3632.95211.215-4.41228.085
164II_DA77DA78:DT68DT69_JJ0.8980.9313.2070.13-0.21931.7751.74-1.6183.204-0.4-0.23831.776
165II_DA78DT79:DA67DT68_JJ-0.3640.2213.478-6.7221.36235.9480.15-0.4153.4932.18210.77136.576
172II_DA85DA86:DT60DT61_JJ-0.4441.2923.305-9.874-4.62939.5412.356-0.4533.158-6.6914.26940.959
173II_DA86DT87:DA59DT60_JJ1.517-0.2673.5284.6146.27229.61-1.88-1.8653.58812.013-8.83830.594
177II_DA90DT91:DA55DT56_JJ0.078-0.6563.9878.9582.60538.367-1.3471.1713.8583.893-13.3939.444
182II_DA95DA96:DT50DT51_JJ-0.7170.9982.945-9.8410.19132.3950.167-0.2473.18617.27316.67735.281
183II_DA96DT97:DA49DT50_JJ-0.2620.043.295-7.5973.70335.748-0.451-0.6413.2695.9312.16736.702
187II_DA100DA101:DT45DT46_JJ0.286-0.0863.2123.9281.56729.086-0.5010.2693.2133.099-7.7729.386
188II_DA101DC103:DG43DT45_JJ-0.165-0.0366.5285.03415.84567.545-1.1860.5126.36314.035-4.45969.325
190II_DA104DT105:DA41DT42_JJ-0.750.6362.587-3.5-1.87431.3321.4460.862.612-3.4536.44931.576
194II_DA111DT113:DA33DT34_JJ0.360.4775.14620.1692.8251.7420.2471.5194.9793.098-22.15855.347
198II_DA116DT117:DA29DT30_JJ0.48-0.8023.143-2.029-1.54324.895-1.41-1.6883.138-3.5684.69125.023
1103II_DA121DA122:DT24DT25_JJ-0.652-0.1243.041-16.8913.53440.135-0.498-0.7073.0464.88623.3543.547
1104II_DA122DT123:DA23DT24_JJ-0.004-1.1963.883.89-6.58829.117-0.6480.9844.014-12.827-7.57330.084
1108II_DA126DT128:DA18DT20_JJ0.2921.3846.0353.103-10.00877.8751.6-0.0745.858-7.929-2.45878.465
1115II_DA134DT136:DA10DT12_JJ0.8390.0045.8417.0261.95865.287-0.141-0.2585.8921.809-6.49265.648
1119II_DA140DT142:DA4DT6_JJ1.5662.0376.342-5.558-8.93575.0842.167-1.5925.994-7.2974.5475.71
13II_DC3DA4:DT142DG143_JJ-0.590.6472.989-2.786-2.25342.7811.0880.5542.984-3.0823.81142.924
111II_DC11DA12:DT134DG135_JJ-0.225-0.7012.61127.801-1.2216.158-1.0964.2971.16-2.65-60.37532.099
137II_DC45DC47:DG99DG101_JJ-1.3071.9796.8426.539-1.29564.1761.9681.7996.659-1.215-6.13764.485
138II_DC47DA48:DT98DG99_JJ0.1012.7093.808-4.8372.19455.222.76-0.4413.8842.3615.20455.455
153II_DC64DA65:DT81DG82_JJ0.3130.9142.9634.021-4.68443.5931.616-0.0782.871-6.27-5.38244.006
156II_DC68DT69:DA77DG78_JJ-0.0511.1214.04-13.751.18534.0681.578-2.273.8151.92722.36436.681
158II_DC70DA72:DT74DG76_JJ-0.4840.5866.7763.11916.25268.369-0.70.6536.72914.252-2.73570.106
167II_DC80DT81:DA65DG66_JJ-0.424-0.033.287-6.578-4.22331.3480.71-0.4283.282-7.66711.94332.285
189II_DC103DA104:DT42DG43_JJ0.2860.1043.811-7.37415.12834.104-2.106-1.5453.42524.06311.72937.92
1110II_DC129DT130:DA16DG17_JJ-1.7460.9212.9215.17610.19424.053-0.4015.0152.65922.88-11.61626.596
16II_DG6DG7:DC139DC140_JJ-1.230.2533.4354.8027.46226.386-1.3173.7463.1215.79-10.16227.813
17II_DG7DA8:DT138DC139_JJ-0.769-0.053.568-2.1616.05540.83-0.7830.8363.568.6143.07441.312
114II_DG15DA16:DT130DC131_JJ-1.4940.7273.6-9.548-15.88939.8512.6680.9853.349-21.93213.1843.792
118II_DG19DG20:DC126DC127_JJ0.9891.1243.47911.2616.39751.6540.8-0.3023.717.213-12.69753.145
119II_DG20DA21:DT125DC126_JJ-1.964-1.1193.3175.2849.37529.482-3.6854.5452.47417.695-9.97431.344
123II_DG25DA26:DT120DC121_JJ-0.3641.2673.439-0.6941.88341.4811.5750.4353.4962.6560.9841.527
125II_DG29DG30:DC116DC117_JJ-0.9840.8432.665-14.49812.69928.369-0.457-0.4852.93722.87726.11734.185
126II_DG30DA31:DT115DC116_JJ-1.1780.3583.237-8.1487.6832.032-0.6810.6483.4213.41614.23433.884
131II_DG38DT40:DA106DC107_JJ-0.44-1.8426.0725.6825.97251.608-2.8131.1855.7656.809-6.47952.217
134II_DG42DG43:DC103DC104_JJ-0.131-0.0073.6769.2916.10432.108-1.111.8953.44810.645-16.20333.93
135II_DG43DA44:DT102DC103_JJ0.379-0.0113.59313.59110.11635.041-1.4071.2993.38215.716-21.11738.806
143II_DG52DG53:DC93DC94_JJ-0.3080.8142.629-10.67211.30725.977-0.448-1.3062.67422.74521.46730.205
144II_DG53DA54:DT92DC93_JJ-0.64-0.0173.956-0.1328.85429.528-2.1251.1743.79416.8980.25230.799
151II_DG61DA62:DT845CM85_JJ-2.0342.5772.825-8.32812.89446.7112.1131.813.66415.77110.18649.034
155II_DG67DC68:DG78DC79_JJ0.1521.2413.21712.2757.8631.4770.8261.7143.26113.612-21.25834.61
162II_DG75DG76:DC70DC71_JJ-0.4970.2193.1227.5913.8529.106-0.3132.3922.9077.461-14.71230.299
163II_DG76DA77:DT69DC70_JJ0.3551.1034.01611.242-4.6943.6491.9470.7693.857-6.166-14.77945.237
171II_DG84DA85:DT615CM62_JJ-0.1161.1083.1881.88713.97924.143-1.2610.7213.30430.334-4.09627.909
175II_DG88DG89:DC57DC58_JJ0.254-0.4482.845-8.283-4.93132.375-0.074-1.6082.736-8.60814.4633.743
176II_DG89DA90:DT56DC57_JJ0.079-0.6673.4031.804-14.50834.3391.0480.1373.403-23.308-2.89937.236
181II_DG94DA95:DT515CM52_JJ0.350.6893.2813.62315.50437.942-0.796-0.0843.32422.665-5.29741.033
185II_DG98DT99:DA47DC48_JJ0.3761.9062.8445.491-14.65540.113.742-0.0872.087-20.45-7.66342.938
193II_DG110DA111:DT345CM36_JJ0.4631.9343.287-24.815-17.78162.2812.328-1.2662.413-16.20422.61468.679
196II_DG114DG115:DC31DC32_JJ0.2821.0953.808-5.12416.55525.629-2.005-1.7883.70732.9510.19830.857
197II_DG115DA116:DT30DC31_JJ-0.3410.5783.62-4.56620.85836.656-1.703-0.0753.4730.2276.61642.236
1102II_DG120DA121:DT255CM26_JJ-0.4962.5262.816-8.076-2.65340.9943.775-0.0252.701-3.73911.38541.829
1106II_DG124DG125:DC21DC22_JJ-0.6270.6763.3575.32915.75535.52-1.01.6163.24124.253-8.20339.107
1107II_DG125DA126:DT20DC21_JJ-0.8590.1413.46-1.3317.39722.174-2.3521.6323.37418.563.33923.399
1114II_DG133DA134:DT125CM13_JJ-1.0180.2083.837-8.467-2.92128.61.136-0.1573.931-5.73816.63229.942
1117II_DG137DG138:DC8DC9_JJ-0.2770.7653.8824.88910.7345.583-0.1110.8353.90913.583-6.18947.005
1118II_DG138DA140:DT6DC8_JJ-0.9090.6776.089-13.0036.77570.5460.144-0.0566.1915.80311.13871.86
12II_DT2DC3:DG143DA144_JJ0.543-0.2483.489-1.3832.96534.358-0.906-1.1423.4325.0052.33434.508
15II_DT5DG6:DC140DA141_JJ1.4471.5982.8328.229-1.97846.2042.152-1.2092.967-2.496-10.38446.931
110II_DT10DC11:DG135DA136_JJ0.121-0.2124.204-15.987-2.57841.250.028-2.0883.907-3.50121.71144.185
113II_DT13DG15:DC131DA132_JJ0.497-0.2993.5916.5620.11951.316-1.550.4993.28621.711-17.87157.151
117II_DT18DG19:DC127DA128_JJ1.1990.073.4486.315-27.96335.1922.842-0.9422.839-39.219-8.85745.102
122II_DT24DG25:DC121DA122_JJ0.1820.1843.7194.5810.61734.1240.2010.5063.7141.045-7.76334.426
129II_DT36DT37:DA109DA110_JJ0.420.5153.440.4985.17933.611-0.001-0.6343.4848.889-0.85634.0
130II_DT37DG38:DC107DA109_JJ0.8351.6794.36-5.959-32.06964.9112.778-0.9623.26-28.1195.22571.836
132II_DT40DT41:DA105DA106_JJ0.036-0.0153.0126.819-4.69134.2660.6190.8772.941-7.82-11.36935.222
133II_DT41DG42:DC104DA105_JJ0.672-0.1993.049-11.1831.52637.15-0.469-2.2492.7312.3317.07638.769
142II_DT51DG52:DC94DA95_JJ-0.3740.8113.513-0.51113.18136.986-0.5580.4893.5920.0130.77539.191
147II_DT57DT58:DA88DA89_JJ0.7411.4833.1289.361.27347.0821.725-0.1833.2471.574-11.58147.968
148II_DT58DT59:DA87DA88_JJ1.4731.6513.659-2.129-17.70332.4784.966-2.6092.378-29.0813.49736.935
149II_DT595CM60:DG86DA87_JJ0.4190.4943.04620.28311.96726.333-0.9922.3752.69821.578-36.57235.189
157II_DT69DC70:DG76DA77_JJ-0.0020.3493.554-1.8741.48943.1350.316-0.1973.562.0232.54743.198
161II_DT74DG75:DC71DA72_JJ-0.581.2432.984-8.2742.83936.7531.574-0.1143.1224.42612.89937.745
166II_DT79DC80:DG66DA67_JJ0.7310.5423.4057.088-10.93943.9161.692-0.2973.262-14.258-9.23845.718
168II_DT81DT82:DA64DA65_JJ0.904-0.2563.4468.5695.6732.853-1.392-0.0793.4759.732-14.70834.38
169II_DT825CM83:DG63DA64_JJ0.473-0.0673.1277.44712.96433.626-1.8290.2382.94321.158-12.15436.712
174II_DT87DG88:DC58DA59_JJ-0.5691.7233.326-2.541-15.37450.2052.9120.4852.748-17.6372.91452.418
178II_DT91DT92:DA54DA55_JJ0.507-0.2753.2061.2027.01231.222-1.733-0.7083.08912.819-2.19732.003
179II_DT925CM93:DG53DA54_JJ-0.3780.2242.7875.3816.13828.791-0.6471.682.66512.041-10.55729.902
184II_DT97DG98:DC48DA49_JJ0.0851.1993.2386.8081.62137.3131.6370.743.252.506-10.52737.941
186II_DT99DA100:DT46DA47_JJ0.2331.1513.182-4.0610.87436.311.719-0.9173.1641.3966.49136.538
191II_DT105DT106:DA40DA41_JJ-0.574-0.6514.2717.52111.44634.078-3.0162.2153.66818.625-12.23936.651
195II_DT113DG114:DC32DA33_JJ-1.0271.3474.00117.98120.3523.534-1.5925.0162.90237.337-32.9935.79
199II_DT117DT118:DA28DA29_JJ-0.4981.3843.3944.757-10.47950.8282.2730.8833.018-12.032-5.46252.03
1100II_DT1185CM119:DG27DA28_JJ0.9930.6913.2497.789-1.03735.5091.255-0.483.364-1.674-12.58136.34
1105II_DT123DG124:DC22DA23_JJ1.1890.9513.42316.49-1.87344.0331.3670.0213.585-2.4-21.12446.911
1109II_DT128DC129:DG17DA18_JJ2.2072.413.64810.392-10.09755.1043.158-1.6753.524-10.709-11.02156.832
1111II_DT130DT131:DA15DA16_JJ0.7770.5953.784-4.028-4.26332.6831.851-2.1243.562-7.57.08733.191
1112II_DT1315CM132:DG14DA15_JJ0.5691.6063.3241.555-5.28755.9652.004-0.5163.186-5.619-1.65256.213
1116II_DT136DG137:DC9DA10_JJ0.2640.0322.9378.42512.44928.607-1.970.8982.69223.274-15.75132.242
1120II_DT142DG143:DC3DA4_JJ-1.20.3294.21414.29819.61843.09-1.4772.8073.51224.531-17.87949.173

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.