A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 27-Oct-2021 number of released structures: 11731
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NDB ID: 5NDW  PDB ID: 5NDW 


Base Pair Morphology Step Parameters

CSV Format

Model NumberStep NumberStep NameShiftSlideRiseTiltRollTwistX-DisplacementY-DisplacementHelical RiseInclinationTipHelical Twist
1411_A6C7:G152U153_44-0.434-1.2053.071-0.1740.59849.583-1.4770.5053.0590.7130.20749.586
1911_A11A12:U146U147_440.017-1.0943.145-1.7213.83636.581-2.225-0.2483.0156.0872.7336.814
11011_A12A13:U145U146_44-0.627-0.8013.3673.7764.89337.176-1.8781.4623.1637.61-5.87337.669
11111_A13C15:G144U145_440.507-2.5253.073-1.321-3.05532.406-3.985-1.1283.268-5.4562.35932.572
11311_A16G17:C142U143_440.46-1.5263.4054.7616.3628.718-5.219-0.0592.27829.892-8.69833.301
11711_A20G21:A138U139_44-0.735-1.0452.858-4.9235.14128.471-3.0230.5332.71710.2519.81729.329
14311_A26G330:A33G59_413.3420.14-1.07214.526171.861158.8510.164-1.679-0.97785.994-7.268178.62
13111_A45U46:U37U38_110.993-1.5913.7394.36412.9447.723-2.951-0.8313.30215.624-5.2749.529
13411_A48U50:A34A35_112.379-1.7990.913117.724132.283-67.8630.6561.4070.313-66.62359.291-177.578
13611_A51A52:U32G33_110.316-0.9983.003-9.7983.55143.561-1.602-1.2182.7884.70512.98244.731
13711_A52G53:C31U32_11-1.001-1.5943.629-12.2456.54252.382-2.2040.2573.5557.26613.60154.064
19011_A65G110:C321U322_111.979-2.4253.975-8.68614.25585.123-2.134-1.6663.44210.4516.36886.436
17311_A66C68:G75G76_110.5040.082.556-2.14714.09558.822-0.461-0.5842.49714.1252.15260.374
18811_A77G64:A323A324_11-0.538-2.893-2.44101.927-126.192-65.1620.312-1.197-2.93166.26753.525-165.031
17511_A95G96:C90G91_111.963-1.5413.0169.4534.29350.764-2.043-1.6393.1784.948-10.89651.746
17911_A99A100:A85U87_110.8640.3742.8856.6923.16-85.059-0.3390.7712.812-2.3334.942-85.319
18011_A100G101:U84A85_111.187-3.236-1.043-147.5-101.424-66.5181.2621.112-1.28750.839-73.935-179.169
18611_A106A325:U78U79_11-4.481-2.045-1.039-166.10951.547136.896-1.0042.30.38125.83683.257177.768
19511_A114A115:U153U154_112.534-0.7193.196-8.51212.42126.663-3.389-6.1971.81724.59916.85730.554
19611_A122A123:U149G148_113.553.1343.4483.41511.639-15.319-12.85111.5290.237-37.010.856-19.518
110311_A130C131:G137U138_110.505-1.6573.2522.1798.72429.857-4.634-0.5532.716.468-4.11431.152
110511_A157G158:C263G264_111.177-0.8943.944-6.4251.41761.854-0.943-1.493.7981.3746.23262.169
110711_A159G160:U261U262_11-0.519-1.9112.727-4.5115.98626.911-5.080.2342.3112.5569.46127.916
111211_A165C166:G256U257_11-0.23-1.6383.288.22411.78621.625-6.4962.4981.93627.804-19.40125.918
113311_A211A187:G227U228_11-3.193-1.7743.80410.8791.462-59.0981.683-2.5184.316-1.46810.927-60.018
113811_A222U223:G206U207_110.431-1.3643.424-2.196-3.79946.671-1.381-0.7353.496-4.7832.76546.866
115011_A268U270:A295A296_112.259-2.3510.774112.262125.65624.413-1.391-0.947-0.07866.206-59.149168.761
115411_A273G274:C291U292_11-0.358-1.4623.4050.577.13939.448-2.9520.5883.09910.471-0.83640.068
18711_A325A77:A324U78_110.895-1.522-3.015-8.671-7.276153.362-0.805-0.432-3.008-3.7384.455153.494
14811_A334G335:C28U29_44-0.442-1.8713.3481.5986.06429.028-4.881.1872.87911.922-3.14229.683
15011_A336G337:U26U27_44-0.266-1.5692.749-2.2647.56628.341-4.3620.1442.27715.0864.51529.399
15511_A342G368:C21U22_441.974-1.0933.746-14.07211.7872.812-1.292-2.0943.1939.77311.67574.778
118011_A352U354:A365A366_110.646-3.536-0.234123.441126.019117.528-1.618-0.471-1.27563.196-61.903178.136
118211_A355C356:G363G364_11-0.761-0.8493.116-5.4335.23265.385-0.9850.493.0964.8265.01265.771
15711_A369G404:C19U20_44-1.226-0.8763.280.59616.82927.712-4.3462.2992.35131.699-1.12332.341
118411_A378C379:G390A391_110.378-1.3443.03.0281.99961.68-1.394-0.2392.9731.948-2.95161.776
114711_A395A399:A375A372_11-0.0610.056.158-4.9471.82110.083-0.011-0.0766.1571.113.017110.168
114911_A397C403:G376A374_111.81-2.772-5.11-171.78613.2176.098-1.2041.486-4.7416.71887.365173.933
114811_A399A397:A374A375_11-0.297-0.0483.1490.6021.23-46.221-0.04-0.3293.153-1.5670.767-46.241
16111_A407A408:G15G16_44-0.658-0.4942.37-12.3318.88628.161-2.102-0.4762.21116.80423.31731.928
16211_A408A409:C14G15_44-1.417-0.2552.470.423-0.83739.76-0.3022.122.46-1.231-0.62239.771
16311_A409U410:A13C14_442.077-0.8454.165-6.91822.29360.757-1.933-2.2963.47321.226.58564.685
17011_A416A417:U6U7_440.849-1.0853.0642.33916.47726.16-4.774-1.2042.09632.546-4.62130.927
17111_A417A418:U5U6_44-0.316-1.3472.761-6.2935.40430.95-3.242-0.3592.519.90511.53532.016
17211_A418G419:C4U5_44-0.34-1.1523.65712.62812.76135.489-3.2672.0532.82419.474-19.27139.641
119911_A428U429:A630U631_11-0.134-0.7283.1762.19214.76530.561-3.4380.5552.5526.145-3.88133.933
120411_A433U434:G625U626_110.209-1.4443.414-1.1524.45237.659-2.802-0.4723.2216.8651.77737.929
120711_A436G437:A622U623_110.568-2.0763.635-0.015.64442.072-3.482-0.7853.3427.8190.01442.432
121111_A498G499:C614U615_11-0.403-1.9132.741-1.4151.38433.738-3.4770.5032.6772.3822.43533.795
121411_A501U502:A611U612_110.074-0.8512.9026.670.39630.566-1.6460.9852.8430.741-12.46631.271
121711_A504G505:C586U587_11-0.573-1.3493.54-2.44316.06437.807-3.6970.5482.79723.513.57641.034
122911_A516G517:C573U574_11-0.031-1.2743.185-4.2546.74827.609-3.98-0.8282.77613.7798.68728.717
123211_A521A522:A570U571_11-0.259-2.4472.697-3.708-21.07144.993-1.370.0363.465-25.8784.55449.582
123311_A522A523:A569A570_110.648-3.593.2567.1562.82336.232-6.025-0.0833.0474.477-11.3537.013
123411_A523U524:G568A569_112.402-2.5023.204-2.992-1.00531.791-4.372-4.8843.046-1.835.44531.943
123811_A527U528:G564U565_110.161-1.3723.296-3.1273.58143.057-2.204-0.523.1584.8614.24543.306
124011_A529G530:C562U563_110.805-1.6363.45910.81112.90236.593-3.8750.0792.86519.342-16.20740.158
124311_A532U556:A559G560_11-1.628-4.9380.609-119.451-106.80969.531-1.683-0.0844.034-56.2162.863163.793
124511_A537G538:U553A554_11-0.458-0.6363.762-1.0820.55860.44-0.6630.3953.7630.5541.07560.451
125311_A598C599:G604U605_11-0.98-1.2093.0621.7985.33733.618-2.8271.932.7899.147-3.08234.073
125611_A645A649:U640C641_112.779-1.7572.731-2.283-7.52290.641-1.108-1.9882.784-5.2811.60390.908
125711_A649C650:G639U640_11-0.585-0.7283.0365.21315.16936.871-2.5841.3772.46222.711-7.80440.098
128111_A665A666:U796U797_110.222-1.1143.499-0.89617.13532.688-4.08-0.4732.60928.1581.47236.809
128211_A666C667:G795U796_110.842-3.0473.2472.1744.75321.075-9.79-1.4592.57812.743-5.82921.706
128811_A672U673:A789U790_111.074-1.2253.2657.26116.09223.882-5.585-0.6612.24633.625-15.17229.623
129111_A677G678:C702G703_11-1.47-3.543.0488.978-126.10277.345-0.5121.6533.509-66.917-47.217160.027
129911_A706U707:G712U713_110.547-1.1023.126-1.6869.23435.211-2.933-1.092.73214.9392.72736.402
130111_A736G737:C732G733_111.629-0.9022.333.6650.11350.416-1.062-1.7192.4330.133-4.29650.54
130311_A738G739:C730U731_11-0.44-1.673.3812.69312.71329.765-5.071.2282.43523.395-4.95532.419
130811_A744C745:G725G726_110.444-0.463.522-1.77115.39559.249-1.234-0.5273.3115.2891.75961.064
131011_A746A747:U723U724_110.522-1.5273.2029.0712.37730.394-4.4340.4392.46621.938-16.07733.966
131111_A747U748:G722U723_110.16-1.4943.3323.93915.42635.904-3.9580.2022.5123.646-6.03739.169
131511_A751C752:G781U782_110.121-2.5343.4431.3233.37138.115-4.295-0.0153.2185.147-2.0238.28
131911_A755U756:A775U777_111.137-1.3562.761-12.54613.50239.798-2.772-2.4111.8118.6717.34943.701
132511_A761U762:G769G770_11-0.022-1.4052.827-16.1163.10126.812-3.095-2.5362.36.02431.30631.357
132811_A806A807:G934U935_113.732.593-2.01-15.269-165.63-87.378-1.5771.8980.71484.908-7.827-170.128
132911_A807A808:U932G934_11-2.313-3.672.97939.056-138.365-134.092.286-1.0421.6870.48319.895-166.071
133011_A808G809:C931U932_111.173-1.1334.008-9.471-8.692132.733-0.545-0.7183.999-4.745.165133.048
133211_A810U811:A929U930_11-0.563-1.3573.347-6.0582.71333.343-2.765-0.0283.2784.67110.4333.979
134111_A820U821:A904U905_110.416-1.2323.5065.96520.71525.432-5.5020.2362.01739.259-11.30633.223
134811_A827A828:U897U898_110.141-1.82.656-6.0560.32434.686-3.016-0.962.5790.53910.06335.196
134911_A828U829:A895U897_11-1.051-1.6063.3191.97111.23684.398-1.4450.8233.1078.33-1.46285.022
135011_A848C849:G844G845_111.593-1.0132.6874.537-5.26449.773-0.869-1.5972.899-6.219-5.3650.225
136011_A858G859:U834G835_11-1.9090.2452.913-1.93722.05544.736-1.2152.1412.81427.1042.3849.662
136711_A866G867:U892C893_110.99-1.1013.415-9.721-2.75259.793-0.954-1.4673.277-2.749.67660.563
137511_A876C877:A882U885_110.224-1.0532.969-3.0053.62689.262-0.816-0.2152.9272.5792.13789.36
138311_A965U966:U955U956_111.308-1.0363.0640.3577.38345.474-1.906-1.6442.8819.477-0.45946.039
138511_A967G968:U1114U954_112.94-0.3932.458-17.76616.20743.808-1.155-4.2531.06120.03321.9649.688
138711_A970G971:U1110U1111_11-0.002-1.4322.8542.40811.21528.122-4.5270.3882.13221.96-4.71530.328
138911_A972A973:U1108U1109_110.865-1.4982.9796.037-4.71131.13-1.89-0.5123.271-8.616-11.0432.035
139011_A973G974:C1107U1108_111.702-2.1333.1442.6816.11810.976-15.456-5.0142.02928.752-12.60112.843
139611_A983U985:A1099U1100_11-1.534-0.7363.0292.38517.1247.036-1.9711.972.55620.652-2.87749.942
140111_A989U990:G1059U1060_110.285-1.4913.2471.0255.63336.994-3.035-0.3153.0038.812-1.60437.419
140411_A992A1055:A2637A1057_112.0216.2942.498156.96229.227-131.788-3.2231.3781.021-14.77379.337-171.729
140711_A996A997:U1052A1053_11-0.491-0.7043.54-4.4885.79761.484-0.9750.2533.4925.6494.37361.877
140811_A997A998:U1050U1052_112.628-1.1434.231-9.8285.82552.955-1.691-3.6223.5926.44810.87854.086
140911_A998G999:C1049U1050_11-0.012-1.5413.2662.83.49437.231-2.8450.3773.1055.448-4.36637.49
141311_A1006U1007:C1043U1044_110.467-0.43.891.4685.97949.114-1.002-0.4293.8317.16-1.75949.475
141611_A1009G1010:A1040U1041_11-1.016-2.2133.0090.651-6.13915.669-3.3463.9163.566-21.464-2.27516.834
141811_A1011G1012:C1038U1039_110.38-1.7683.2593.08510.4735.749-4.047-0.2152.67616.585-4.88737.326
140511_A1055U995:A1054A2637_11-4.125-0.8990.926120.799-120.669-130.9730.658-1.8551.78760.62860.694-176.163
142211_A1064G1066:C1092U1096_11-2.392-0.9731.17179.906-142.26999.047-0.1911.3690.687-72.873-40.93169.1
143311_A1130C1132:G1126G1127_111.655-1.3322.859-4.12412.92760.842-1.777-1.7582.45412.5974.01862.195
143511_A1133G1134:U1124U1125_112.786-2.5923.02211.63110.22914.158-11.383-2.8172.32831.579-35.90920.956
143711_A1135A1136:U1122U1123_11-0.182-2.4992.988-4.6052.62331.341-4.991-0.4172.7734.8128.44831.775
143811_A1136C1137:U1121U1122_11-1.489-1.6693.3648.98911.51337.062-3.673.1392.35417.31-13.51539.743
144511_A1143U1368:A951A952_112.235-2.2240.32115.968122.54-110.3981.0431.1870.308-62.058.674-173.566
150211_A1203A1205:U1299A1301_11-0.4590.5557.326-1.3076.154-3.778-49.968-13.2743.227-57.758-12.263-7.338
150311_A1205G1206:C1298U1299_110.026-2.093.570.9319.328.979-6.1940.0851.85834.191-1.64834.715
150911_A1212G1213:C1292U1293_110.486-2.5293.5569.2497.51229.756-5.9720.8242.86913.946-17.1732.003
151411_A1217U1218:A1287U1288_11-0.732-1.8353.288-4.5362.58732.628-3.6660.523.2074.5698.0133.032
154511_A1223C1224:C1284G1285_11-0.749-0.8733.092-4.82-2.48249.0-0.8690.5523.185-2.9825.79149.281
147311_A1317G1319:C1187U1188_11-1.983-2.554-1.31593.76-132.367-29.7760.481-1.577-1.24871.56350.69-162.812
148111_A1326C1327:G1172U1173_110.817-1.9043.184-0.732-5.42338.638-2.19-1.3133.395-8.1461.09939.009
148511_A1330A1332:U1167U1168_111.863-2.2043.5010.463-5.02668.162-1.756-1.643.647-4.478-0.41368.326
148611_A1332C1333:G1166U1167_11-0.63-1.6052.998-6.901-2.50435.245-2.2580.0853.164-4.0811.24635.977
149111_A1337C1338:G1161U1162_110.551-2.1833.2568.3064.63140.911-3.520.0743.0526.52-11.69341.955
149711_A1343G1344:C1360U1361_11-0.581-1.5933.164-2.8458.91931.922-4.1460.5812.67415.7985.03833.233
144711_A1369G1370:C949G950_111.016-1.0863.658-1.518.47257.508-1.61-1.1343.4568.7511.5658.094
145111_A1373G1374:C945U946_11-0.569-1.1333.1824.9792.21432.581-2.351.8022.9843.912-8.79833.021
145911_A1381G1382:C1424U1425_11-1.398-1.8412.923-3.5524.85728.45-4.62.1052.7289.7457.12629.067
155111_A1393A1394:C1416G1417_11-0.2520.163.35-12.0992.37238.091-0.05-1.0793.2813.52317.97339.966
155211_A1394G1395:U1415C1416_110.433-1.0813.332-1.3632.66950.295-1.462-0.6073.2633.1371.60250.378
155811_A1401C1402:G1409U1410_11-0.384-2.0122.8330.2174.37428.271-4.8850.8172.4968.888-0.44228.602
126311_A1435C1437:G658G659_111.602-0.1083.613-1.85324.63553.236-1.544-1.7523.23425.9751.95358.307
156111_A1449G1450:C2354G2355_111.233-0.2013.35-6.293-0.44653.4-0.195-1.7583.198-0.4956.97553.744
156811_A1467U1470:A1462U1463_111.971-2.2423.1624.8427.81181.575-1.895-1.3863.0685.961-3.69682.001
157311_A1474A1475:U1457U1458_110.413-2.0473.031-4.3421.77226.338-4.838-1.9042.7873.8499.43526.745
157411_A1475G1476:U1877U1457_112.098-0.6033.2773.4748.26444.96-1.5-2.3913.26810.681-4.4945.8
157611_A1477C1478:G1875U1876_11-0.097-2.2863.3860.138-6.80723.898-2.9930.2733.877-16.025-0.32524.836
158011_A1481A1859:U1871C1872_113.902-3.1072.855-0.18813.84787.994-2.454-2.7912.4429.9160.13588.857
159111_A1491A1839:A1490U1837_11-4.3412.855-3.06-19.307-25.57416.9721.3669.436-1.158-50.12337.8436.156
159611_A1498C1499:G1517U1518_11-0.373-1.0113.0553.4243.40434.592-2.1551.0962.8975.69-5.72334.917
160111_A1524C1527:G1833U1834_111.264-1.8833.132-10.459-0.97481.856-1.406-1.2043.001-0.747.95382.409
160811_A1535G1536:C1585G1586_112.244-1.0333.712-6.08420.26558.771-1.994-2.4723.02319.9585.99262.142
161011_A1537G1538:A1583U1584_11-1.255-0.2643.007-4.209-7.85161.9520.0791.033.088-7.5854.06762.527
161211_A1539U1540:U1555U1553_11-1.72-3.6212.721.36214.19692.445-2.6921.2022.2569.784-0.93993.291
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1338288_C115G116:C137G107_88-1.445-3.5353.554-5.7650.5834.761-29.445-12.8363.0945.09150.3667.499
1338488_C117C118:G135G136_88-0.808-1.8043.397-1.2855.07826.481-5.1521.4053.03910.9492.77226.985
1338588_C118C119:G134G135_88-0.526-1.9673.1541.6997.19531.578-4.6591.212.62212.999-3.06932.41
1338688_C119C120:G133G134_880.477-2.143.462-2.67312.02129.334-5.959-1.3282.37222.5285.00931.761
1338788_C120U121:G132G133_880.213-2.1673.1141.7856.68336.068-4.259-0.1192.69110.672-2.8536.703
1336588_G42A43:U101U102_88-0.727-2.5232.873-13.9770.9829.708-4.625-0.9222.8391.79125.54732.779
1336988_G46C47:G56C57_88-0.498-1.3423.203-1.148-2.95535.812-1.7540.6433.313-4.7941.86335.947
1337288_G49C50:G75C76_880.53-1.5042.8685.7510.80835.065-2.569-0.1252.8821.33-9.46435.527
1337388_G63U64:A96A97_88-0.392-2.7733.705-8.45810.94930.662-6.616-0.7242.60619.50715.06933.571
1337888_G68U69:A89C91_880.956-1.3243.180.1035.96128.662-3.824-1.8722.85511.879-0.20629.263
1338088_G70A71:G87A88_880.19-2.1944.6842.365-7.534-8.14623.9074.9831.87242.1513.233-11.34
1338188_G114C115:G107C108_88-0.122-1.9973.3333.763.52135.471-3.7460.7313.0985.742-6.13135.832
1338388_G116C117:G136C137_880.968-1.5433.0773.8296.35641.507-2.749-0.9832.8948.882-5.35142.136
1339088_G123G124:C129C130_880.402-1.8853.2740.8715.07234.037-3.946-0.5492.9798.604-1.47734.412
1337488_U64A65:C94A96_883.935-2.062.42-17.0473.95338.28-3.07-6.3260.4915.6824.49741.953
1337788_U67G68:C91A92_880.173-1.253.936-0.476.73435.089-3.176-0.3613.63911.0420.77135.713
1337988_U69G70:A88A89_880.2121.3852.691-3.61511.68766.8940.86-0.3072.85710.5113.25167.875
1338888_U121U122:A131G132_880.178-2.4332.8362.58612.67126.375-6.7360.0421.53925.885-5.28429.324
1338988_U122G123:C130A131_88-0.872-1.7053.0193.6985.8226.781-4.7722.5912.4612.309-7.82127.639

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.