A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 13-Oct-2021 number of released structures: 11721
Search for released structures

NDB ID: 5NDV  PDB ID: 5NDV 


Base Pair Morphology Parameters

CSV Format

Model NumberPair NumberPair NameShearStretchStaggerBucklePropellorOpening
141_A6:U153_4-4.88-0.596-0.6923.814-7.47413.531
191_A11:U147_40.1170.010.5997.909-12.778-0.39
1101_A12:U146_40.067-0.2890.7788.162-23.472.934
1111_A13:U145_40.513-0.1150.95310.478-19.187-4.75
1131_A16:U143_4-0.08-0.629-0.33-14.132-5.1920.153
1171_A20:U139_4-0.079-0.2770.342-1.915-12.8931.077
1451_A26:G59_1-0.4971.4290.4094.292-14.929-20.91
1331_A45:U38_1-0.059-0.1670.13625.295-11.1360.868
1361_A48:A35_1-5.8694.96-0.027-5.764-4.363-172.909
1381_A51:G33_1-6.774-4.731-0.20811.476-1.489-6.37
1391_A52:U32_1-4.99-1.08-1.2138.832-9.545.402
1761_A60:U326_1-4.213-2.544-0.2663.522-2.629-94.121
11061_A65:U322_1-4.31-2.0380.26936.5643.152-92.624
1771_A66:G76_1-6.231-4.5661.41-18.37-4.9385.498
1911_A95:G91_1-7.373-5.6740.076-16.221.37-10.074
1951_A99:U87_1-3.916-2.232-0.572-1.236-14.611-97.744
1961_A100:A85_16.442-5.0370.31929.6217.048177.378
11021_A106:U79_10.392-0.2360.075-8.6570.5283.864
11111_A114:U154_1-4.158-2.39-0.911-12.6691.93-89.149
1801_A122:G148_16.52-4.519-0.66614.69923.5494.52
1811_A123:U149_1-0.032-0.3040.2496.094-7.151-1.937
1881_A130:U138_1-0.336-0.1781.01418.302-18.0572.038
11131_A157:G264_1-6.527-4.227-0.3917.89-22.714-8.426
11151_A159:U262_10.357-0.0590.221-1.753-11.5671.792
11201_A165:U257_1-0.7970.03-0.703-28.778-26.7222.672
11421_A187:G227_1-3.0813.877-0.741-41.445-8.134-128.773
11411_A211:U228_13.3080.655-1.276-24.17921.03586.856
11481_A222:U207_1-0.7010.2620.7128.708-13.3371.499
11121_A265:U153_1-3.1113.295-0.77626.728-0.79991.499
11621_A268:A296_16.105-5.094-0.34827.0784.827179.919
11661_A273:U292_10.107-0.230.024-6.376-6.6244.973
11041_A324:A77_10.9911.8060.6892.6486.754-178.599
11031_A325:U78_10.041.5740.423-10.67411.117161.388
1501_A334:U29_4-0.308-0.3550.211-8.304-6.2182.041
1521_A336:U27_4-0.107-0.1920.13-7.169-3.82-2.594
1571_A342:U22_4-4.126-2.226-0.346-3.493-7.812-90.036
1561_A344:A349_13.7011.1851.73411.59621.73-102.716
11951_A352:A366_1-6.495.2220.4-16.059-3.91-174.52
11971_A355:G364_1-6.69-4.114-0.338-1.943-3.3142.716
11991_A357:U362_10.0310.037-0.5525.8840.692.487
1591_A369:U20_40.692-0.2740.1041.95110.696-0.362
12001_A386:G383_1-7.563-5.2250.272-21.2079.365-26.853
12011_A387:U382_1-0.686-0.398-0.466-14.114-6.714-2.694
12031_A389:U380_1-0.022-0.151-0.144-1.637-8.36-3.54
12051_A391:A377_1-6.544-0.869-0.418-1.185-23.01754.678
11581_A395:A372_1-6.1294.938-0.305-36.49424.359-176.309
11601_A397:A374_1-1.306-1.541-0.117-19.812-9.313177.957
11591_A399:A375_1-1.526-0.6650.018-29.3174.336179.577
1631_A407:G16_4-6.409-4.8540.555-22.70817.889-7.427
1641_A408:G15_4-6.61-4.377-0.09514.4419.95-0.652
1651_A409:C14_4-5.515-2.845-0.3448.511-27.929-19.256
1721_A416:U7_40.185-0.3030.2931.152-2.9783.491
1731_A417:U6_4-0.082-0.2820.9154.415-8.6354.753
1741_A418:U5_4-0.056-0.2990.5265.787-14.018-0.789
12181_A428:U631_10.498-0.5040.2412.739-4.344-3.527
12231_A433:U626_10.451-0.170.2895.282-25.6110.555
12261_A436:U623_10.8341.2290.601-13.068-3.431-54.907
12311_A498:U615_1-0.378-0.1450.171-0.5380.599-0.69
12341_A501:U612_1-0.2340.004-0.42-11.148-9.3862.399
12371_A504:U587_10.081-0.315-0.1-2.569-25.55.579
12491_A516:U574_1-0.2610.0850.109-11.026-11.0970.843
12521_A521:U571_1-4.521-2.8510.0773.9820.348-101.048
12531_A522:A570_1-4.1821.021-0.38.815-6.643-102.919
12541_A523:A569_1-4.7890.836-0.4757.165-3.967-107.318
12581_A527:U565_10.38-0.341-0.694-8.147-16.176-2.357
12601_A529:U563_10.38-0.1510.003-11.185-3.0661.438
12631_A532:G560_1-0.3751.4210.736-15.336-18.87-12.194
12661_A537:A554_1-6.805-3.908-0.3872.661-2.3662.123
12741_A598:U605_1-0.465-0.1440.169-2.118-16.6399.852
12781_A649:U640_1-0.26-0.3880.2825.018-23.9892.405
13141_A665:U797_1-0.0890.0130.24913.741-10.619.184
13151_A666:U796_1-0.024-0.176-0.1749.022-9.775.187
13211_A672:U790_10.483-0.379-0.44-4.205-15.183-0.058
13251_A677:G703_12.5017.133-1.6540.7382.538146.763
13351_A706:U713_1-0.209-0.3540.52-10.836-5.449-1.908
13381_A736:G733_1-7.311-5.1060.723-22.9167.749-5.658
13401_A738:U731_1-0.175-0.3250.327.455.762.404
13451_A744:G726_1-6.863-4.1380.681-4.711-10.8256.26
13471_A746:U724_10.2590.0781.14525.04812.4038.292
13481_A747:U723_10.382-0.21-0.6219.323-8.8021.572
13521_A751:U782_1-0.602-0.2250.36735.217-10.925-7.243
13561_A755:U777_10.453-0.162-0.539-10.238-7.27612.156
13621_A761:G770_1-6.552-5.211.032-27.75212.077-2.461
13661_A806:U935_1-4.136-1.69-0.771-6.614-20.203-108.014
13671_A807:G934_11.466-1.006-0.576-26.139-8.967-156.161
13681_A808:U932_10.368-4.097-1.29621.3754.225158.022
13701_A810:U930_1-0.646-0.366-0.043-10.586-15.685-0.647
13821_A820:U905_10.297-0.1580.57114.062-3.596-5.551
13891_A827:U898_10.245-0.158-0.135-8.8834.155-2.194
13901_A828:U897_1-0.647-0.3720.105-7.619-10.409-1.94
13921_A848:G845_1-7.03-5.0280.626-29.4358.141-6.637
14021_A858:G835_1-6.333-4.1561.714-23.325-0.05711.057
14091_A866:C893_1-6.472-4.9110.034-0.305-16.144-24.378
14171_A876:U885_10.335-0.2180.165-20.603-4.7162.56
14251_A884:U2978_1-0.4540.14-0.308-15.33824.7034.85
14261_A921:A2139_16.915-0.7220.139-38.76-29.15159.241
14291_A965:U956_10.09-0.379-0.0984.953-5.8672.636
14311_A967:U954_1-0.588-0.052-1.124-31.792-12.31-0.678
14341_A970:U1111_10.133-0.191-0.851-27.208-1.8736.897
14361_A972:U1109_10.196-0.261-0.268-1.017-15.806-4.852
14371_A973:U1108_1-0.06-0.1880.4938.11-2.619-1.925
14441_A983:U1100_10.121-0.331-0.7546.367-5.466-1.548
14491_A989:U1060_1-0.342-0.0550.1760.5410.2527.146
14521_A992:A1057_11.861.53-0.35-9.0160.573-2.249
14561_A996:A1053_1-6.364-3.5130.2975.118-14.5040.028
14571_A997:U1052_1-0.222-0.242-1.283-15.646-34.141-5.45
14581_A998:U1050_10.3990.1070.2723.418-24.4120.526
14621_A1006:U1044_1-0.482-0.059-0.1124.101-7.08515.69
14651_A1009:U1041_10.574-0.349-0.787-11.9612.295-3.539
14671_A1011:U1039_1-0.045-0.0720.43612.469-5.692-6.132
14861_A1064:C1092_10.292-0.41.376-17.74-52.656173.636
14771_A1084:U1074_10.7690.1021.376.8012.53-11.942
14781_A1085:U1073_1-0.993-0.0311.6723.559-18.5777.436
14841_A1091:U1067_1-0.4660.2950.45-17.348-0.066-9.05
14871_A1130:G1127_1-7.228-4.9661.454-19.721-1.511-33.097
14891_A1133:U1125_10.268-0.2640.03-8.2-3.6193.15
14911_A1135:U1123_10.0430.03-0.016-2.354.4130.052
14921_A1136:U1122_10.13-0.296-0.573-16.661-16.0654.046
14991_A1143:A952_1-5.7565.2740.323-32.2265.116-162.356
15301_A1203:A1301_1-6.4374.8080.012-27.8214.344-175.972
15311_A1204:G1300_1-6.88-4.2220.3028.817-18.678-5.963
15321_A1205:U1299_1-0.183-0.417-0.069-3.227-10.6465.245
15381_A1212:U1293_1-0.678-0.1480.55111.603-9.5251.773
15431_A1217:U1288_10.478-0.09-0.1322.437-10.9765.035
15751_A1223:G1285_1-8.12-4.608-0.908-20.921-25.991-51.297
15761_A1225:C1284_1-6.709-2.4730.453-0.27524.0845.379
15841_A1317:U1188_10.2721.204-0.70214.001-23.857164.117
15921_A1326:U1173_10.833-0.151-0.1464.566-13.492-5.333
15961_A1330:U1168_1-4.199-2.5440.095.08-0.071-97.276
15971_A1332:U1167_1-0.2420.026-0.14411.468-11.221-4.967
16021_A1337:U1162_10.136-0.26-0.00811.193-12.603-2.6
16081_A1343:U1361_1-0.7050.0050.0542.922-6.8177.859
15011_A1369:G950_1-6.579-4.0460.046-1.697-0.475-7.888
15051_A1373:U946_10.4540.00.628-2.72-5.6664.555
15131_A1381:U1425_1-0.51-0.274-0.081-10.448-7.9023.351
16141_A1393:G1417_1-6.729-5.0810.248-25.332-7.012-9.058
16151_A1394:C1416_1-6.884-3.963-0.0442.092-11.9711.456
16211_A1401:U1410_1-0.229-0.025-0.146-0.668-5.01410.933
12871_A1435:G659_1-6.831-4.1890.83822.29-23.373-1.246
12991_A1449:G2355_1-7.033-4.6760.508-5.464-12.478-2.341
16251_A1453:U1840_10.2791.0550.160.01212.947171.053
16271_A1467:U1463_1-4.58-2.7360.4-2.42111.142-92.943
16321_A1474:U1458_1-0.023-0.364-0.396-3.504-1.1025.003
16331_A1475:U1457_10.432-0.185-0.92-14.9241.7655.691
16351_A1477:U1876_1-0.139-0.3440.144-9.585-1.829-3.122
16391_A1481:C1872_1-3.801-1.0810.459-3.29110.099-97.092
16531_A1491:U1837_1-0.2130.018-0.272-17.1886.517-6.946
16591_A1498:U1518_10.03-0.190.266.053-6.4472.202
16641_A1506:U1512_1-0.563-0.069-0.1478.26-12.124.774
16651_A1524:U1834_1-4.019-2.322-1.005-20.026-8.892-94.314
16681_A1529:U1831_10.003-0.2670.126-15.761-30.5650.735
16731_A1535:G1586_1-6.774-4.3190.06920.47-25.187-3.704
16751_A1537:U1584_1-0.0360.103-0.393-18.961-16.16617.195
16771_A1539:U1553_1-3.641-2.0150.9652.2069.208-95.184
16881_A1566:U1572_1-0.077-0.0730.96823.442-39.20415.341
16901_A1605:U1600_1-4.364-2.815-0.6240.365-8.455-85.261
16951_A1612:U1595_10.1410.0340.265-0.8371.113.043
16961_A1613:U1526_10.188-0.452-0.073-10.798-8.129-2.43
17021_A1619:G1825_10.4591.009-1.927-35.934-18.329.817
17031_A1621:U1824_10.488-0.1740.5536.21-14.967.262
17071_A1625:U1818_1-0.318-0.002-0.6884.638-8.644-6.957
17241_A1632:U1641_1-0.253-0.147-0.622-13.91519.72911.05
17131_A1647:U2559_1-0.38-0.2690.39311.00520.7994.227
17141_A1648:U2558_1-1.505-1.087-2.382-10.827-11.34125.7
17201_A1654:U1801_1-0.01-0.41-0.356-12.524-16.0270.308
17221_A1656:A1799_1-5.7685.20.008-9.1646.734-171.966
17511_A1683:U3071_1-4.61-0.8031.427.4097.793-12.503
17731_A1707:U1737_10.2980.00.01911.294-14.5614.76
17801_A1714:G1730_1-6.324-4.4720.467-31.54925.3260.241
17611_A1749:A1696_1-7.095.174-0.346-7.7598.775-173.706
17621_A1750:U1695_1-4.14-2.228-0.538-6.22910.176-96.224
17631_A1752:U1694_1-0.482-0.325-0.25613.884-5.6471.434
17681_A1757:U1768_1-0.367-0.1130.53813.023-2.052-0.85
17451_A1787:G1662_1-0.0331.357-0.203-21.636-11.306-11.158
16541_A1839:A1490_1-1.927-1.011-0.041-27.283-47.853174.811
16401_A1859:U1871_1-0.237-0.403-0.613-11.393-11.692.611
13031_A1881:U2351_10.4690.0420.0330.409-2.2163.308
13051_A1883:U2349_10.3390.166-0.815-18.2-13.793-4.733
17851_A1887:A2348_1-6.141-4.197-0.153-5.923-5.514-13.209
17891_A1891:U2344_1-0.025-0.102-0.551-6.003-7.6440.132
17911_A1893:U2342_10.103-0.221-0.423-6.558-7.1594.448
17931_A1895:U2340_10.079-0.3230.67614.1976.340.145
17941_A1896:C2339_10.046-1.3010.18233.9720.94151.216
17971_A1901:U2336_10.186-0.2990.016-7.1874.2663.961
18011_A1915:U1937_1-0.382-0.0860.25815.853-21.13110.918
18061_A1921:A1930_16.001-5.011-0.58315.62-8.781176.015
18071_A1922:G1929_1-6.779-4.9470.139-1.902-3.269-10.654
18131_A2104:U1944_1-0.202-0.193-0.5052.289-6.059-0.791
18151_A2106:U1942_10.55-0.031-0.035-2.822-3.6478.455
18161_A2107:C1941_1-1.585-0.3450.224-3.338-24.0037.041
18291_A2125:U2328_1-0.172-0.4980.2012.3676.0260.221
18301_A2126:U2327_10.152-0.176-0.248-5.661-4.7687.64
18351_A2131:A2320_13.115-3.4590.219.60519.355-81.617
18521_A2149:G2187_1-6.043-3.810.18543.703-38.1981.672
18551_A2152:U2184_10.152-0.0970.1277.91-0.256-2.262
18611_A2158:U2176_10.2681.479-0.11322.84327.429178.427
18661_A2164:U2170_10.067-0.038-0.1842.2764.2456.263
18361_A2188:U1925_10.147-0.377-0.7495.674-20.7827.828
18881_A2219:U2226_10.05-0.3340.5684.564-8.9451.01
18891_A2220:U2225_10.122-0.105-0.09411.787-5.7524.547
18681_A2233:C2212_1-6.801-4.302-0.299-4.616-24.6-11.469
18921_A2262:U2254_1-5.5-2.413-1.9563.3446.397-44.49
18821_A2275:G2311_1-6.711-4.455-0.316-1.5612.099-6.971
19041_A2291:U2301_10.176-0.338-0.104-4.897-12.85-3.101
18811_A2312:U2274_1-4.413-2.133-0.672-1.725-12.126-102.877
12821_A2361:G2377_1-0.8951.2220.1628.217-22.373-23.3
12101_A2367:U2380_10.086-0.3160.4642.9951.111-2.673
12111_A2368:U2379_10.098-0.270.3486.832-8.0792.652
12771_A2372:U642_1-5.389-0.6131.279-9.0211.7226.045
19251_A2398:U2981_1-0.064-0.333-0.486-10.1487.9771.44
19261_A2399:U2980_1-0.228-0.224-0.105-14.453-4.425-5.737
19351_A2413:U2807_10.017-0.1770.34212.921-9.3310.046
19391_A2419:U2611_1-0.106-0.2220.4553.438-16.846-0.735
19441_A2424:G2605_1-6.752-4.737-0.0391.611.426-11.961
19501_A2430:U2599_1-0.251-0.1890.63511.559-6.6652.866
19521_A2432:U2597_10.246-0.2670.168-5.153-20.6415.428
19641_A2511:U2436_1-0.543-0.5-0.007-13.339-23.2186.722
19671_A2515:G2592_1-6.496-4.2480.3999.5883.382-7.152
19701_A2519:U2588_1-0.0480.050.533-8.28-9.49.125
19711_A2520:U2587_10.018-0.1350.1862.023-21.2513.131
19761_A2529:U2581_1-0.336-0.188-0.369-6.634-7.1496.045
19821_A2561:A2580_16.246-5.1780.81610.45219.223177.927
19831_A2562:G2579_1-7.074-4.9590.0644.899-21.465-2.933
14541_A2637:A1055_16.246-5.012-0.556.624-14.705176.625
19951_A2642:A2635_1-6.1875.1460.015-23.37827.052-179.856
19961_A2643:U2634_1-5.821-1.881-1.311-6.443-16.882-33.862
19991_A2647:U2631_1-0.019-0.3280.0520.095-0.0824.369
110011_A2649:U2629_10.414-0.359-0.265-13.305-13.3232.287
110171_A2656:U2713_10.1661.156-0.06825.821-15.393168.326
110191_A2667:G2687_1-6.809-5.125-0.102-11.266-8.567-9.822
110231_A2671:U2683_1-0.0140.055-0.15915.923-6.401-2.748
110251_A2673:U2681_10.690.04-0.291-7.8732.5191.061
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136476_U1356:G1367_63.4140.152-0.834.02519.97818.892
136536_U1392:A1406_60.4810.113-0.3816.759-12.962-13.096
136576_U1396:G1402_61.036-0.302-0.7540.865-17.572-8.75
136586_U1397:A1401_65.544-3.5070.8354.65-9.824-37.179
135566_U1468:A1171_6-0.406-0.161.383-22.827-17.573-4.905
136746_U1497:U1510_6-4.432-2.152-1.09326.916-24.307-41.556
135646_U1560:U1551_60.021-1.3790.12410.748-8.451118.501
135656_U1561:A1550_60.324-0.082-0.10513.3220.447-5.451
135686_U1564:A1547_6-0.6580.123-0.3852.563-7.10817.67
135706_U1566:A1545_6-0.918-0.076-1.20522.6585.9687.869
135716_U1567:U1544_61.653-1.542-0.1898.322-11.95919.598
135406_U1578:G1167_62.219-0.583-0.634-1.157-1.053-1.13
135416_U1579:A1166_6-0.029-0.267-0.14-0.219-9.7211.923
135456_U1582:U1613_6-2.275-3.4161.044-20.465-17.929-178.603
136806_U1585:A1611_64.132-2.375-1.8863.264-38.88-94.899
136906_U1595:A1600_60.5673.535-0.377-1.44921.489170.128
136976_U1643:U1758_6-2.725-1.358-0.46826.139-13.6-30.843
136996_U1647:A1753_60.5770.0150.694-14.3824.18410.017
137026_U1650:A1750_6-0.466-0.199-0.26112.042-21.77-11.117
137086_U1656:A1744_6-0.432-0.162-0.6912.5090.39211.604
137126_U1661:A1740_60.361-0.2240.316-0.585-13.3238.051
137166_U1665:G1736_62.471-0.926-0.5598.193-21.581-1.553
137176_U1666:U1735_6-2.6-1.1450.3024.339-1.449-19.655
137206_U1669:A1732_60.57-0.1980.109-0.141-3.174.749
137276_U1676:U1725_62.395-1.6690.2318.452-11.71512.27
137336_U1682:A1719_6-1.3920.11-0.386-3.079-18.223-2.605
137346_U1684:G1717_64.125-0.474-0.304-5.069-11.54.024
137376_U1687:A1714_6-1.3140.627-1.19710.871-20.441-0.439
137386_U1688:G1713_60.031.6010.969.152-3.53844.215
137396_U1770:A1791_6-0.326-0.174-0.419-2.226-4.24-5.61
137406_U1771:A1790_6-0.079-0.223-0.0073.971-2.041-9.848
137446_U1775:G1786_61.634-0.40.0410.418-12.2690.02

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.