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: 5DC3  PDB ID: 5DC3 


Base Pair Morphology Step Parameters

CSV Format

Model NumberStep NumberStep NameShiftSlideRiseTiltRollTwistX-DisplacementY-DisplacementHelical RiseInclinationTipHelical Twist
14122_A39A40:G467C469_222.223-2.1364.085-8.346-9.356-6.40319.605-0.6371.7647.051-41.969-14.072
14222_A40A41:U466G467_220.024-0.483.664-5.04812.34663.835-1.018-0.2563.51911.5434.7265.07
14322_A41A438:G465U466_22-0.0320.463.382-3.0422.56576.9250.293-0.0653.3932.0612.44477.012
15922_A67G69:U82G83_221.107-0.5783.439-8.629-5.86951.679-0.256-1.833.271-6.6569.78552.651
16122_A93A399:U395G396_22-1.656-0.2072.808-5.534-1.315-4.254.629-25.8120.35312.318-51.824-7.1
18322_A103C309:G357U358_221.581-1.8472.911-8.2672.78390.19-1.348-1.2562.7451.9615.82590.52
18222_A105A103:U358C308_223.063-4.563-2.08845.29108.48528.957-0.422-2.696-3.50575.101-31.353119.752
19022_A108G109:C305U306_22-0.282-0.6623.154-1.5913.85634.061-2.8130.2462.70222.522.58436.727
19422_A112U113:A301U302_22-0.968-1.5473.139-2.13913.30626.17-5.5161.5122.18327.2114.37429.382
19722_A119U120:U297C298_222.695-0.9723.31-9.8443.7948.063-1.432-3.9242.6634.58911.91949.14
110222_A124U125:U292U293_220.651-1.0773.370.7036.73346.224-1.926-0.7623.2018.523-0.8946.69
110922_A145U146:A168A169_22-0.386-1.6013.862-19.9995.51436.955-2.897-1.9083.3747.97628.92842.202
111122_A147A148:C166U167_220.594-2.2213.868-0.95511.10152.461-3.245-0.7273.35812.41.06753.55
111222_A148C149:G165C166_224.111-2.9273.669-7.91222.79341.797-5.058-5.5611.24429.21710.14247.989
111822_A182U183:A202U203_22-0.679-1.3943.1562.375.25532.64-3.2621.5592.8489.261-4.17733.132
112422_A188C189:G196A197_220.254-1.1183.0914.861-16.97158.506-0.29-0.0173.283-16.948-4.85460.885
112922_A206U207:C258U259_220.477-1.7653.7471.19422.20330.444-5.607-0.5872.05336.759-1.97637.544
113322_A210U211:A254U255_220.38-1.9724.031-0.7968.84533.679-4.858-0.7763.4114.9461.34534.797
113622_A213G214:A251U252_22-0.688-0.6813.1682.7388.44165.264-0.9540.743.0427.789-2.52765.798
128622_A218U843:A829U830_221.319-1.042-4.224165.82126.817-86.220.798-1.038-3.722-13.71184.782-171.229
113822_A220A221:U840U841_220.45-2.4093.631-2.731-9.06325.424-2.321-1.8094.157-19.7425.94927.102
113922_A221A222:U833U840_220.371-0.442.741-0.44914.888-7.114-7.9691.0081.592-64.581-1.946-16.497
114022_A222U223:G838U833_22-0.446-3.1723.563-5.7698.17369.365-3.070.1743.2437.1445.04269.993
114322_A225A226:U835U836_220.619-1.993.418-6.53423.21523.337-6.49-1.930.92244.82512.61633.438
114422_A226U227:G834U835_220.8-1.6653.065-3.0024.23151.343-2.175-1.1062.8814.8693.45451.587
114822_A265U267:A288U289_22-1.658-1.0852.5976.162-2.49942.125-1.32.7572.4-3.451-8.50942.623
110522_A266G142:A173U174_222.128-2.6013.681-3.704-2.08575.473-2.052-1.8613.649-1.7023.02375.575
18822_A312A315:A352A353_224.77-0.6633.3176.428-18.0698.1369.641-9.1193.347-63.334-22.53120.818
115522_A316C317:G347U348_22-0.041-2.2563.2776.663.38331.119-4.6861.2382.956.194-12.19431.982
115822_A323U324:A344U345_22-0.677-0.833.103-2.72917.18735.774-3.0430.7092.50726.1594.15339.658
116322_A328G329:C339U340_220.067-1.6233.068-6.1347.8829.885-4.281-1.1272.50714.7711.49731.473
116622_A366A367:U374U375_22-0.789-1.2892.833-5.3243.22435.049-2.5160.622.7935.3028.75535.58
116722_A367U368:G373U374_22-0.027-1.0293.329-1.7434.48646.543-1.671-0.1113.2215.6592.19946.778
16222_A399A401:C394U395_22-0.453-1.5273.312-4.9841.12638.962-2.4070.0723.2991.6797.43339.283
16322_A401G404:C393C394_223.605-1.1643.422-0.263-3.35274.863-0.848-2.9723.453-2.7560.21774.928
16722_A407C408:G389G390_22-1.4191.2312.910.76110.192-15.965-7.941-4.01.855-32.6882.441-18.938
17022_A410C411:G422G423_221.128-1.1552.6130.0365.89629.845-3.106-2.1462.34811.309-0.06930.409
17222_A412U413:A420A421_22-2.985-2.6052.886-4.0928.14910.559-16.7799.2611.54436.56218.3613.943
14422_A438U439:A464G465_22-3.456-3.4712.59917.4635.9568.324-9.699.275-2.92421.279-62.39320.226
14622_A441C442:G462U463_22-1.003-2.4123.356-0.3246.08338.246-4.3641.4742.9619.2120.49138.71
15722_A452G63:C87U88_22-2.791-2.052.9633.6747.17751.436-2.7383.3882.4848.212-4.20452.022
1122_A468G595:C31U32_221.792-3.0824.2541.03417.56482.042-2.83-1.3143.67513.245-0.77983.58
117622_A505U508:G480A481_220.567-4.6933.22727.228-4.4679.524-3.4130.2713.466-3.395-20.72583.419
118022_A511A538:G540A477_22-2.417-4.799-3.607-32.407104.317168.398-2.2551.257-3.91452.29116.245173.29
118122_A515G516:C536G537_221.149-0.3713.511-1.8568.65454.891-0.933-1.3473.3849.321.99955.545
118222_A518A520:U532U533_22-3.196-1.0193.09612.85420.26951.654-1.9763.9421.82921.965-13.92956.609
118322_A520U522:C531U532_22-0.92-1.4725.44715.79714.86548.479-3.1722.6464.37917.144-18.21952.842
118922_A550G557:C587U588_22-1.697-1.0953.35311.3142.9844.18-1.6613.1352.7843.882-14.73745.628
1622_A599U600:A26U27_221.066-1.5293.219-0.0681.27225.47-3.816-2.4353.1372.8830.15425.501
1822_A601U602:G23U24_220.184-0.9253.0061.0577.61141.73-1.974-0.1582.80610.576-1.46942.4
11122_A604C4:G20U21_22-2.54-1.2095.59743.4670.41947.99-1.175.2262.6710.429-44.42863.873
119922_A615G616:C1105U1106_22-0.296-1.8453.473.95812.51831.316-5.0851.1152.51522.017-6.96233.893
120122_A622G1032:U1103U1104_221.399-3.253.28412.22311.1213.126-16.381.004-0.5253.408-58.70316.816
126722_A713G714:C724U725_223.812-1.1313.30310.788-15.20728.4971.23-4.2824.467-27.487-19.533.949
127322_A746C747:G802U805_223.543-0.8974.571-25.8233.26561.042-0.986-4.5292.9753.0724.27765.864
127922_A760G761:A789U790_22-0.462-0.8843.3372.83-1.02761.072-0.820.5913.328-1.01-2.78361.139
128122_A774G775:U785C786_220.799-4.8311.958134.524-108.01656.984-1.2831.0164.14-55.231-68.785173.429
128522_A811A814:U857G816_22-0.98-5.1671.253-16.887-17.157-2.3757.7542.166-4.22560.186-59.239-24.188
128822_A844G845:C827U828_22-0.254-1.4713.784-9.0212.2830.772-4.604-1.1162.9621.56215.83834.255
129122_A847C848:G824U825_22-0.574-1.773.8123.9725.12933.525-3.9231.6813.4238.79-6.80734.13
129422_A850C852:U821U822_22-2.238-0.824.257.77625.61850.091-2.6272.9033.17128.078-8.52256.386
121922_A865G866:C962U965_222.759-2.0453.2214.1581.2245.018-2.77-3.2133.3961.589-5.41545.216
122322_A869C870:G957U958_220.104-0.953.405-1.20610.13646.148-2.025-0.2293.13812.7481.51747.203
123422_A881U882:U946U947_220.803-0.6762.991-0.644.2337.055-1.562-1.3332.8856.6281.00237.292
123722_A884G885:C927U928_22-0.338-0.7813.056-1.2243.94932.85-1.9850.4032.9556.9492.15433.102
124022_A887U888:A924G925_220.104-0.8053.202-2.1759.21726.449-3.699-0.6962.75319.3724.57128.065
124422_A891A892:U920U921_22-0.77-0.943.056-4.0787.45633.502-2.6430.7182.85912.6836.93734.533
124522_A892U893:A919U920_220.966-1.8573.2150.02115.05425.338-6.349-1.8991.84431.067-0.04429.41
129622_A900G902:A907U909_22-1.588-1.8826.6547.39924.623101.213-1.9051.2236.13915.756-4.734103.552
129722_A933U935:G876A944_222.8130.182-0.31-72.773149.83437.7590.549-1.193-1.10878.99438.367167.297
120622_A966A967:U632U633_22-1.233-1.7553.243-2.1735.30333.867-3.7731.7613.0129.0233.69734.334
120722_A967U968:G631U632_220.448-1.0223.193.2382.3442.715-1.623-0.2993.1573.204-4.43342.893
121022_A970A971:G628U629_225.884-1.5392.57710.6687.30634.407-3.451-7.883.78411.845-17.29536.688
121122_A971G972:C627G628_220.716-0.8593.831-4.67913.10664.255-1.408-0.883.56212.1734.34665.587
121322_A973A974:C625U626_22-0.219-1.3532.713-13.42912.25123.764-4.564-1.6961.7225.50727.95929.84
121422_A974C975:G624C625_22-0.371-1.4463.241-0.421-0.91239.975-2.010.4943.275-1.3340.61639.987
130122_A979G980:C1021C1022_22-0.038-0.953.842-8.79416.04153.791-2.03-0.5233.42317.189.41856.596
130522_A983G984:U1017U1018_220.069-2.2552.9349.18916.35221.089-7.2411.3220.93536.674-20.60828.153
131022_A992A993:G1011U1012_22-4.425-0.1743.886-113.472-124.918-99.440.745-2.8150.96963.441-57.628-172.741
131122_A993G994:C1010G1011_220.365-0.4533.23-3.1128.357.511-0.896-0.5373.1228.573.21358.133
131322_A995U996:G1008U1009_220.755-1.7783.4174.2923.2532.206-3.747-0.5743.2975.808-7.6732.641
131522_A1036C1037:G1094U1095_221.186-1.2953.0873.9076.22432.889-3.178-1.4562.91810.825-6.79533.677
131922_A1065C1066:G1053U1054_220.689-2.113.1272.782-0.8830.615-3.811-0.7683.233-1.663-5.25530.751
132322_A1069C1070:G1048U1049_22-0.172-1.5793.385-7.4984.8829.629-3.911-1.1363.0449.2814.25830.921
133022_A1076C1077:G1041G1042_220.683-1.5312.6963.8522.24623.283-4.338-0.6182.6155.501-9.43323.7
134022_A1113U1115:A1131A1132_222.635-1.8961.044119.979123.807-164.4610.8991.3650.97-61.92860.014-178.974
134222_A1116U1117:U313G1130_22-3.854-2.0192.341-2.0812.04335.998-4.1095.7531.80918.8313.25337.951
11622_A1138A1139:U8G16_22-2.485-1.6392.7447.15.7844.232-12.09817.541-1.53641.209-50.58510.086
11722_A1139G1140:C14U8_223.374-1.1334.148-17.35314.62591.392-1.097-2.6943.44910.09511.97893.558
12022_A1142A1143:A11U12_220.541-1.6393.7418.8064.11241.657-2.7190.2633.6085.69-12.18442.726
12122_A1143U1144:G10A11_22-1.053-1.7083.376-1.4957.93930.264-4.6291.6762.89314.8762.80131.3
12522_A1147C1148:G1629U1630_22-0.465-1.3513.355-1.60317.13630.716-4.6280.5472.32429.6132.7735.108
12822_A1151A1152:U1626U1627_22-1.303-1.5973.543-0.6318.28637.717-3.4761.893.15612.630.96238.589
12922_A1152G1153:C1625U1626_22-0.27-1.0153.316-0.2355.21233.378-2.5830.4273.1289.0060.40633.772
13422_A1157C1618:C1620U1621_221.47-2.353-0.524-135.488-98.865145.872-1.219-0.677-0.443-49.59167.961176.404
13622_A1160C1161:G1616U1617_22-0.596-1.5633.3343.154-0.24930.824-2.8771.7323.271-0.467-5.91530.982
136922_A1203A1556:U1552G1553_220.293-3.437-3.122163.657-49.325123.777-1.91-0.778-2.157-24.816-82.339175.729
138422_A1211G1212:C1451U1452_220.948-1.8463.6823.64118.76924.22-7.017-1.11.91338.046-7.3830.768
138822_A1219C1220:G1263G1264_220.612-0.8493.953-4.273-0.77664.812-0.751-0.7853.919-0.7233.98264.941
139022_A1221C1222:G1261U1262_220.229-1.2733.0230.6656.40429.052-3.666-0.3232.69112.571-1.30529.742
139222_A1223A1224:U1259U1260_22-0.411-1.4443.69211.06316.38438.716-3.6151.6762.69122.982-15.51843.298
139322_A1230U1231:U1254U1257_226.230.8281.8614.10517.13356.3070.132-5.6413.30617.425-14.34660.187
139722_A1234G1245:U1250U1251_222.0792.386-1.22137.84-87.843-76.173-1.5080.565-1.12645.61471.575-166.992
139922_A1236G1237:C1248U1249_221.016-1.3273.521.9087.96340.746-2.757-1.2213.25711.299-2.70741.526
140122_A1238U1239:C1246U1247_221.706-2.3222.9234.5835.09298.544-1.603-1.0592.8893.356-3.02198.72
140822_A1275U1276:A1436C1431_220.412-3.8473.7621.05124.278-15.977-1.961.245.269-57.1052.472-29.016
142422_A1296G1297:A1300U1301_22-4.483-1.7432.91-1.62913.26358.063-2.334.452.60513.471.65559.45
143222_A1336A1410:G1387U1415_225.0174.0593.805124.475-34.8760.9013.3671.2253.769-24.224-86.457129.27
143722_A1344A1345:U1380U1381_22-0.779-0.7423.3947.3563.76234.693-1.7612.3433.0756.2-12.12335.634
143822_A1345A1348:U1377U1380_221.6631.5334.55519.0479.379103.5530.777-0.6654.825.928-12.038105.089
143922_A1348G1349:C1376U1377_220.124-0.9452.679-12.32619.96821.361-4.365-1.8531.18541.06325.34731.631
144722_A1357G1358:C1365U1366_22-0.24-1.7283.0660.54113.58533.96-4.3390.4452.23122.187-0.88336.506
144922_A1388C1389:G1412G1409_22-2.8535.343-3.208-8.972-4.29834.3368.1115.914-3.018-7.09814.81635.706
145122_A1391U1392:A1406U1407_22-0.957-1.4393.2744.3610.17740.557-2.9991.7612.73914.361-6.15341.98
143322_A1410C1338:G1386G1387_22-3.094-1.782-0.184116.481-124.577-164.2790.884-1.553-0.07162.32158.271-178.709
136622_A1469C1470:G1574G1170_22-0.7890.2442.830.128-0.20522.7860.6822.0372.824-0.52-0.32522.787
145722_A1471C1472:G1536U1538_221.628-2.5833.498-11.07211.635-66.8941.7860.9634.041-10.401-9.898-68.576
145922_A1475C1476:G1531U1532_220.556-1.123.07-2.0873.75140.128-2.013-1.0232.9265.4473.03240.347
146322_A1479G1480:C1527U1528_22-0.257-1.743.880.14718.09231.266-5.5280.4382.52930.575-0.24836.01
146522_A1487G1488:C1518U1519_221.162-1.492.36-21.319-6.55527.287-1.825-4.0241.426-11.72238.12635.108
137022_A1556U1560:U1551U1552_223.4463.494-0.634164.62826.7738.8641.515-0.2333.90114.364-88.327166.831
138022_A1569A1570:G1541G1542_220.377-0.2373.054-11.18217.55334.649-2.154-1.72.44126.70417.01240.254
138122_A1570C1571:G1540G1541_220.425-0.6133.129-3.31-0.07662.533-0.586-0.5523.106-0.0743.18662.612
134822_A1576A1577:U1168G1169_221.379-1.4843.793-1.09613.17859.764-2.161-1.4153.40613.0511.08661.078
134922_A1577U1578:G1167U1168_22-0.087-1.3943.0465.306-3.9849.781-1.3730.4643.118-4.704-6.2750.193
147522_A1586A1587:U1609G1610_22-0.067-0.1323.146-1.5670.72263.349-0.156-0.0033.1450.6871.49163.371
147622_A1587G1588:U1608U1609_22-0.246-1.7623.516-0.90319.18431.854-5.1850.2732.15331.621.48937.067
148122_A1592A1593:U1603U1604_220.71-1.0453.6172.1566.61841.85-2.179-0.7433.4519.189-2.99342.399
148222_A1593G1594:C1602U1603_22-0.859-1.3052.826-4.0963.90731.93-2.9270.9222.7377.0337.37332.415
153322_A1689G1690:C1711A1712_22-0.873-1.3433.189-9.61913.929-41.8790.481-2.0193.195-18.601-12.845-45.028
148522_A1719G1720:A1681U1682_220.743-0.7752.9453.17718.607109.888-0.669-0.4172.85311.315-1.932110.972
148722_A1721A1722:G1679G1680_22-0.804-0.3172.888-6.529.92230.771-2.0740.4222.76517.88511.75232.93
148822_A1722U1723:A1678G1679_221.786-1.2353.474-2.1650.83659.626-1.285-1.9093.3970.8412.17659.667
149422_A1728C1729:G1672G1673_221.244-1.042.977-6.62.36432.499-2.16-3.1282.6024.16311.62533.227
149622_A1730A1731:G1670A1671_220.724-1.8153.37718.118-2.804-25.3783.8764.5922.1835.55235.876-31.22
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1228688_C28U27:A336G335_550.6672.142-3.319-0.563-2.876-24.844-5.781.702-3.046.655-1.303-25.014
1228488_C30U29:A334G333_550.4592.307-3.5683.727-9.202-25.655-7.080.067-2.63719.8058.021-27.479
1228288_C32G31:C332G331_55-0.7171.412-2.888-1.414-4.938-33.134-3.144-1.043-2.6838.594-2.46-33.518
1337488_C45G46:C57G58_881.137-1.6413.319-3.4677.53832.292-4.044-2.5272.74313.2816.10933.313
1337688_C47C62:U55G56_88-0.585-2.0523.20316.82513.15949.158-3.0251.5972.3215.026-19.21153.332
1337788_C62G51:A53U55_881.0451.116.8154.36114.084162.1360.495-0.5086.8417.127-2.207162.285
1338888_C115G116:C137G107_88-1.804-3.7883.1520.006-1.622.284-25.94537.1024.758-35.348-0.1382.801
1339088_C117C118:G135G136_88-0.85-1.7263.2960.0537.81626.878-5.3041.7712.69516.379-0.11227.971
1339188_C118C119:G134G135_88-0.919-2.1273.3280.1158.6628.941-5.7141.7872.59416.857-0.22530.182
1339288_C119C120:G133G134_880.181-2.0573.603-5.68310.04234.906-4.66-1.0762.8616.2039.16936.708
1339388_C120U121:G132G133_880.023-2.3913.05110.465.03732.065-4.7911.432.5418.768-18.20834.05
1229085_G24A349:G341C340_552.1262.4170.567-125.7399.473-43.796-1.4220.8270.37-53.545-67.679-161.754
1228988_G25G24:C340C339_55-0.6732.252-3.5191.454-9.229-29.557-5.947-1.532-2.67517.5462.764-30.967
1228388_G31C30:G333C332_55-0.2081.916-3.863-3.574-11.593-33.185-5.0370.235-3.04919.505-6.014-35.274
1337188_G42A43:U101U102_88-0.601-2.4672.805-12.2871.10233.495-4.172-0.5892.7691.83720.47735.633
1337588_G46C47:G56C57_88-0.65-1.5643.166-1.322-3.35136.336-2.0370.8563.313-5.3572.11336.508
1337888_G49C50:G75C76_88-0.026-1.2042.9311.0441.43729.036-2.6770.2552.8672.862-2.0829.089
1337988_G63U64:A96A97_88-0.347-2.8323.577-9.2510.28830.245-6.642-0.9062.50418.54516.67533.192
1338488_G68U69:A89C91_880.501-1.3593.058-3.7924.2831.603-3.149-1.5182.7787.786.89232.103
1338688_G70A71:G87A88_88-0.339-2.0535.066-0.843-6.91-6.36430.977-4.3211.88847.262-5.768-9.429
1338788_G114C115:G107C108_88-0.292-2.0233.371-3.7790.41239.88-3.002-0.023.3640.6025.52640.054
1338988_G116C117:G136C137_881.077-1.4433.1924.4313.18242.531-2.285-1.0433.1734.365-6.07942.863
1339688_G123G124:C129C130_880.543-1.8763.3614.0547.53233.728-4.264-0.3032.93112.728-6.85134.765
1228888_U26G25:C339G337_55-0.8881.327-3.2257.119-0.178-55.393-1.428-1.346-3.0940.197.623-55.813
1228788_U27U26:G337A336_55-0.1731.419-2.455-6.09-3.546-29.706-3.2120.558-2.2646.796-11.673-30.512
1228588_U29C28:G335A334_55-0.571.561-3.287-0.821-3.213-33.109-3.255-0.86-3.1385.621-1.436-33.27
1338088_U64A65:C94A96_884.064-1.8662.835-19.322.86233.537-3.004-7.390.3654.51530.48638.667
1338388_U67G68:C91A92_88-0.044-1.833.226.174.27635.322-3.530.9012.9376.95-10.02836.086
1338588_U69G70:A88A89_880.4331.032.7630.24915.34161.5110.381-0.4032.92314.755-0.2463.214
1339488_U121U122:A131G132_880.316-2.232.971-3.09911.18226.689-6.338-1.1551.85722.8976.34529.06
1339588_U122G123:C130A131_88-0.582-2.1922.5243.3965.17225.197-5.8761.9471.94911.633-7.63825.934

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.