A Portal for Three-dimensional Structural Information about Nucleic Acids
As of 13-Nov-2019 number of released structures: 10455
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NDB ID: NA1239  PDB ID: 3T1H 


Base Pair Hydrogen Bonding Classification

CSV Format

Model NumberPair NumberPair NameLeontis / Westhof ClassificationSaenger Classification
14A_A10:U24_A120
133A_A32:U535_A120
134A_A33:U534_A120
142A_A53:U353_A120
145A_A55:U363_A221
148A_A60:G100_A120
165A_A102:G319_A00
188A_A112:U282_A424
1121A_A134:U218_A120
1122A_A135:U217_A120
1124A_A137:G215_A18
1136A_A165:C144_A425
1137A_A166:A143_A45
1143A_A173:A202_A45
193A_A238:A277_A45
194A_A241:G276_A911
166A_A322:U318_A424
167A_A324:C317_A425
174A_A333:G346_A18
1164A_A378:G375_A00
1169A_A384:U370_A120
1173A_A388:U362_A00
1190A_A425:A409_A45
1191A_A426:U424_A323
1192A_A427:G405_A1011
1213A_A442:U470_A424
1200A_A446:U464_A424
1201A_A447:C463_A425
1227A_A516:A503_A00
1234A_A546:U861_A221
1313A_A594:G612_A18
1316A_A597:U609_A120
1260A_A615:G589_A1011
1268A_A623:U581_A120
1269A_A625:U624_A90
1275A_A631:U574_A120
1281A_A638:U734_A120
1289A_A646:G725_A18
1300A_A658:A698_A00
1301A_A659:G697_A18
1309A_A667:A689_A10
1312A_A670:G686_A1011
1325A_A705:A716_A00
1279A_A736:U635_A424
1253A_A742:U565_A424
1330A_A749:U796_A424
1331A_A751:C794_A00
1340A_A763:A785_A100
1341A_A764:U784_A424
1342A_A765:G783_A1011
1348A_A811:G835_A911
1365A_A866:A885_A82
17A_A891:G21_A1011
111A_A895:U17_A120
112A_A896:A16_A10
116A_A900:U1375_A120
126A_A912:U1362_A120
128A_A914:C1360_A60
1411A_A955:A1341_A45
1415A_A963:U1200_A120
1421A_A973:C1027_A50
1424A_A978:U1022_A00
1426A_A982:G1018_A30
1443A_A1037:U1186_A00
1481A_A1105:U1132_A120
1489A_A1139:G1159_A00
1420A_A1194:A1028_A00
1382A_A1206:U932_A120
1385A_A1210:U929_A120
1392A_A1217:G922_A18
1498A_A1219:U1282_A424
1499A_A1220:A1280_A00
1504A_A1226:U1273_A120
1506A_A1229:A1270_A00
1508A_A1233:A1266_A21
1401A_A1287:G1312_A1011
1373A_A1320:G921_A1011
1374A_A1321:U920_A120
1520A_A1331:U1354_A120
1527A_A1338:G1347_A18
1519A_A1357:A1327_A82
1541A_A1395:G1464_A18
1553A_A1410:U1449_A120
1558A_A1416:G1444_A911
1569A_A1484:U1505_A120
1575A_A1490:U1499_A120
135A_C34:G533_A119
137A_C36:G531_A119
140A_C47:G356_A119
143A_C54:G352_A119
147A_C58:G349_A119
151A_C63:G97_A119
153A_C67:G95_A119
157A_C71:G91_A119
158A_C72:G90_A119
160A_C74:G88_A119
196A_C116:G233_A119
1103A_C125:G226_A119
1104A_C126:G225_A119
1117A_C130:G222_A119
1118A_C131:G221_A119
1130A_C159:G150_A119
1134A_C163:A146_A20
1138A_C168:G142_A119
1139A_C169:G141_A119
1140A_C170:G140_A119
1141A_C171:G139_A119
1142A_C172:G138_A119
1115A_C199:G178_A119
1116A_C200:G177_A119
1128A_C207:G211_A119
189A_C235:G281_A119
190A_C236:G280_A119
191A_C237:G279_A119
192A_C240:C278_A00
1147A_C243:G271_A119
185A_C285:G305_A119
186A_C286:G304_A119
1160A_C290:G297_A119
170A_C329:G314_A119
171A_C330:G313_A119
172A_C331:G312_A119
173A_C332:G311_A119
175A_C334:G345_A119
177A_C336:G343_A119
178A_C337:G342_A10
1166A_C380:G373_A119
1167A_C381:G372_A119
1170A_C385:G366_A119
1175A_C390:G46_A119
1177A_C393:G44_A119
1179A_C395:G42_A119
1180A_C396:G41_A119
1182A_C398:G39_A119
1193A_C428:G404_A119
1195A_C430:G402_A119
1196A_C431:G401_A119
1207A_C436:G476_A119
1208A_C437:G475_A119
1209A_C438:G474_A119
1214A_C443:G468_A00
1202A_C449:G461_A119
1203A_C450:G460_A119
1204A_C451:G459_A119
1205A_C452:G458_A119
1218A_C484:G527_A119
1220A_C486:G525_A119
1221A_C487:G524_A119
1230A_C490:G507_A119
1231A_C491:A492_A00
1222A_C494:G523_A119
1224A_C496:G521_A119
1225A_C497:G520_A119
1233A_C505:G510_A119
1237A_C552:G858_A119
1314A_C595:G611_A119
1315A_C596:G610_A119
1317A_C598:G608_A119
1320A_C601:A605_A20
1262A_C617:G587_A119
1270A_C626:G580_A10
1272A_C628:G577_A119
1274A_C630:G575_A119
1278A_C634:G571_A119
1282A_C639:G733_A119
1304A_C662:G694_A119
1305A_C663:G693_A119
1306A_C664:G692_A119
1322A_C672:G681_A119
1328A_C709:G714_A119
1250A_C739:G568_A119
1256A_C745:G562_A119
1258A_C747:G560_A119
1333A_C753:G792_A119
1339A_C762:G786_A119
1343A_C766:G782_A119
1344A_C767:G781_A119
1347A_C800:G1506_A119
1240A_C805:G855_A119
1242A_C807:G853_A119
1244A_C809:G851_A119
1352A_C815:G831_A119
1354A_C817:G829_A119
1360A_C839:G844_A119
1367A_C870:U239_A118
1370A_C873:G880_A119
1371A_C874:G879_A119
117A_C901:G1374_A119
122A_C907:G1369_A119
123A_C908:G1368_A119
124A_C909:G1367_A119
1379A_C911:A915_A226
127A_C913:G1361_A119
1395A_C939:G950_A119
1412A_C956:C1298_A00
1413A_C961:G1202_A119
1414A_C962:G1201_A119
1418A_C966:G1197_A10
1419A_C967:G1196_A119
1423A_C976:G1024_A00
1432A_C985:G1000_A10
1428A_C1005:G1016_A10
1429A_C1007:G1015_A119
1430A_C1008:G1014_A10
1441A_C1033:G1188_A119
1447A_C1041:G1179_A119
1448A_C1042:G1178_A119
1451A_C1045:G1174_A119
1453A_C1048:A1172_A00
1455A_C1051:G1088_A119
1457A_C1053:G1086_A119
1461A_C1057:G1064_A119
1462A_C1058:G1063_A119
1470A_C1095:G1168_A119
1471A_C1096:G1167_A119
1472A_C1097:G1166_A119
1473A_C1098:G1165_A119
1476A_C1100:G1137_A119
1477A_C1101:G1136_A119
1484A_C1110:A1112_A00
1490A_C1140:G1162_A10
1492A_C1143:G1156_A119
1494A_C1145:G1154_A119
1383A_C1207:G931_A10
1384A_C1209:G930_A119
1386A_C1211:G928_A119
1390A_C1215:G924_A119
1393A_C1218:G1318_A119
1501A_C1223:G1276_A119
1502A_C1224:G1275_A119
1503A_C1225:G1274_A119
1505A_C1227:G1272_A10
1507A_C1230:A1269_A425
1510A_C1235:G1264_A10
1512A_C1240:G1257_A119
1513A_C1241:G1255_A00
1514A_C1243:G1254_A00
1515A_C1244:G1253_A119
1516A_C1245:G1252_A119
1398A_C1284:G1315_A119
1409A_C1295:G1304_A119
1376A_C1323:G918_A119
1378A_C1325:G916_A119
1522A_C1333:G1352_A119
1524A_C1335:G1350_A119
1529A_C1381:G1481_A119
1531A_C1384:A1477_A10
1532A_C1385:A1476_A50
1533A_C1386:G1474_A119
1536A_C1389:G1471_A119
1537A_C1391:G1468_A119
1539A_C1393:G1466_A119
1540A_C1394:G1465_A119
1545A_C1402:G1457_A00
1549A_C1406:G1453_A00
1551A_C1408:G1451_A10
1554A_C1411:G1448_A119
1555A_C1412:G1447_A119
1556A_C1413:G1446_A119
1561A_C1419:G1441_A119
1563A_C1421:G1439_A119
1564A_C1422:G1438_A119
1566A_C1428:G1435_A119
1567A_C1429:G1434_A119
1571A_C1486:G1503_A119
1576A_C1491:G1498_A119
1577A_C1492:G1497_A119
11A_G7:U543_A00
13A_G9:C25_A119
15A_G11:C23_A119
129A_G27:C539_A119
130A_G28:C538_A119
131A_G29:C537_A119
136A_G35:C532_A119
141A_G52:U354_A128
146A_G57:C350_A119
149A_G61:C99_A119
152A_G66:C96_A119
154A_G68:A94_A18
155A_G69:C93_A119
156A_G70:U92_A128
159A_G73:U89_A128
161A_G75:C87_A119
162A_G76:C86_A119
163A_G77:U85_A128
164A_G78:C84_A119
179A_G104:G326_A20
180A_G105:A310_A18
181A_G106:C309_A119
183A_G108:C307_A119
195A_G115:U234_A128
197A_G117:C232_A119
199A_G119:C230_A119
1100A_G120:C229_A119
1101A_G121:C228_A119
1106A_G123:C187_A60
1119A_G132:C220_A119
1120A_G133:C219_A119
1123A_G136:C216_A119
1145A_G153:A156_A00
1131A_G160:C149_A119
1132A_G161:C148_A119
1133A_G162:C147_A119
1107A_G191:C186_A119
1108A_G192:C185_A119
1109A_G193:C184_A119
1111A_G195:C182_A10
1113A_G197:C180_A119
1125A_G204:C214_A119
1126A_G205:C213_A119
1127A_G206:C212_A119
1146A_G242:C272_A119
1151A_G249:C267_A119
1152A_G250:C266_A119
1154A_G252:C264_A119
1155A_G253:C263_A119
1156A_G254:C262_A119
1157A_G255:G260_A40
184A_G284:C306_A119
187A_G287:C303_A119
1158A_G288:U299_A128
1162A_G292:A295_A100
168A_G327:A316_A18
169A_G328:C315_A119
1165A_G379:C374_A119
1171A_G386:C365_A119
1172A_G387:C364_A00
1174A_G389:C361_A50
1176A_G391:U45_A128
1178A_G394:C43_A119
1181A_G397:C40_A119
1185A_G419:C414_A119
1186A_G420:C413_A119
1187A_G421:C412_A119
1189A_G423:A410_A00
1198A_G433:A480_A100
1210A_G439:C473_A119
1211A_G440:C472_A10
1212A_G441:A471_A1011
1215A_G444:C467_A119
1206A_G453:A457_A911
1216A_G465:A466_A90
1199A_G477:A435_A1011
1217A_G483:C528_A119
1219A_G485:C526_A119
1228A_G488:C509_A119
1229A_G489:C508_A119
1226A_G498:C519_A119
1232A_G504:C511_A119
12A_G541:A26_A1011
1163A_G549:G294_A36
1235A_G550:C860_A119
1236A_G551:C859_A119
1247A_G553:C843_A119
1238A_G558:C857_A119
1318A_G599:C607_A119
1319A_G600:C606_A119
1261A_G616:U588_A128
1263A_G618:U586_A128
1265A_G620:C584_A119
1266A_G621:C583_A119
1267A_G622:C582_A119
1271A_G627:C579_A119
1276A_G632:C573_A119
1277A_G633:C572_A119
1280A_G637:C737_A119
1283A_G640:C732_A119
1284A_G641:C730_A119
1286A_G643:C728_A119
1287A_G644:C727_A119
1288A_G645:U726_A128
1290A_G647:G724_A00
1291A_G649:U723_A128
1292A_G650:C722_A119
1293A_G651:C721_A119
1295A_G653:C719_A119
1296A_G654:C718_A119
1298A_G656:C700_A119
1299A_G657:A699_A18
1307A_G665:C691_A119
1308A_G666:C690_A119
1310A_G668:U688_A00
1321A_G671:C682_A119
1323A_G673:U680_A00
1324A_G674:A679_A1011
1326A_G707:A648_A39
1327A_G708:C715_A119
1329A_G710:G713_A00
1249A_G738:C569_A119
1252A_G741:A566_A100
1254A_G743:G564_A40
1255A_G744:U563_A128
1257A_G746:C561_A119
1259A_G748:A799_A00
1332A_G752:C793_A119
1334A_G754:C791_A119
1336A_G756:C789_A119
1337A_G757:C788_A119
1338A_G761:U787_A128
1345A_G768:C780_A119
1346A_G769:C779_A119
1239A_G804:C856_A119
1241A_G806:C854_A119
1243A_G808:C852_A119
1349A_G812:C834_A119
1350A_G813:C833_A119
1356A_G819:U827_A128
1357A_G820:C826_A119
1358A_G821:C825_A00
1359A_G838:C845_A119
1361A_G862:C889_A119
1362A_G863:U888_A128
1363A_G864:C887_A119
1364A_G865:A886_A1011
1368A_G871:U882_A128
1369A_G872:C881_A119
1372A_G875:A878_A00
19A_G893:C19_A119
110A_G894:C18_A119
115A_G899:C1377_A119
118A_G902:U1373_A128
119A_G904:U1372_A128
120A_G905:C1371_A119
121A_G906:C1370_A119
125A_G910:C1366_A119
1396A_G940:C949_A119
1397A_G943:C1382_A00
1416A_G964:C1199_A10
1417A_G965:C1198_A119
1425A_G980:C1020_A00
1433A_G987:U998_A00
1434A_G988:C997_A119
1435A_G989:C996_A00
1437A_G991:A994_A100
1427A_G1004:A1017_A00
1431A_G1009:G1013_A00
1438A_G1029:C1191_A119
1439A_G1030:C1190_A119
1440A_G1032:C1189_A10
1445A_G1039:C1184_A119
1446A_G1040:U1180_A128
1449A_G1043:C1176_A119
1452A_G1046:C1173_A00
1454A_G1050:C1089_A119
1458A_G1054:C1085_A119
1460A_G1056:U1065_A128
1463A_G1059:A1062_A00
1466A_G1069:C1080_A10
1467A_G1070:C1079_A119
1468A_G1071:C1078_A119
1474A_G1099:A1161_A50
1478A_G1102:C1135_A10
1482A_G1106:C1131_A10
1483A_G1109:C1127_A119
1486A_G1115:C1123_A00
1487A_G1116:G1120_A00
1485A_G1121:G1124_A36
1475A_G1138:A1160_A00
1491A_G1142:A1157_A18
1495A_G1146:C1153_A119
1496A_G1148:A1151_A00
1497A_G1205:C1344_A119
1387A_G1212:U927_A128
1389A_G1214:C925_A119
1500A_G1222:C1277_A119
1509A_G1234:C1265_A119
1511A_G1236:C1263_A119
1517A_G1246:C1251_A119
1399A_G1285:A1314_A911
1400A_G1286:A1313_A00
1404A_G1290:C1309_A119
1405A_G1291:C1308_A119
1406A_G1292:C1307_A119
1407A_G1293:C1306_A119
1377A_G1324:C917_A119
1523A_G1334:C1351_A119
1525A_G1336:C1349_A119
1526A_G1337:C1348_A119
1530A_G1383:C1478_A119
1534A_G1387:C1473_A119
1538A_G1392:C1467_A119
1543A_G1397:U1462_A128
1544A_G1398:C1461_A119
1546A_G1403:C1456_A119
1547A_G1404:C1455_A119
1548A_G1405:C1454_A10
1557A_G1414:A1445_A100
1559A_G1417:C1443_A119
1562A_G1420:C1440_A119
1565A_G1427:C1436_A119
1570A_G1485:C1504_A119
1573A_G1488:C1501_A119
16A_U12:G22_A128
18A_U13:U20_A00
132A_U30:A536_A120
138A_U37:A392_A221
139A_U49:U360_A40
144A_U56:A351_A120
150A_U62:G98_A128
182A_U107:A308_A120
198A_U118:G231_A128
1102A_U122:G227_A128
1105A_U127:U224_A116
1129A_U158:G151_A128
1135A_U164:A145_A424
1144A_U174:A201_A00
1110A_U194:G183_A128
1112A_U196:C181_A00
1114A_U198:A179_A120
1148A_U244:G270_A128
1149A_U247:A269_A120
1150A_U248:A268_A120
1153A_U251:A265_A120
1159A_U289:A298_A120
1161A_U291:G296_A128
176A_U335:A344_A120
1168A_U382:G371_A128
1183A_U399:U481_A30
1184A_U400:A482_A323
1188A_U422:G411_A128
1194A_U429:A403_A120
1197A_U432:A479_A424
1223A_U495:A522_A120
1248A_U554:A842_A120
1264A_U619:A585_A120
1273A_U629:G576_A128
1285A_U642:A729_A120
1294A_U652:A720_A120
1297A_U655:G717_A128
1302A_U660:G696_A10
1303A_U661:A695_A120
1311A_U669:A687_A424
1251A_U740:G567_A128
1335A_U755:A790_A120
1246A_U803:A850_A323
1245A_U810:A849_A221
1351A_U814:G832_A128
1353A_U816:G830_A128
1355A_U818:G828_A128
1366A_U868:A884_A424
113A_U897:G15_A128
114A_U898:A1378_A120
1381A_U937:U933_A213
1394A_U938:A1182_A221
1422A_U974:A1026_A00
1436A_U990:G995_A128
1442A_U1034:G1187_A128
1444A_U1038:A1185_A120
1450A_U1044:U1175_A116
1456A_U1052:A1087_A120
1459A_U1055:A1084_A120
1464A_U1067:G1076_A00
1465A_U1068:G1081_A10
1469A_U1072:U1077_A116
1479A_U1103:A1134_A120
1480A_U1104:A1133_A00
1488A_U1117:C1111_A00
1493A_U1141:G1155_A00
1388A_U1213:A926_A120
1391A_U1216:A923_A120
1402A_U1288:U1311_A00
1403A_U1289:A1310_A10
1408A_U1294:A1305_A120
1410A_U1296:A1300_A424
1375A_U1322:G919_A128
1380A_U1326:U1358_A213
1518A_U1329:G1328_A00
1521A_U1332:G1353_A128
1528A_U1339:A1345_A00
1535A_U1388:U1472_A00
1542A_U1396:G1463_A128
1550A_U1407:G1452_A128
1552A_U1409:A1450_A00
1560A_U1418:C1442_A00
1568A_U1430:G1433_A60
1572A_U1487:G1502_A128
1574A_U1489:G1500_A128
1578W_A1:U36_X120
1579W_A2:U35_X120
1580W_A3:70U34_X120
1581X_G30:C40_X119

Leontis/Westhof Classification Legend

Base-Phosphate Interactions Legend

Base-Stacking Interactions Legend

Saenger Classification Legend

Correspondence of Leontis/Westhof names to Saenger numbering (table)