4V6I Internal, Hairpin and 3-way Junction Loop Motifs
Valid loops
# | loop id | location | annotation (mapped to, source) | motif group (similar to) |
---|---|---|---|---|
1/CA/7:17 | NA | NA | ||
1/CA/154:160 | NA | NA | ||
1/CA/226:232 | geometric HL_361D_002 | NA HL_18218.2* | ||
1/CA/275:281 | NA | NA | ||
1/CA/329:339 | geometric HL_4WSM_226 | NA HL_87219.4* | ||
1/CA/368:373 | homologous HL_4V88_194 | NA HL_18785.1* | ||
1/CA/393:404 | homologous HL_4V88_195 | NA HL_22443.1* | ||
1/CA/414:419 | geometric HL_5U3G_001 | NA HL_40469.1* | ||
1/CA/450:456 | NA | NA | ||
1/CA/491:496 | geometric HL_5U3G_001 | NA HL_40469.1* | ||
1/CA/568:575 | NA | NA | ||
1/CA/663:669 | geometric HL_5NFV_001 | NA HL_58912.1* | ||
1/CA/827:845 | NA | NA | ||
1/CA/899:910 | NA | NA | ||
1/CA/937:942 | Other HL homologous HL_4V88_207 | NA HL_43074.18* | ||
1/CA/997:1007 | homologous HL_4V88_208 | NA HL_87219.4* | ||
1/CA/1057:1062 | NA | NA | ||
1/CA/1084:1089 | Other HL homologous HL_4V88_210 | NA HL_43074.18* | ||
1/CA/1121:1126 | GNRA homologous HL_4V88_211 | NA HL_43074.18* | ||
1/CA/1233:1246 | NA | NA | ||
1/CA/1296:1301 | GNRA homologous HL_4V88_214 | NA HL_43074.18* | ||
1/CA/1309:1316 | homologous HL_4V88_215 | NA HL_54035.7* | ||
1/CA/1395:1403 | NA | NA | ||
1/CA/1501:1506 | GNRA homologous HL_4V88_218 | NA HL_43074.18* | ||
1/CA/1550:1561 | homologous HL_4V88_219 | NA HL_32458.3* | ||
1/CA/1592:1604 | NA | NA | ||
1/CA/1698:1703 | geometric HL_5M3H_001 | NA HL_35894.3* | ||
1/CA/1778:1783 | Other HL homologous HL_4V88_222 | NA HL_43074.18* | ||
1/CB/13:22 | NA | NA | ||
1/CB/31:39 | NA | NA | ||
1/CB/52:60 | NA | NA | ||
1/DA/38:45 | homologous HL_5TBW_001 | NA HL_23481.5* | ||
1/DA/69:74 | NA | NA | ||
1/DA/90:96 | homologous HL_5TBW_003 | NA HL_67216.5* | ||
1/DA/132:136 | NA | NA | ||
1/DA/194:201 | T-loop with 1 bulged base homologous HL_5TBW_005 | NA HL_68493.6* | ||
1/DA/216:224 | NA | NA | ||
1/DA/278:287 | homologous HL_5TBW_008 | NA HL_54035.7* | ||
1/DA/303:312 | homologous HL_5TBW_009 | NA HL_46142.8* | ||
1/DA/357:362 | Other HL homologous HL_5TBW_010 | NA HL_43074.18* | ||
1/DA/382:387 | GNRA homologous HL_5TBW_011 | NA HL_43074.18* | ||
1/DA/463:468 | geometric HL_4WF9_003 | NA HL_62869.3* | ||
1/DA/543:548 | NA | NA | ||
1/DA/599:604 | GNRA homologous HL_5TBW_013 | NA HL_43074.18* | ||
1/DA/640:649 | T-loop with 2 stacked bulged bases homologous HL_5TBW_014 | NA HL_33239.17* | ||
1/DA/687:693 | NA | NA | ||
1/DA/707:712 | GNRA homologous HL_5TBW_016 | NA HL_43074.18* | ||
1/DA/732:737 | geometric HL_361D_002 | NA HL_18218.2* | ||
1/DA/763:768 | NA | NA | ||
1/DA/844:849 | GNRA homologous HL_5TBW_019 | NA HL_43074.18* | ||
1/DA/876:885 | homologous HL_5TBW_020 | NA HL_39334.5* | ||
1/DA/910:918 | geometric HL_6CF2_001 | NA HL_80105.3* | ||
1/DA/957:964 | geometric HL_361D_002 | NA HL_18218.2* | ||
1/DA/1076:1083 | NA | NA | ||
1/DA/1126:1132 | GNRA homologous HL_5TBW_025 | NA HL_43074.18* | ||
1/DA/1148:1155 | homologous HL_5TBW_026 | NA HL_72451.5* | ||
1/DA/1239:1249 | homologous HL_5TBW_139 | NA | ||
1/DA/1267:1274 | homologous HL_5TBW_140 | NA | ||
1/DA/1403:1408 | GNRA geometric HL_3W3S_003 | NA HL_43074.18* | ||
1/DA/1462:1470 | T-loop with 2 stacked bulged bases homologous HL_5TBW_031 | NA HL_33239.17* | ||
1/DA/1506:1512 | homologous HL_5TBW_032 | NA HL_86880.5* | ||
1/DA/1544:1549 | Other HL homologous HL_5TBW_033 | NA HL_43074.18* | ||
1/DA/1565:1574 | NA | NA | ||
1/DA/1599:1608 | homologous HL_5TBW_035 | NA HL_78457.4* | ||
1/DA/1679:1689 | NA | NA | ||
1/DA/1719:1725 | Other HL geometric HL_4V9F_039 | NA HL_68493.6* | ||
1/DA/1760:1765 | Other HL geometric HL_4Y1M_004 | NA HL_43074.18* | ||
1/DA/1792:1796 | homologous HL_5TBW_040 | NA HL_69353.7* | ||
1/DA/1844:1851 | homologous HL_5TBW_041 | NA HL_66171.3* | ||
1/DA/1862:1868 | NA | NA | ||
1/DA/1923:1928 | UNCG homologous HL_5TBW_043 | NA HL_79299.11* | ||
1/DA/2008:2013 | geometric HL_2Y9H_003 | NA HL_98557.5* | ||
1/DA/2065:2071 | geometric HL_3IGI_004 | NA HL_91287.1* | ||
1/DA/2110:2114 | geometric HL_4V9F_046 | NA HL_79272.3* | ||
1/DA/2135:2145 | homologous HL_5TBW_046 | NA HL_43613.4* | ||
1/DA/2220:2225 | Other HL homologous HL_5TBW_048 | NA HL_43074.18* | ||
1/DA/2253:2263 | homologous HL_5TBW_049 | NA HL_98248.1* | ||
1/DA/2292:2300 | homologous HL_5TBW_050 | NA HL_53760.4* | ||
1/DA/2369:2378 | homologous HL_5TBW_051 | NA HL_90642.5* | ||
1/DA/2470:2475 | NA | NA | ||
1/DA/2536:2543 | geometric HL_7A0S_056 | NA HL_93727.5* | ||
1/DA/2568:2573 | geometric HL_4YAZ_004 | NA HL_57052.3* | ||
1/DA/2616:2624 | homologous HL_5TBW_054 | NA HL_46891.3* | ||
1/DA/2633:2645 | NA | NA | ||
1/DA/2673:2681 | NA | NA | ||
1/DA/2693:2700 | homologous HL_5TBW_057 | NA HL_46142.8* | ||
1/DA/2724:2732 | NA | NA | ||
1/DA/2744:2749 | GNRA homologous HL_5TBW_059 | NA HL_43074.18* | ||
1/DA/2776:2784 | homologous HL_5TBW_060 | NA HL_46142.8* | ||
1/DA/2840:2848 | homologous HL_5TBW_061 | NA HL_36421.5* | ||
1/DA/2897:2904 | homologous HL_5TBW_062 | NA HL_92681.5* | ||
1/DA/2920:2926 | geometric HL_5TBW_063 | NA HL_26055.6* | ||
1/DA/2963:2968 | GNRA homologous HL_5TBW_064 | NA HL_43074.18* | ||
1/DA/3025:3030 | GNRA geometric HL_5J7L_197 | NA HL_43074.18* | ||
1/DA/3068:3073 | Ribsomal LSU H95 homologous HL_5TBW_066 | NA HL_67719.1* | ||
1/DA/3110:3124 | homologous HL_5TBW_067 | NA HL_56677.5* | ||
1/DA/3214:3219 | NA | NA | ||
1/DA/3240:3247 | NA | NA | ||
1/DA/3303:3311 | homologous HL_5TBW_070 | NA HL_05018.6* | ||
1/DA/3349:3356 | geometric HL_4WF9_041 | NA HL_93727.5* | ||
1/DB/47:56 | geometric HL_4V9F_001 | NA HL_55136.1* | ||
1/DB/109:113 | geometric HL_5TBW_006 | NA HL_98557.5* | ||
1/DB/123:130 | geometric HL_6CF2_001 | NA HL_80105.3* | ||
1/DC/36:41 | NA | NA | ||
1/DC/85:90 | NA | NA |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
HL_4V6I_003 | NA | ||
HL_4V6I_021 | homologous HL_4V88_212 | ||
HL_4V6I_025 | NA | ||
HL_4V6I_057 | NA | ||
HL_4V6I_063 | NA | ||
HL_4V6I_070 | NA | ||
HL_4V6I_082 | GNRA homologous HL_5TBW_047 |
Valid loops
# | loop id | location | annotation (mapped to, source) | motif group (similar to) |
---|---|---|---|---|
1/CA/24:27, 1/CA/599:601 | geometric IL_4V83_235 | NA IL_01312.13* | ||
1/CA/37:41, 1/CA/466:471 | homologous IL_4V88_386 | NA IL_53318.1* | ||
1/CA/50:52, 1/CA/428:429 | Minor groove platform homologous IL_4V88_388 | NA IL_06437.11* | ||
1/CA/58:62, 1/CA/88:89 | Multiple bulged bases geometric IL_4YAZ_007 | NA IL_66450.1* | ||
1/CA/63:69, 1/CA/82:87 | NA | NA | ||
1/CA/109:113, 1/CA/301:305 | geometric IL_5TBW_121 | NA IL_05867.1* | ||
1/CA/113:116, 1/CA/300:301 | Multiple bulged bases geometric IL_4V88_392 | NA IL_13730.12* | ||
1/CA/149:152, 1/CA/162:165 | NA | NA | ||
1/CA/177:180, 1/CA/194:197 | Tandem non-canonical cWW pairs geometric IL_6JDV_002 | NA IL_85877.10* | ||
1/CA/270:272, 1/CA/284:285 | Single stack bend geometric IL_7A0S_022 | NA IL_04038.4* | ||
1/CA/311:317, 1/CA/347:355 | NA | NA | ||
1/CA/363:366, 1/CA/375:381 | NA | NA | ||
1/CA/389:391, 1/CA/406:408 | Isolated cWH basepair homologous IL_4V88_405 | NA IL_42589.6* | ||
1/CA/411:413, 1/CA/420:422 | Isolated near basepair homologous IL_4V88_406 | NA IL_01312.13* | ||
1/CA/439:441, 1/CA/463:464 | Single bulged U geometric IL_4LFB_014 | NA IL_83039.11* | ||
1/CA/443:447, 1/CA/460:461 | C-loop geometric IL_5J7L_018 | NA IL_08376.2* | ||
1/CA/447:448, 1/CA/458:460 | Single bulged G geometric IL_5J7L_019 | NA IL_59137.10* | ||
1/CA/481:482, 1/CA/505:507 | Single stack bend geometric IL_7KGA_003 | NA IL_04038.4* | ||
1/CA/562:568, 1/CA/575:583 | homologous IL_4V88_415 | NA IL_04667.1* | ||
1/CA/616:622, 1/CA/1104:1105 | homologous IL_4V88_416 | NA IL_12418.1* | ||
1/CA/624:626, 1/CA/973:975 | homologous IL_4V88_417 | NA IL_01312.13* | ||
1/CA/627:631, 1/CA/968:972 | tSH-tHW-tHS homologous IL_4V88_418 | NA IL_39521.5* | ||
1/CA/660:663, 1/CA/669:672 | Tandem non-canonical cWW pairs geometric IL_4WF9_109 | NA IL_85877.10* | ||
1/CA/868:869, 1/CA/958:960 | Major groove platform geometric IL_7RQB_090 | NA IL_80663.10* | ||
1/CA/871:874, 1/CA/953:956 | tSH-tHW geometric IL_5UNE_005 | NA IL_08757.3* | ||
1/CA/874:878, 1/CA/950:953 | Tandem non-canonical cWW pairs homologous IL_4V88_431 | NA IL_85877.10* | ||
1/CA/885:888, 1/CA/924:927 | Tandem non-canonical cWW pairs homologous IL_4V88_432 | NA IL_85877.10* | ||
1/CA/892:899, 1/CA/910:920 | NA | NA | ||
1/CA/985:990, 1/CA/1014:1016 | Other IL homologous IL_4V88_435 | NA IL_51590.1* | ||
1/CA/990:994, 1/CA/1010:1014 | tSH-tHW-tHS geometric IL_4LFB_033 | NA IL_39521.5* | ||
1/CA/1041:1045, 1/CA/1073:1077 | geometric IL_5TBW_121 | NA IL_05867.1* | ||
1/CA/1051:1053, 1/CA/1066:1067 | Single stack bend geometric IL_4C7O_002 | NA IL_72766.2* | ||
1/CA/1053:1057, 1/CA/1062:1066 | NA | NA | ||
1/CA/1111:1118, 1/CA/1129:1134 | NA | NA | ||
1/CA/1146:1151, 1/CA/1627:1632 | NA | NA | ||
1/CA/1173:1175, 1/CA/1464:1466 | homologous IL_4V88_444 | NA IL_01312.13* | ||
1/CA/1178:1179, 1/CA/1459:1461 | Minor groove platform homologous IL_4V88_445 | NA IL_06437.11* | ||
1/CA/1268:1270, 1/CA/1440:1441 | Single bulged U homologous IL_4V88_449 | NA IL_83039.11* | ||
1/CA/1271:1275, 1/CA/1437:1439 | Isolated non-canonical cWW with bulges geometric IL_3KTW_002 | NA IL_01312.13* | ||
1/CA/1280:1281, 1/CA/1426:1428 | Single bulged A homologous IL_4V88_452 | NA IL_80007.16* | ||
1/CA/1290:1293, 1/CA/1322:1325 | Tandem non-canonical cWW pairs geometric IL_6JDV_002 | NA IL_85877.10* | ||
1/CA/1333:1334, 1/CA/1417:1419 | NA | NA | ||
1/CA/1335:1337, 1/CA/1415:1416 | Single stack bend geometric IL_5VSU_003 | NA IL_06437.11* | ||
1/CA/1340:1342, 1/CA/1383:1384 | NA | NA | ||
1/CA/1345:1348, 1/CA/1377:1380 | NA | NA | ||
1/CA/1351:1355, 1/CA/1368:1374 | NA | NA | ||
1/CA/1540:1545, 1/CA/1566:1571 | homologous IL_4V88_462 | NA IL_19954.1* | ||
1/CA/1636:1641, 1/CA/1760:1767 | NA | NA | ||
1/CA/1642:1644, 1/CA/1757:1759 | homologous IL_4V88_465 | NA IL_01312.13* | ||
1/CA/1644:1647, 1/CA/1753:1757 | NA | NA | ||
1/CA/1649:1652, 1/CA/1748:1751 | NA | NA | ||
1/CA/1653:1656, 1/CA/1744:1747 | Double sheared geometric IL_4WF9_016 | NA IL_09705.7* | ||
1/CA/1656:1658, 1/CA/1743:1744 | Single stack bend geometric IL_5J7L_032 | NA IL_04038.4* | ||
1/CA/1664:1667, 1/CA/1734:1737 | Tandem non-canonical cWW pairs geometric IL_4WF9_109 | NA IL_85877.10* | ||
1/CA/1669:1672, 1/CA/1729:1732 | Double sheared homologous IL_4V88_471 | NA IL_09705.7* | ||
1/CA/1672:1674, 1/CA/1727:1729 | geometric IL_1YZ9_001 | NA IL_01312.13* | ||
1/CA/1675:1678, 1/CA/1723:1726 | Tandem non-canonical cWW pairs geometric IL_5TBW_129 | NA IL_85877.10* | ||
1/CA/1678:1682, 1/CA/1719:1723 | Triple sheared homologous IL_4V88_474 | NA IL_56467.6* | ||
1/CA/1688:1690, 1/CA/1711:1713 | Other IL homologous IL_4V88_476 | NA IL_67621.5* | ||
1/CA/1693:1695, 1/CA/1706:1708 | geometric IL_5TBW_112 | NA IL_01312.13* | ||
1/DA/7:8, 1/DB/150:152 | Single stack bend geometric IL_7KGA_006 | NA IL_06437.11* | ||
1/DA/13:15, 1/DB/144:145 | Single stack bend geometric IL_7A0S_054 | NA IL_04038.4* | ||
1/DA/27:28, 1/DA/56:58 | Single stack bend geometric IL_4V9F_005 | NA IL_04038.4* | ||
1/DA/32:38, 1/DA/45:52 | 8x7 Sarcin-Ricin; G-bulge geometric IL_4V9F_006 | NA IL_04346.5* | ||
1/DA/82:89, 1/DA/97:103 | homologous IL_5TBW_006 | NA IL_29509.1* | ||
1/DA/125:127, 1/DA/141:143 | homologous IL_5TBW_008 | NA IL_01312.13* | ||
1/DA/159:160, 1/DA/260:262 | NA | NA | ||
1/DA/161:164, 1/DA/257:259 | geometric IL_4N0T_004 | NA IL_87332.1* | ||
1/DA/169:170, 1/DA/248:253 | NA | NA | ||
1/DA/176:179, 1/DA/237:242 | NA | NA | ||
1/DA/185:186, 1/DA/229:231 | NA | NA | ||
1/DA/189:191, 1/DA/204:205 | Single bulged U geometric IL_4V9F_013 | NA IL_83039.11* | ||
1/DA/328:332, 1/DB/31:33 | Major groove platform with extra cWW geometric IL_4V9F_003 | NA IL_95485.6* | ||
1/DA/336:339, 1/DB/25:27 | Isolated non-canonical cWW with bulges geometric IL_3TD0_005 | NA IL_01312.13* | ||
1/DA/376:379, 1/DA/390:403 | homologous IL_5TBW_014 | NA IL_60992.5* | ||
1/DA/404:410, 1/DB/13:19 | Triple sheared with non-canonical cWW homologous IL_5TBW_015 | NA IL_66414.5* | ||
1/DA/429:431, 1/DA/628:630 | homologous IL_5TBW_016 | NA IL_01312.13* | ||
1/DA/460:462, 1/DA/469:470 | Single stack bend geometric IL_4WF9_007 | NA IL_04038.4* | ||
1/DA/511:512, 1/DA/578:580 | NA | NA | ||
1/DA/517:525, 1/DA/567:573 | NA | NA | ||
1/DA/531:534, 1/DA/559:561 | NA | NA | ||
1/DA/537:538, 1/DA/553:556 | NA | NA | ||
1/DA/594:597, 1/DA/606:608 | NA | NA | ||
1/DA/668:670, 1/DA/792:794 | homologous IL_5TBW_021 | NA IL_01312.13* | ||
1/DA/679:683, 1/DA/697:701 | NA | NA | ||
1/DA/725:726, 1/DA/743:745 | Single stack bend geometric IL_7KGA_006 | NA IL_06437.11* | ||
1/DA/726:728, 1/DA/741:743 | geometric IL_5UNE_006 | NA IL_01312.13* | ||
1/DA/755:757, 1/DA/774:777 | geometric IL_4N0T_004 | NA IL_87332.1* | ||
1/DA/758:763, 1/DA/768:773 | geometric IL_5TBW_026 | NA IL_19954.1* | ||
1/DA/803:805, 1/DA/938:940 | CC cWW geometric IL_4E59_001 | NA IL_01312.13* | ||
1/DA/805:809, 1/DA/931:938 | homologous IL_5TBW_028 | NA IL_17470.5* | ||
1/DA/833:834, 1/DA/859:861 | Single bulged G geometric IL_5J7L_262 | NA IL_59137.10* | ||
1/DA/834:839, 1/DA/854:859 | NA | NA | ||
1/DA/869:872, 1/DA/888:890 | NA | NA | ||
1/DA/873:875, 1/DA/886:887 | Single bulged U homologous IL_5TBW_032 | NA IL_83039.11* | ||
1/DA/907:909, 1/DA/919:923 | Multiple bulged bases homologous IL_5TBW_033 | NA IL_90991.5* | ||
1/DA/954:956, 1/DA/965:967 | homologous IL_5TBW_034 | NA IL_01312.13* | ||
1/DA/969:970, 1/DA/1111:1113 | Single stack bend homologous IL_5TBW_035 | NA IL_04038.4* | ||
1/DA/982:984, 1/DA/1100:1104 | NA | NA | ||
1/DA/988:990, 1/DA/1061:1063 | Stack and bulge geometric IL_2ET8_001 | NA IL_04038.4* | ||
1/DA/991:998, 1/DA/1052:1060 | NA | NA | ||
1/DA/999:1001, 1/DA/1050:1051 | Single stack bend geometric IL_5TBW_375 | NA IL_04038.4* | ||
1/DA/1001:1010, 1/DA/1042:1050 | NA | NA | ||
1/DA/1010:1013, 1/DA/1039:1042 | Double sheared geometric IL_4ZNP_002 | NA IL_09705.7* | ||
1/DA/1013:1020, 1/DA/1034:1039 | NA | NA | ||
1/DA/1067:1071, 1/DA/1089:1093 | geometric IL_5TBW_121 | NA IL_05867.1* | ||
1/DA/1072:1076, 1/DA/1083:1088 | NA | NA | ||
1/DA/1120:1122, 1/DA/1136:1138 | homologous IL_5TBW_046 | NA IL_01312.13* | ||
1/DA/1167:1171, 1/DA/1328:1332 | UAA/GAN homologous IL_5TBW_048 | NA IL_53523.5* | ||
1/DA/1173:1180, 1/DA/1325:1326 | SSU/LSU pseudoknot geometric IL_4V9F_038 | NA IL_15861.6* | ||
1/DA/1180:1182, 1/DA/1324:1325 | Single bulged U homologous IL_5TBW_050 | NA IL_83039.11* | ||
1/DA/1187:1206, 1/DA/1298:1319 | NA | NA | ||
1/DA/1207:1210, 1/DA/1295:1297 | Isolated non-canonical cWW with bulges geometric IL_3TD0_002 | NA IL_01312.13* | ||
1/DA/1218:1226, 1/DA/1283:1287 | Kink-turn homologous IL_5TBW_054 | NA IL_90538.3* | ||
1/DA/1234:1238, 1/DA/1250:1254 | NA | NA | ||
1/DA/1262:1266, 1/DA/1275:1277 | Major groove platform with extra cWW homologous IL_5TBW_056 | NA IL_95485.6* | ||
1/DA/1376:1378, 1/DA/1428:1431 | Isolated cWS basepair homologous IL_5TBW_057 | NA IL_01312.13* | ||
1/DA/1388:1394, 1/DA/1415:1419 | NA | NA | ||
1/DA/1394:1396, 1/DA/1413:1415 | geometric IL_1MFQ_003 | NA IL_01312.13* | ||
1/DA/1444:1451, 1/DA/2353:2359 | 8x7 Sarcin-Ricin with CC bifurcated pair; G-bulge geometric IL_4V9F_012 | NA IL_59724.1* | ||
1/DA/1492:1495, 1/DA/1835:1836 | Major groove platform; stack outside cWW geometric IL_7RQB_050 | NA IL_70995.6* | ||
1/DA/1501:1505, 1/DA/1513:1515 | C-loop geometric IL_7RQB_104 | NA IL_63596.4* | ||
1/DA/1532:1536, 1/DA/1585:1590 | UAA/GAN homologous IL_5TBW_063 | NA IL_53523.5* | ||
1/DA/1624:1630, 1/DA/1811:1820 | NA | NA | ||
1/DA/1645:1649, 1/DA/1806:1810 | Triple sheared homologous IL_5TBW_067 | NA IL_56467.6* | ||
1/DA/1661:1663, 1/DA/1786:1788 | geometric IL_5ZTM_001 | NA IL_01312.13* | ||
1/DA/1665:1671, 1/DA/1776:1784 | NA | NA | ||
1/DA/1695:1698, 1/DA/1748:1752 | geometric IL_7RQB_046 | NA IL_68574.2* | ||
1/DA/1698:1707, 1/DA/1739:1748 | NA | NA | ||
1/DA/1707:1711, 1/DA/1735:1739 | Tandem non-canonical cWW pairs geometric IL_4EYA_010 | NA IL_85877.10* | ||
1/DA/1711:1718, 1/DA/1726:1735 | NA | NA | ||
1/DA/1883:1889, 1/DA/2346:2349 | homologous IL_5TBW_074 | NA IL_79393.8* | ||
1/DA/1895:1897, 1/DA/2338:2340 | Isolated tWW turn homologous IL_5TBW_075 | NA IL_54997.5* | ||
1/DA/1898:1901, 1/DA/2336:2337 | Major groove platform; stack outside cWW geometric IL_4WF9_064 | NA IL_70995.6* | ||
1/DA/1901:1906, 1/DA/2333:2336 | Intercalated tWH homologous IL_5TBW_077 | NA IL_98882.3* | ||
1/DA/1918:1923, 1/DA/1928:1934 | tSH-tSH-tHH-tHS geometric IL_4V9F_063 | NA IL_66584.5* | ||
1/DA/1940:1942, 1/DA/2106:2108 | homologous IL_5TBW_079 | NA IL_01312.13* | ||
1/DA/1947:1948, 1/DA/2098:2101 | NA | NA | ||
1/DA/1965:1968, 1/DA/2054:2057 | NA | NA | ||
1/DA/1971:1976, 1/DA/2046:2051 | NA | NA | ||
1/DA/1981:1982, 1/DA/2039:2041 | Single stack bend geometric IL_4WF9_007 | NA IL_04038.4* | ||
1/DA/1988:1991, 1/DA/2030:2033 | Tandem non-canonical cWW pairs geometric IL_5EW4_001 | NA IL_85877.10* | ||
1/DA/1994:1996, 1/DA/2025:2027 | geometric IL_7A0S_107 | NA IL_01312.13* | ||
1/DA/2128:2130, 1/DA/2322:2325 | Self complementary geometric IL_5M0H_001 | NA IL_01312.13* | ||
1/DA/2156:2162, 1/DA/2172:2180 | Kink-turn related geometric IL_7RQB_070 | NA IL_17069.3* | ||
1/DA/2196:2199, 1/DA/2245:2246 | Major groove outside cWW, minor groove, intercalation pocket homologous IL_5TBW_084 | NA IL_72766.2* | ||
1/DA/2200:2201, 1/DA/2241:2244 | Major groove outside cWW, minor groove, intercalation pocket homologous IL_5TBW_085 | NA IL_13730.12* | ||
1/DA/2204:2206, 1/DA/2237:2238 | Single stack bend geometric IL_4V9F_081 | NA IL_04038.4* | ||
1/DA/2206:2210, 1/DA/2235:2237 | NA | NA | ||
1/DA/2211:2217, 1/DA/2228:2234 | homologous IL_5TBW_088 | NA IL_36973.5* | ||
1/DA/2276:2277, 1/DA/2307:2310 | geometric IL_4V9F_070 | NA IL_69632.1* | ||
1/DA/2277:2288, 1/DA/2304:2307 | homologous IL_5TBW_090 | NA IL_45481.1* | ||
1/DA/2391:2394, 1/DA/2986:2988 | Major groove platform with extra pair homologous IL_5TBW_091 | NA IL_87630.5* | ||
1/DA/2396:2398, 1/DA/2981:2984 | Minor groove platform with intercalation homologous IL_5TBW_092 | NA IL_86964.1* | ||
1/DA/2409:2411, 1/DA/2811:2812 | Single bulged U homologous IL_5TBW_093 | NA IL_83039.11* | ||
1/DA/2412:2413, 1/DA/2807:2810 | Minor groove platform homologous IL_5TBW_094 | NA IL_06437.11* | ||
1/DA/2423:2425, 1/DA/2604:2607 | Isolated tHS basepair with bulges homologous IL_5TBW_095 | NA IL_38958.6* | ||
1/DA/2444:2445, 1/DA/2501:2503 | NA | NA | ||
1/DA/2451:2462, 1/DA/2493:2495 | NA | NA | ||
1/DA/2466:2469, 1/DA/2476:2489 | NA | NA | ||
1/DA/2666:2668, 1/DA/2686:2690 | NA | NA | ||
1/DA/2718:2721, 1/DA/2735:2738 | NA | NA | ||
1/DA/2823:2824, 1/DA/2865:2867 | Major groove platform geometric IL_4V9F_082 | NA IL_80663.10* | ||
1/DA/2824:2826, 1/DA/2863:2865 | homologous IL_5TBW_103 | NA IL_05265.1* | ||
1/DA/2826:2828, 1/DA/2862:2863 | Major groove platform geometric IL_4V9F_083 | NA IL_95601.1* | ||
1/DA/2828:2831, 1/DA/2857:2862 | NA | NA | ||
1/DA/2835:2839, 1/DA/2849:2853 | Triple sheared homologous IL_5TBW_106 | NA IL_56467.6* | ||
1/DA/2876:2877, 1/DA/2949:2951 | Major groove platform homologous IL_5TBW_107 | NA IL_80663.10* | ||
1/DA/2879:2881, 1/DA/2943:2947 | Isolated non-canonical cWW with bulges geometric IL_4V9F_087 | NA IL_55456.1* | ||
1/DA/2881:2882, 1/DA/2940:2943 | Multiple bulged bases homologous IL_5TBW_109 | NA IL_13730.12* | ||
1/DA/2889:2891, 1/DA/2912:2914 | Not an internal loop geometric IL_5VCI_005 | NA IL_04038.4* | ||
1/DA/2891:2892, 1/DA/2909:2912 | Minor groove platform with intercalation homologous IL_5TBW_111 | NA IL_95601.1* | ||
1/DA/2918:2920, 1/DA/2926:2928 | homologous IL_5TBW_112 | NA IL_01312.13* | ||
1/DA/2960:2961, 1/DA/2970:2972 | Single bulged A geometric IL_5TBW_372 | NA IL_80007.16* | ||
1/DA/3003:3007, 1/DA/3139:3145 | NA | NA | ||
1/DA/3012:3014, 1/DA/3040:3042 | homologous IL_5TBW_115 | NA IL_01312.13* | ||
1/DA/3019:3025, 1/DA/3030:3035 | Sarcin-Ricin target in LSU H95; G-bulge geometric IL_4V9F_092 | NA IL_35110.5* | ||
1/DA/3047:3051, 1/DA/3091:3094 | Major groove minor groove platform with tHH homologous IL_5TBW_117 | NA IL_28060.3* | ||
1/DA/3054:3059, 1/DA/3084:3088 | NA | NA | ||
1/DA/3103:3107, 1/DA/3127:3131 | NA | NA | ||
1/DA/3164:3166, 1/DA/3284:3286 | geometric IL_3RW6_004 | NA IL_01312.13* | ||
1/DA/3211:3214, 1/DA/3219:3224 | NA | NA | ||
1/DA/3233:3235, 1/DA/3253:3254 | NA | NA | ||
1/DA/3236:3238, 1/DA/3249:3252 | geometric IL_4N0T_004 | NA IL_87332.1* | ||
1/DA/3300:3303, 1/DA/3311:3314 | Tandem non-canonical cWW pairs geometric IL_1D4R_003 | NA IL_85877.10* | ||
1/DA/3324:3325, 1/DA/3381:3383 | Single stack bend geometric IL_5TBW_035 | NA IL_04038.4* | ||
1/DA/3332:3337, 1/DA/3367:3371 | geometric IL_4WF9_108 | NA IL_83162.3* | ||
1/DA/3340:3345, 1/DA/3360:3364 | NA | NA | ||
1/DC/20:27, 1/DC/52:58 | NA | NA | ||
1/DC/28:31, 1/DC/46:51 | NA | NA | ||
1/DC/32:36, 1/DC/41:45 | NA | NA | ||
1/DC/70:78, 1/DC/97:103 | NA | NA |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
IL_4V6I_003 | geometric IL_4LFB_003 | ||
IL_4V6I_009 | NA | ||
IL_4V6I_014 | geometric IL_5Y58_001 | ||
IL_4V6I_022 | NA | ||
IL_4V6I_040 | NA | ||
IL_4V6I_045 | NA | ||
IL_4V6I_070 | Not an internal loop geometric IL_5VCI_005 | ||
IL_4V6I_085 | NA | ||
IL_4V6I_107 | NA | ||
IL_4V6I_129 | geometric IL_4KNQ_003 | ||
IL_4V6I_130 | Isolated cWH basepair geometric IL_6F4H_001 | ||
IL_4V6I_174 | NA | ||
IL_4V6I_192 | geometric IL_5VSU_002 | ||
IL_4V6I_200 | NA | ||
IL_4V6I_203 | NA |
Valid loops
# | loop id | location | annotation (mapped to, source) | motif group (similar to) |
---|---|---|---|---|
1/CA/41:42, 1/CA/433:439, 1/CA/464:466 | NA | NA | ||
1/CA/881:884, 1/CA/928:937, 1/CA/942:947 | homologous J3_4V88_033 | NA | ||
1/CA/1036:1040, 1/CA/1078:1083, 1/CA/1090:1095 | NA | NA | ||
1/CA/1161:1164, 1/CA/1581:1587, 1/CA/1609:1616 | NA | NA | ||
1/CA/1168:1171, 1/CA/1468:1470, 1/CA/1574:1577 | NA | NA | ||
1/CA/1180:1187, 1/CA/1198:1209, 1/CA/1454:1458 | NA | NA | ||
1/CA/1283:1289, 1/CA/1326:1333, 1/CA/1419:1424 | NA | NA | ||
1/CA/1293:1294, 1/CA/1303:1308, 1/CA/1317:1322 | NA | NA | ||
1/CA/1337:1338, 1/CA/1386:1392, 1/CA/1406:1415 | NA | NA | ||
1/CA/1470:1474, 1/CA/1533:1540, 1/CA/1571:1574 | NA | NA | ||
1/DA/186:189, 1/DA/205:214, 1/DA/226:229 | NA | NA | ||
1/DA/369:376, 1/DA/403:404, 1/DB/19:20 | homologous J3_5TBW_002 | NA | ||
1/DA/814:820, 1/DA/905:907, 1/DA/923:926 | NA | NA | ||
1/DA/828:831, 1/DA/863:867, 1/DA/892:897 | homologous J3_5TBW_005 | NA | ||
1/DA/1230:1232, 1/DA/1256:1262, 1/DA/1277:1279 | NA | NA | ||
1/DA/1479:1485, 1/DA/1857:1860, 1/DA/1870:1874 | NA | NA | ||
1/DA/1488:1491, 1/DA/1837:1843, 1/DA/1852:1854 | NA | NA | ||
1/DA/1526:1531, 1/DA/1591:1595, 1/DA/1612:1613 | homologous J3_5TBW_010 | NA | ||
1/DA/2432:2435, 1/DA/2512:2517, 1/DA/2590:2597 | homologous J3_5TBW_012 | NA | ||
1/DA/2529:2532, 1/DA/2547:2563, 1/DA/2578:2581 | NA | NA | ||
1/DA/2651:2653, 1/DA/2754:2765, 1/DA/2793:2798 | NA | NA | ||
1/DA/2664:2666, 1/DA/2690:2692, 1/DA/2701:2706 | homologous J3_5TBW_013 | NA | ||
1/DA/2886:2889, 1/DA/2914:2916, 1/DA/2930:2936 | NA | NA | ||
1/DA/3299:3300, 1/DA/3314:3320, 1/DA/3387:3389 | NA | NA | ||
1/DC/9:14, 1/DC/64:66, 1/DC/107:109 | NA | NA |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
J3_4V6I_015 | NA | ||
J3_4V6I_020 | NA | ||
J3_4V6I_021 | NA |
Coloring options: