7V2M Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_7V2M_001 | 1/A/13:23 | No text annotation | homologous HL_4LFB_001 HL_31940.1 | |
| HL_7V2M_002 | 1/A/71:93 | No text annotation | ||
| HL_7V2M_003 | 1/A/152:159 | GNRA with extra near cWW | homologous HL_6CZR_215 NA | |
| HL_7V2M_004 | 1/A/187:192 | No text annotation | homologous HL_4LFB_004 HL_89167.1 | |
| HL_7V2M_005 | 1/A/208:212 | No text annotation | geometric HL_5TBW_006 NA | |
| HL_7V2M_006 | 1/A/255:263 | GNRA related | homologous HL_4LFB_006 HL_36455.1 | |
| HL_7V2M_007 | 1/A/292:297 | GNRA | homologous HL_4LFB_007 HL_34789.1 | |
| HL_7V2M_008 | 1/A/316:329 | No text annotation | homologous HL_4LFB_008 HL_39665.1 | |
| HL_7V2M_009 | 1/A/338:343 | UNCG | homologous HL_4LFB_009 HL_61337.1 | |
| HL_7V2M_010 | 1/A/375:380 | GNRA | homologous HL_6CZR_081 NA | |
| HL_7V2M_011 | 1/A/415:420 | UNCG | homologous HL_4LFB_011 HL_61337.1 | |
| HL_7V2M_012 | 1/A/452:460 | tRNA anticodon loop | geometric HL_5UD5_002 HL_68642.1 | |
| HL_7V2M_013 | 1/A/506:511 | Mini UNCG | geometric HL_4YAZ_004 HL_90436.1 | |
| HL_7V2M_014 | 1/A/601:607 | GNRA-like with tWH | homologous HL_4LFB_014 HL_92337.1 | |
| HL_7V2M_015 | 1/A/673:682 | No text annotation | homologous HL_6CZR_086 NA | |
| HL_7V2M_016 | 1/A/710:715 | GNRA | homologous HL_4LFB_016 HL_34789.1 | |
| HL_7V2M_018 | 1/A/822:826 | Mini UNCG | homologous HL_4LFB_018 HL_90436.1 | |
| HL_7V2M_019 | 1/A/840:845 | GNRA | homologous HL_4LFB_019 HL_34789.1 | |
| HL_7V2M_020 | 1/A/875:880 | GNRA | homologous HL_4LFB_020 HL_34789.1 | |
| HL_7V2M_021 | 1/A/940:951 | No text annotation | geometric HL_8C3A_006 NA | |
| HL_7V2M_022 | 1/A/991:996 | GNRA | homologous HL_4LFB_022 HL_34789.1 | |
| HL_7V2M_023 | 1/A/1059:1064 | GNRA | homologous HL_4LFB_024 HL_34789.1 | |
| HL_7V2M_024 | 1/A/1072:1079 | T-loop related | homologous HL_4LFB_025 HL_63894.1 | |
| HL_7V2M_033 | 1/A/1112:1126 | No text annotation | ||
| HL_7V2M_025 | 1/A/1116:1124 | No text annotation | ||
| HL_7V2M_026 | 1/A/1148:1153 | GNRA | homologous HL_4LFB_027 HL_34789.1 | |
| HL_7V2M_027 | 1/A/1247:1252 | GNRA | homologous HL_5J7L_027 NA | |
| HL_7V2M_028 | 1/A/1296:1305 | T-loop with 3 stacked bulged bases | homologous HL_4LFB_029 HL_93658.1 | |
| HL_7V2M_029 | 1/A/1338:1349 | No text annotation | homologous HL_4LFB_030 HL_86432.1 | |
| HL_7V2M_031 | 1/A/1493:1498 | GNRA | homologous HL_5J7L_031 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_7V2M_017 | No text annotation | ||
| HL_7V2M_032 | No text annotation | ||
| HL_7V2M_030 | UNCG |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_7V2M_001 | 1/A/31:33, 1/A/536:537 | Single bulged G | homologous IL_4LFB_001 IL_28408.1 | |
| IL_7V2M_002 | 1/A/45:46, 1/A/392:394 | Single bulged A | homologous IL_4LFB_002 IL_14190.1 | |
| IL_7V2M_003 | 1/A/48:53, 1/A/355:357 | No text annotation | homologous IL_4LFB_003 IL_68149.1 | |
| IL_7V2M_004 | 1/A/55:57, 1/A/352:353 | Minor groove platform | homologous IL_4LFB_004 IL_34520.1 | |
| IL_7V2M_005 | 1/A/64:67, 1/A/97:98 | Multiple bulged bases | homologous IL_5J7L_005 NA | |
| IL_7V2M_006 | 1/A/68:70, 1/A/94:96 | Isolated non-canonical cWW pair | homologous IL_4LFB_006 IL_01003.1 | |
| IL_7V2M_059 | 1/A/123:126, 1/A/227:228 | Multiple bulged bases | homologous IL_4LFB_007 IL_75289.1 | |
| IL_7V2M_008 | 1/A/127:131, 1/A/223:226 | No text annotation | homologous IL_4LFB_008 IL_60988.1 | |
| IL_7V2M_009 | 1/A/143:148, 1/A/163:169 | tWH-tWH-tHW-tHW | homologous IL_4LFB_009 IL_00680.1 | |
| IL_7V2M_010 | 1/A/181:183, 1/A/196:198 | Isolated non-canonical cWW pair | homologous IL_4LFB_010 IL_01003.1 | |
| IL_7V2M_011 | 1/A/238:243, 1/A/273:280 | Kink-turn with non-sequential stacking | homologous IL_4LFB_011 IL_46174.4 | |
| IL_7V2M_012 | 1/A/245:248, 1/A/270:271 | No text annotation | homologous IL_4LFB_012 IL_22002.1 | |
| IL_7V2M_013 | 1/A/288:289, 1/A/300:304 | C-loop | homologous IL_4LFB_013 IL_06671.1 | |
| IL_7V2M_014 | 1/A/363:365, 1/A/388:389 | Single bulged U | homologous IL_4LFB_014 IL_97561.1 | |
| IL_7V2M_015 | 1/A/367:372, 1/A/383:386 | C-loop with extra cWW pair | geometric IL_4V88_408 NA | |
| IL_7V2M_016 | 1/A/405:412, 1/A/423:429 | No text annotation | homologous IL_4LFB_017 IL_62329.1 | |
| IL_7V2M_017 | 1/A/441:445, 1/A/468:473 | 6x5 Sarcin-Ricin; G-bulge | homologous IL_4LFB_018 IL_82100.1 | |
| IL_7V2M_018 | 1/A/445:450, 1/A/462:468 | No text annotation | geometric IL_4LFB_019 IL_31561.1 | |
| IL_7V2M_019 | 1/A/488:495, 1/A/524:525 | SSU/LSU pseudoknot | homologous IL_4LFB_020 IL_11411.1 | |
| IL_7V2M_020 | 1/A/499:505, 1/A/512:520 | Kink-turn related | geometric IL_4V88_415 NA | |
| IL_7V2M_021 | 1/A/553:559, 1/A/858:859 | No text annotation | homologous IL_4LFB_022 IL_20847.1 | |
| IL_7V2M_022 | 1/A/564:568, 1/A/741:745 | tSH-tHW-tHS | homologous IL_4LFB_023 IL_05821.1 | |
| IL_7V2M_023 | 1/A/578:580, 1/A/628:629 | Major groove platform | homologous IL_4LFB_024 IL_48076.7 | |
| IL_7V2M_024 | 1/A/581:582, 1/A/624:627 | Major groove minor groove platform; mini C-loop | homologous IL_5J7L_029 NA | |
| IL_7V2M_025 | 1/A/589:596, 1/A/612:617 | No text annotation | homologous IL_4LFB_026 IL_04211.1 | |
| IL_7V2M_026 | 1/A/638:639, 1/A/735:738 | Major groove platform; stack outside cWW | geometric IL_4LFB_027 IL_74641.1 | |
| IL_7V2M_027 | 1/A/641:642, 1/A/731:733 | Major groove platform | homologous IL_4LFB_028 IL_48076.7 | |
| IL_7V2M_028 | 1/A/646:650, 1/A/724:727 | Tandem non-canonical cWW pairs | homologous IL_4LFB_029 IL_15225.1 | |
| IL_7V2M_060 | 1/A/657:661, 1/A/697:701 | Triple non-canonical cWW pairs | homologous IL_4LFB_065 IL_71154.1 | |
| IL_7V2M_030 | 1/A/667:672, 1/A/683:691 | No text annotation | homologous IL_6CZR_143 NA | |
| IL_7V2M_031 | 1/A/758:762, 1/A/788:789 | Left turn | homologous IL_4LFB_032 IL_29346.3 | |
| IL_7V2M_032 | 1/A/763:767, 1/A/783:787 | tSH-tHW-tHS | homologous IL_4LFB_033 IL_05821.1 | |
| IL_7V2M_033 | 1/A/865:872, 1/A/883:888 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_4LFB_034 IL_84044.1 | |
| IL_7V2M_034 | 1/A/900:901, 1/A/1376:1378 | Single bulged A | homologous IL_5J7L_039 NA | |
| IL_7V2M_035 | 1/A/903:905, 1/A/1373:1374 | Single bulged G | homologous IL_5J7L_040 NA | |
| IL_7V2M_036 | 1/A/911:913, 1/A/1363:1367 | Minor groove platform | homologous IL_5J7L_041 NA | |
| IL_7V2M_037 | 1/A/931:932, 1/A/1208:1210 | No text annotation | homologous IL_6CZR_150 NA | |
| IL_7V2M_038 | 1/A/971:975, 1/A/1027:1028 | Minor groove platform | homologous IL_5J7L_043 NA | |
| IL_7V2M_062 | 1/A/975:985, 1/A/1002:1027 | No text annotation | ||
| IL_7V2M_040 | 1/A/1031:1033, 1/A/1190:1191 | Single bulged U | homologous IL_4LFB_042 IL_97561.1 | |
| IL_7V2M_063 | 1/A/1035:1039, 1/A/1186:1188 | No text annotation | homologous IL_6CZR_154 NA | |
| IL_7V2M_042 | 1/A/1040:1041, 1/A/1181:1185 | Minor groove platform | homologous IL_5J7L_048 NA | |
| IL_7V2M_043 | 1/A/1043:1044, 1/A/1177:1179 | Single bulged U | homologous IL_4LFB_046 IL_97561.1 | |
| IL_7V2M_044 | 1/A/1044:1046, 1/A/1175:1177 | Isolated non-canonical cWW pair | geometric IL_4JGN_001 IL_71625.1 | |
| IL_7V2M_045 | 1/A/1107:1110, 1/A/1128:1132 | Minor groove platform | homologous IL_6CZR_158 NA | |
| IL_7V2M_046 | 1/A/1112:1116, 1/A/1124:1126 | No text annotation | homologous IL_4LFB_066 NA | |
| IL_7V2M_047 | 1/A/1141:1144, 1/A/1157:1163 | No text annotation | geometric IL_5J7L_053 NA | |
| IL_7V2M_048 | 1/A/1229:1235, 1/A/1266:1272 | No text annotation | homologous IL_4LFB_051 IL_12056.1 | |
| IL_7V2M_049 | 1/A/1237:1240, 1/A/1259:1264 | 180 degree turn | homologous IL_6CZR_161 NA | |
| IL_7V2M_050 | 1/A/1241:1244, 1/A/1255:1258 | Double sheared | geometric IL_5J7L_256 NA | |
| IL_7V2M_051 | 1/A/1285:1290, 1/A/1311:1316 | No text annotation | geometric IL_4LFB_055 IL_57885.1 | |
| IL_7V2M_052 | 1/A/1389:1392, 1/A/1469:1472 | Double sheared | geometric IL_6E7L_002 NA | |
| IL_7V2M_053 | 1/A/1395:1398, 1/A/1463:1466 | Tandem non-canonical cWW pairs | homologous IL_6CZR_168 NA | |
| IL_7V2M_064 | 1/A/1399:1402, 1/A/1459:1462 | Double sheared | homologous IL_4LFB_060 IL_58355.1 | |
| IL_7V2M_056 | 1/A/1414:1418, 1/A/1444:1447 | UAA/GAN variation | homologous IL_4LFB_062 IL_77691.6 | |
| IL_7V2M_057 | 1/A/1418:1420, 1/A/1442:1444 | Isolated non-canonical cWW pair | geometric IL_6CZR_171 NA | |
| IL_7V2M_058 | 1/A/1423:1428, 1/A/1437:1439 | No text annotation | homologous IL_4LFB_064 IL_93811.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_7V2M_007 | Isolated non-canonical cWW pair | ||
| IL_7V2M_029 | No text annotation | ||
| IL_7V2M_061 | No text annotation | ||
| IL_7V2M_039 | Isolated cWS basepair | ||
| IL_7V2M_041 | Tandem non-canonical cWW pairs | ||
| IL_7V2M_054 | No text annotation | ||
| IL_7V2M_055 | Isolated non-canonical cWW pair |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_7V2M_001 | 1/A/47:48, 1/A/357:363, 1/A/389:391 | No text annotation | homologous J3_5J7L_001 NA | |
| J3_7V2M_013 | 1/A/47:53, 1/A/355:363, 1/A/389:391 | No text annotation | homologous J3_4LFB_014 J3_63856.1 | |
| J3_7V2M_002 | 1/A/570:572, 1/A/635:638, 1/A/738:739 | No text annotation | geometric J3_1KUQ_001 J3_01633.1 | |
| J3_7V2M_014 | 1/A/570:572, 1/A/635:639, 1/A/735:739 | No text annotation | homologous J3_4LFB_015 J3_17385.5 | |
| J3_7V2M_003 | 1/A/656:657, 1/A/701:709, 1/A/716:718 | No text annotation | homologous J3_5J7L_003 NA | |
| J3_7V2M_004 | 1/A/810:813, 1/A/835:839, 1/A/846:852 | No text annotation | homologous J3_4LFB_001 J3_02285.1 | |
| J3_7V2M_005 | 1/A/914:917, 1/A/1326:1332, 1/A/1355:1362 | No text annotation | homologous J3_4LFB_002 J3_85722.1 | |
| J3_7V2M_006 | 1/A/921:924, 1/A/1217:1219, 1/A/1319:1322 | No text annotation | homologous J3_4LFB_003 J3_44359.1 | |
| J3_7V2M_007 | 1/A/933:940, 1/A/951:962, 1/A/1203:1207 | No text annotation | homologous J3_4LFB_004 J3_88451.1 | |
| J3_7V2M_008 | 1/A/968:971, 1/A/1028:1030, 1/A/1192:1197 | No text annotation | homologous J3_4LFB_005 J3_84394.1 | |
| J3_7V2M_016 | 1/A/968:975, 1/A/1027:1030, 1/A/1192:1197 | No text annotation | homologous J3_4LFB_016 J3_28881.1 | |
| J3_7V2M_009 | 1/A/1046:1051, 1/A/1090:1096, 1/A/1169:1175 | No text annotation | homologous J3_4LFB_007 J3_01343.1 | |
| J3_7V2M_017 | 1/A/1056:1057, 1/A/1066:1069, 1/A/1082:1085 | No text annotation | homologous J3_4LFB_017 J3_11018.1 | |
| J3_7V2M_011 | 1/A/1099:1101, 1/A/1138:1141, 1/A/1163:1166 | No text annotation | homologous J3_5J7L_010 NA | |
| J3_7V2M_018 | 1/A/1099:1101, 1/A/1138:1144, 1/A/1157:1166 | No text annotation | homologous J3_4LFB_018 J3_40706.1 | |
| J3_7V2M_012 | 1/A/1219:1223, 1/A/1278:1285, 1/A/1316:1319 | No text annotation | homologous J3_4LFB_009 J3_03192.1 | |
| J4_7V2M_001 | 1/A/109:116, 1/A/235:236, 1/A/282:285, 1/A/307:308 | No text annotation | homologous J4_4LFB_001 J4_90044.1 | |
| J4_7V2M_002 | 1/A/137:139, 1/A/173:178, 1/A/201:205, 1/A/215:217 | No text annotation | homologous J4_4LFB_002 J4_88771.1 | |
| J4_7V2M_003 | 1/A/559:561, 1/A/748:753, 1/A/794:805, 1/A/857:858 | No text annotation | homologous J4_4LFB_003 J4_14595.1 | |
| J5_7V2M_001 | 1/A/37:40, 1/A/399:402, 1/A/432:437, 1/A/477:484, 1/A/529:532 | No text annotation | homologous J5_4LFB_001 J5_70703.1 | |
| J5_7V2M_002 | 1/A/59:62, 1/A/100:107, 1/A/310:312, 1/A/333:335, 1/A/346:350 | No text annotation | homologous J5_4LFB_002 J5_58574.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_7V2M_015 | No text annotation | ||
| J3_7V2M_010 | No text annotation |
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