RNA 3D Hub //

8V84 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8V84_0021/1/69:74No text annotation
geometric
HL_5TBW_002
NA
HL_8V84_0031/1/90:96No text annotation
geometric
HL_4V9F_008
HL_37369.2
HL_8V84_0041/1/132:136No text annotation
geometric
HL_5TBW_004
NA
HL_8V84_0051/1/194:201T-loop with 2 stacked bulged bases
geometric
HL_4V9F_010
HL_01609.3
HL_8V84_0061/1/208:212No text annotation
geometric
HL_5TBW_006
NA
HL_8V84_0071/1/216:224T-loop with unstacked turn
geometric
HL_5TBW_007
NA
HL_8V84_0091/1/304:311No text annotation
geometric
HL_2Y9H_005
HL_86870.1
HL_8V84_0101/1/357:362GNRA
geometric
HL_4V9F_015
HL_37824.7
HL_8V84_0111/1/382:387GNRA
homologous
HL_8P9A_123
HL_37824.7
HL_8V84_0121/1/463:466Mini UNCG
geometric
HL_4L8H_001
HL_48778.2
HL_8V84_0461/1/542:549No text annotation
HL_8V84_0141/1/598:605tRNA anticodon loop
geometric
HL_3RG5_006
HL_04259.3
HL_8V84_0151/1/640:649No text annotation
HL_8V84_0161/1/686:694No text annotation
geometric
HL_5TBW_015
NA
HL_8V84_0171/1/732:737GNRA
geometric
HL_5FJC_002
HL_37824.7
HL_8V84_0211/1/958:963No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_8V84_0231/1/1126:1132Other HL
geometric
HL_4V9F_039
HL_77436.5
HL_8V84_0241/1/1148:1155No text annotation
geometric
HL_4WF9_003
HL_75660.5
HL_8V84_0251/1/1238:1250No text annotation
HL_8V84_0261/1/1267:1274GNRA wlth tandem sheared
geometric
HL_5D8H_002
HL_81538.2
HL_8V84_0271/1/1347:1357No text annotation
homologous
HL_8C3A_029
NA
HL_8V84_0281/1/1403:1408GNRA
geometric
HL_5TBW_036
NA
HL_8V84_0301/1/2369:2378No text annotation
geometric
HL_4WF9_047
HL_61996.2
HL_8V84_0311/1/2470:2475No text annotation
geometric
HL_5U3G_001
HL_75660.5
HL_8V84_0321/1/2840:2848No text annotation
geometric
HL_1WZ2_007
HL_75660.5
HL_8V84_0331/1/2897:2904No text annotation
geometric
HL_7A0S_060
HL_31585.3
HL_8V84_0341/1/2963:2968No text annotation
geometric
HL_5TBW_075
NA
HL_8V84_0351/1/3025:3030GNRA
geometric
HL_5TBW_019
NA
HL_8V84_0361/1/3067:3074Externally structured
geometric
HL_8C3A_022
NA
HL_8V84_0371/1/3110:3124No text annotation
geometric
HL_5TBW_067
NA
HL_8V84_0381/1/3194:3197Mini UNCG
geometric
HL_4V9F_021
HL_48778.2
HL_8V84_0391/1/3240:3247No text annotation
homologous
HL_8P9A_180
HL_07886.3
HL_8V84_0401/1/3303:3311No text annotation
geometric
HL_5TBW_070
NA
HL_8V84_0411/1/3350:3353No text annotation
geometric
HL_5TBW_004
NA
HL_8V84_0451/2/47:56Pseudoknot with intercalation
homologous
HL_8C3A_229
NA
HL_8V84_0421/2/69:89No text annotation
homologous
HL_8P9A_187
HL_51921.1

Problematic loops

#loop idProblemSequence
HL_8V84_001No text annotation
HL_8V84_008No text annotation
HL_8V84_013No text annotation
HL_8V84_018No text annotation
HL_8V84_019No text annotation
HL_8V84_020No text annotation
HL_8V84_022No text annotation
HL_8V84_029No text annotation
HL_8V84_044No text annotation
HL_8V84_043No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8V84_0011/1/7:8,
1/2/150:152		Single bulged C
geometric
IL_1DQF_001
IL_61258.15
IL_8V84_0021/1/13:15,
1/2/144:145		Single bulged U
homologous
IL_8C3A_003
NA
IL_8V84_0031/1/27:28,
1/1/56:58		Single stack bend
geometric
IL_5TBW_004
NA
IL_8V84_0041/1/82:89,
1/1/97:103		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5TBW_006
NA
IL_8V84_0051/1/123:124,
1/1/144:149		No text annotation
geometric
IL_5TBW_007
NA
IL_8V84_0061/1/125:127,
1/1/141:143		Isolated non-canonical cWW pair
geometric
IL_5TBW_008
NA
IL_8V84_0071/1/164:166,
1/1/256:257		Single bulged A
geometric
IL_6D3P_004
IL_31462.5
IL_8V84_0081/1/169:170,
1/1/248:253		No text annotation
IL_8V84_0091/1/177:178,
1/1/238:241		Minor groove platform
geometric
IL_4KQY_004
IL_02555.1
IL_8V84_0101/1/189:191,
1/1/204:205		Single bulged U
geometric
IL_4V9F_013
IL_89505.4
IL_8V84_0111/1/337:339,
1/2/25:26		Single bulged A
homologous
IL_5TBW_013
NA
IL_8V84_0121/1/376:379,
1/1/390:403		No text annotation
geometric
IL_5TBW_014
NA
IL_8V84_0131/1/404:410,
1/2/13:19		Triple sheared with non-canonical cWW
homologous
IL_5TBW_015
NA
IL_8V84_0141/1/429:431,
1/1/628:630		Isolated non-canonical cWW pair
geometric
IL_1YZ9_001
NA
IL_8V84_0151/1/445:449,
1/1/485:489		Triple non-canonical cWW pairs
geometric
IL_5BTM_001
IL_49751.4
IL_8V84_0161/1/452:454,
1/1/476:482		No text annotation
IL_8V84_0171/1/462:463,
1/1/466:468		Single bulged U
geometric
IL_8VMB_001
IL_89505.4
IL_8V84_0181/1/512:513,
1/1/577:579		Single bulged A
geometric
IL_5TBW_018
NA
IL_8V84_0191/1/517:525,
1/1/567:573		No text annotation
geometric
IL_5TBW_019
NA
IL_8V84_0201/1/531:538,
1/1/553:561		No text annotation
geometric
IL_5TBW_020
NA
IL_8V84_0211/1/668:670,
1/1/792:794		Isolated non-canonical cWW pair
geometric
IL_7A0S_020
IL_87907.2
IL_8V84_0221/1/680:684,
1/1/696:700		No text annotation
geometric
IL_5TBW_022
NA
IL_8V84_0231/1/725:728,
1/1/741:745		UAA/GAN variation
geometric
IL_5J7L_303
IL_23774.1
IL_8V84_0241/1/752:757,
1/1/774:779		No text annotation
IL_8V84_0251/1/803:805,
1/1/938:940		Isolated non-canonical cWW pair
geometric
IL_4LFB_010
IL_87907.2
IL_8V84_0261/1/805:809,
1/1/931:938		No text annotation
IL_8V84_0291/1/969:970,
1/1/1111:1113		Single stack bend
geometric
IL_5TBW_035
NA
IL_8V84_0961/1/977:981,
1/1/1102:1104		No text annotation
IL_8V84_0311/1/983:985,
1/1/1099:1100		Single bulged G
geometric
IL_5TBW_037
NA
IL_8V84_0321/1/1120:1122,
1/1/1136:1138		Isolated non-canonical cWW pair
geometric
IL_3TD0_001
IL_28037.2
IL_8V84_0331/1/1167:1171,
1/1/1328:1332		UAA/GAN
geometric
IL_5TBW_048
NA
IL_8V84_0341/1/1173:1180,
1/1/1325:1326		SSU/LSU pseudoknot
geometric
IL_5TBW_049
NA
IL_8V84_0351/1/1180:1182,
1/1/1324:1325		Single bulged U
geometric
IL_7A0S_035
IL_89505.4
IL_8V84_0361/1/1187:1192,
1/1/1306:1319		No text annotation
IL_8V84_0971/1/1187:1205,
1/1/1299:1319		No text annotation
IL_8V84_0371/1/1192:1205,
1/1/1299:1306		No text annotation
IL_8V84_0381/1/1207:1209,
1/1/1296:1297		Single bulged U
geometric
IL_7KVT_002
IL_89505.4
IL_8V84_0391/1/1218:1226,
1/1/1283:1287		Kink-turn
geometric
IL_4V9F_042
IL_99692.2
IL_8V84_0401/1/1234:1238,
1/1/1250:1254		No text annotation
geometric
IL_4V9F_043
NA
IL_8V84_0411/1/1262:1266,
1/1/1275:1277		Major groove platform with extra cWW
geometric
IL_5D8H_003
IL_51387.2
IL_8V84_0421/1/1376:1378,
1/1/1428:1431		Isolated cWS basepair
geometric
IL_5TBW_057
NA
IL_8V84_0431/1/1385:1387,
1/1/1420:1421		Single bulged A
geometric
IL_5TBW_058
NA
IL_8V84_0441/1/1388:1395,
1/1/1415:1419		Kink-turn
geometric
IL_5TBW_059
NA
IL_8V84_0451/1/1398:1400,
1/1/1411:1412		Single bulged A
geometric
IL_4V9F_002
IL_31462.5
IL_8V84_0461/1/1444:1450,
1/1/2354:2359		7x6 Sarcin-Ricin; G-bulge
geometric
IL_5TBW_061
NA
IL_8V84_0471/1/1461:1464,
1/1/1872:1876		No text annotation
IL_8V84_0981/1/1465:1466,
1/1/1869:1871		No text annotation
IL_8V84_0491/1/1883:1889,
1/1/2346:2349		No text annotation
IL_8V84_0511/1/2391:2395,
1/1/2985:2988		No text annotation
IL_8V84_0521/1/2410:2412,
1/1/2809:2811		Isolated non-canonical cWW contact
geometric
IL_5UNE_009
IL_44465.1
IL_8V84_0531/1/2412:2413,
1/1/2807:2809		Single bulged A
geometric
IL_4R4V_003
IL_31462.5
IL_8V84_0561/1/2423:2428,
1/1/2601:2607		No text annotation
IL_8V84_0601/1/2444:2445,
1/1/2501:2503		Minor groove platform
geometric
IL_7A0S_003
IL_51454.2
IL_8V84_0631/1/2449:2451,
1/1/2496:2497		Single stack bend
geometric
IL_5TBW_375
NA
IL_8V84_0641/1/2452:2463,
1/1/2492:2495		No text annotation
geometric
IL_4P3T_002
NA
IL_8V84_0651/1/2466:2469,
1/1/2476:2489		No text annotation
geometric
IL_3U4M_003
IL_75283.2
IL_8V84_0661/1/2835:2839,
1/1/2849:2853		No text annotation
homologous
IL_8P9A_333
IL_17948.2
IL_8V84_0671/1/2960:2961,
1/1/2970:2972		No text annotation
IL_8V84_0681/1/3004:3007,
1/1/3139:3144		Double sheared
geometric
IL_5TBW_114
NA
IL_8V84_0691/1/3012:3014,
1/1/3040:3042		Isolated non-canonical cWW pair
geometric
IL_3TD0_006
IL_28037.2
IL_8V84_0701/1/3018:3025,
1/1/3030:3036		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5TBW_116
NA
IL_8V84_0711/1/3047:3050,
1/1/3091:3094		No text annotation
IL_8V84_0721/1/3050:3059,
1/1/3084:3091		No text annotation
IL_8V84_0731/1/3063:3064,
1/1/3077:3080		No text annotation
geometric
IL_5J7L_341
IL_42626.2
IL_8V84_0741/1/3103:3107,
1/1/3127:3131		UAA/GAN
geometric
IL_5TBW_120
NA
IL_8V84_0751/1/3177:3179,
1/1/3210:3211		Single bulged A
geometric
IL_5TBW_123
NA
IL_8V84_0761/1/3179:3188,
1/1/3204:3210		No text annotation
geometric
IL_5TBW_124
NA
IL_8V84_0771/1/3193:3194,
1/1/3197:3199		Single bulged U
geometric
IL_5J7L_298
IL_89505.4
IL_8V84_0781/1/3225:3229,
1/1/3258:3260		No text annotation
geometric
IL_5TBW_126
NA
IL_8V84_0791/1/3233:3235,
1/1/3252:3254		Isolated non-canonical cWW pair
geometric
IL_5TBW_042
NA
IL_8V84_0801/1/3235:3238,
1/1/3249:3252		Tandem non-canonical cWW pairs
geometric
IL_4UYK_003
IL_77658.1
IL_8V84_0811/1/3300:3303,
1/1/3311:3314		Tandem non-canonical cWW pairs
geometric
IL_7A0S_040
IL_77658.1
IL_8V84_0821/1/3318:3320,
1/1/3387:3388		Single bulged U
geometric
IL_7RQB_038
NA
IL_8V84_1001/1/3324:3325,
1/1/3381:3383		No text annotation
homologous
IL_8CRE_137
IL_89505.4
IL_8V84_0841/1/3328:3330,
1/1/3373:3378		Isolated non-canonical cWW pair
geometric
IL_5TBW_132
NA
IL_8V84_0851/1/3332:3337,
1/1/3367:3371		tHS double platform
geometric
IL_4V9F_099
IL_70411.2
IL_8V84_0871/1/3339:3349,
1/1/3356:3365		No text annotation
IL_8V84_1011/1/3340:3350,
1/1/3353:3364		No text annotation
IL_8V84_0881/1/3349:3350,
1/1/3353:3356		Multiple bulged bases
geometric
IL_5TBW_136
NA
IL_8V84_0891/2/44:64,
1/2/96:100		No text annotation
geometric
IL_5TBW_144
NA
IL_8V84_0901/2/64:66,
1/2/93:96		Isolated non-canonical cWW pair
homologous
IL_5TBW_145
NA
IL_8V84_0911/2/68:69,
1/2/89:91		Single bulged U
homologous
IL_5TBW_146
NA
IL_8V84_0931/2/122:124,
1/2/130:131		Single stack bend
geometric
IL_4V9F_081
IL_26793.1
IL_8V84_0941/6/26:27,
1/6/51:54		Multiple bulged bases
geometric
IL_4V88_392
NA
IL_8V84_0951/6/30:34,
1/6/45:48		No text annotation

Problematic loops

#loop idProblemSequence
IL_8V84_027Isolated non-canonical cWW pair
IL_8V84_028Isolated non-canonical cWW pair
IL_8V84_030No text annotation
IL_8V84_048No text annotation
IL_8V84_050No text annotation
IL_8V84_054Isolated non-canonical cWW pair
IL_8V84_055No text annotation
IL_8V84_057No text annotation
IL_8V84_058No text annotation
IL_8V84_059Isolated non-canonical cWW pair
IL_8V84_061No text annotation
IL_8V84_062Isolated non-canonical cWW pair
IL_8V84_083Multiple bulged bases, near cWW
IL_8V84_086Single stack bend
IL_8V84_099No text annotation
IL_8V84_092Isolated cWS basepair

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8V84_0011/1/113:123,
1/1/149:158,
1/1/263:267		No text annotation
homologous
J3_8P9A_042
J3_19664.1
J3_8V84_0041/1/113:124,
1/1/144:158,
1/1/263:267		No text annotation
J3_8V84_0051/1/185:189,
1/1/205:214,
1/1/226:231		No text annotation
homologous
J3_8P9A_044
J3_75408.1
J3_8V84_0061/1/340:356,
1/1/363:368,
1/2/21:24		No text annotation
homologous
J3_8P9A_045
J3_30040.2
J3_8V84_0071/1/369:376,
1/1/403:404,
1/2/19:20		No text annotation
geometric
J3_4V9F_011
J3_60031.2
J3_8V84_0081/1/369:379,
1/1/390:404,
1/2/19:20		No text annotation
homologous
J3_8C3A_049
NA
J3_8V84_0091/1/436:442,
1/1/492:495,
1/1/618:623		No text annotation
J3_8V84_0101/1/502:503,
1/1/588:597,
1/1/606:611		No text annotation
homologous
J3_8P9A_048
J3_83726.1
J3_8V84_0021/1/1230:1232,
1/1/1256:1262,
1/1/1277:1279		No text annotation
geometric
J3_6PRV_001
J3_28621.5
J3_8V84_0111/1/1230:1232,
1/1/1256:1266,
1/1/1275:1279		No text annotation
J3_8V84_0121/1/1451:1458,
1/1/1879:1880,
1/1/2352:2353		No text annotation
J3_8V84_0031/1/3298:3300,
1/1/3314:3318,
1/1/3388:3390		No text annotation
homologous
J3_8P9A_065
J3_81015.1
J3_8V84_0131/2/44:45,
1/2/58:64,
1/2/96:100		No text annotation
homologous
J3_8P4V_024
NA
J4_8V84_0011/1/112:113,
1/1/267:272,
1/1/293:299,
1/1/316:319		No text annotation
homologous
J4_8P9A_012
J4_45801.6
J4_8V84_0021/1/185:189,
1/1/205:208,
1/1/212:214,
1/1/226:231		No text annotation
homologous
J4_8P9A_013
J4_12410.1
J4_8V84_0031/1/675:678,
1/1/702:721,
1/1/749:752,
1/1/779:787		No text annotation
J4_8V84_0041/1/3010:3012,
1/1/3042:3043,
1/1/3098:3100,
1/1/3134:3136		No text annotation
homologous
J4_8P9A_020
J4_65356.1
J5_8V84_0011/1/20:22,
1/2/35:42,
1/2/102:107,
1/2/115:116,
1/2/137:139		No text annotation
homologous
J5_8P9A_010
J5_01737.2
J5_8V84_0021/1/658:663,
1/1/799:802,
1/1/941:944,
1/1/1375:1376,
1/1/1431:1437		No text annotation
homologous
J5_8P9A_011
J5_63811.1
J6_8V84_0011/1/22:27,
1/1/58:68,
1/1/75:79,
1/1/106:110,
1/1/321:331,
1/2/32:35		No text annotation
J7_8V84_0011/1/949:956,
1/1/965:968,
1/1/1114:1117,
1/1/1141:1146,
1/1/1157:1161,
1/1/1338:1339,
1/1/1365:1370		No text annotation

Problematic loops

No problematic loops


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