RNA 3D Hub //

6EM1 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6EM1_0021/1/69:74No text annotation
homologous
HL_8C3A_002
NA
HL_6EM1_0041/1/132:136No text annotation
homologous
HL_5TBW_004
NA
HL_6EM1_0051/1/194:201T-loop with 2 stacked bulged bases
homologous
HL_8C3A_005
NA
HL_6EM1_0061/1/208:212No text annotation
homologous
HL_5TBW_006
NA
HL_6EM1_0071/1/216:224T-loop with unstacked turn
homologous
HL_5TBW_007
NA
HL_6EM1_0101/1/357:362GNRA
homologous
HL_5TBW_010
NA
HL_6EM1_0111/1/382:387GNRA
homologous
HL_5TBW_011
NA
HL_6EM1_0121/1/462:468No text annotation
HL_6EM1_0141/1/599:604GNRA
homologous
HL_5TBW_013
NA
HL_6EM1_0151/1/640:649No text annotation
HL_6EM1_0461/1/687:693No text annotation
geometric
HL_5J7L_151
NA
HL_6EM1_0181/1/732:737GNRA
homologous
HL_5TBW_017
NA
HL_6EM1_0231/1/1126:1132No text annotation
geometric
HL_5U3G_001
NA
HL_6EM1_0241/1/1148:1155No text annotation
homologous
HL_5TBW_026
NA
HL_6EM1_0271/1/1347:1357No text annotation
HL_6EM1_0281/1/1403:1408GNRA
homologous
HL_8C3A_030
NA
HL_6EM1_0301/1/2369:2378No text annotation
geometric
HL_2ZNI_001
HL_75660.6
HL_6EM1_0321/1/2897:2904No text annotation
homologous
HL_8C3A_063
NA
HL_6EM1_0341/1/3025:3030GNRA
homologous
HL_8C3A_066
NA
HL_6EM1_0361/1/3110:3124No text annotation
geometric
HL_4WF9_062
HL_53269.1
HL_6EM1_0381/1/3240:3247No text annotation
homologous
HL_5TBW_069
NA
HL_6EM1_0391/1/3303:3311No text annotation
homologous
HL_8C3A_071
NA
HL_6EM1_0481/2/47:56No text annotation
homologous
HL_8P9A_186
HL_17803.1
HL_6EM1_0411/2/69:89No text annotation
homologous
HL_8P4V_073
NA

Problematic loops

#loop idProblemSequence
HL_6EM1_001No text annotation
HL_6EM1_050No text annotation
HL_6EM1_003No text annotation
HL_6EM1_008No text annotation
HL_6EM1_009Externally structured
HL_6EM1_013No text annotation
HL_6EM1_016No text annotation
HL_6EM1_017No text annotation
HL_6EM1_019No text annotation
HL_6EM1_020No text annotation
HL_6EM1_021No text annotation
HL_6EM1_022No text annotation
HL_6EM1_025No text annotation
HL_6EM1_026GNRA wlth tandem sheared
HL_6EM1_029No text annotation
HL_6EM1_031No text annotation
HL_6EM1_033No text annotation
HL_6EM1_047No text annotation
HL_6EM1_035Ribsomal LSU H95
HL_6EM1_037No text annotation
HL_6EM1_040Mini UNCG
HL_6EM1_042No text annotation
HL_6EM1_043No text annotation
HL_6EM1_044No text annotation
HL_6EM1_051No text annotation
HL_6EM1_049No text annotation
HL_6EM1_045No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6EM1_0011/1/7:8,
1/2/150:152		Single bulged C
homologous
IL_8C3A_002
NA
IL_6EM1_0021/1/13:15,
1/2/144:145		Single bulged U
homologous
IL_8C3A_003
NA
IL_6EM1_0031/1/27:28,
1/1/56:58		Single stack bend
homologous
IL_5TBW_004
NA
IL_6EM1_0831/1/31:38,
1/1/45:53		tSH-tHW-tHH-tHS
homologous
IL_8CRE_005
NA
IL_6EM1_0041/1/82:89,
1/1/97:103		No text annotation
homologous
IL_8C3A_006
NA
IL_6EM1_0051/1/123:124,
1/1/144:149		No text annotation
homologous
IL_5TBW_007
NA
IL_6EM1_0061/1/125:127,
1/1/141:143		Isolated non-canonical cWW pair
homologous
IL_8C3A_008
NA
IL_6EM1_0071/1/164:166,
1/1/256:257		Single bulged A
geometric
IL_7RQB_059
NA
IL_6EM1_0781/1/169:170,
1/1/248:253		No text annotation
IL_6EM1_0841/1/177:178,
1/1/238:241		No text annotation
IL_6EM1_0101/1/189:191,
1/1/204:205		Single bulged U
homologous
IL_8C3A_013
NA
IL_6EM1_0111/1/337:339,
1/2/25:26		Single bulged A
homologous
IL_5TBW_013
NA
IL_6EM1_0121/1/376:379,
1/1/390:403		No text annotation
homologous
IL_5TBW_014
NA
IL_6EM1_0131/1/404:410,
1/2/13:19		Triple sheared with non-canonical cWW
homologous
IL_5TBW_015
NA
IL_6EM1_0141/1/429:431,
1/1/628:630		Isolated non-canonical cWW pair
homologous
IL_5TBW_016
NA
IL_6EM1_0151/1/445:449,
1/1/485:489		Triple non-canonical cWW pairs
geometric
IL_5BTM_001
IL_71154.1
IL_6EM1_0161/1/452:454,
1/1/476:482		No text annotation
IL_6EM1_0171/1/512:513,
1/1/577:579		Single bulged A
homologous
IL_8C3A_020
NA
IL_6EM1_0181/1/517:525,
1/1/567:573		No text annotation
homologous
IL_5TBW_019
NA
IL_6EM1_0191/1/531:538,
1/1/553:561		No text annotation
homologous
IL_5TBW_020
NA
IL_6EM1_0201/1/668:670,
1/1/792:794		Isolated non-canonical cWW pair
homologous
IL_8C3A_023
NA
IL_6EM1_0211/1/680:684,
1/1/696:700		No text annotation
homologous
IL_5TBW_022
NA
IL_6EM1_0221/1/725:728,
1/1/741:745		No text annotation
homologous
IL_8C3A_025
NA
IL_6EM1_0251/1/803:805,
1/1/938:940		Isolated non-canonical cWW pair
homologous
IL_5TBW_027
NA
IL_6EM1_0261/1/805:809,
1/1/931:938		tHW-tHW cross-strand stack
geometric
IL_5TBW_028
NA
IL_6EM1_0271/1/969:970,
1/1/1111:1113		No text annotation
homologous
IL_8C3A_038
NA
IL_6EM1_0281/1/972:974,
1/1/1107:1109		Isolated non-canonical cWW pair
geometric
IL_3GM7_002
IL_01003.1
IL_6EM1_0791/1/975:981,
1/1/1102:1106		No text annotation
IL_6EM1_0301/1/983:985,
1/1/1099:1100		Single bulged G
homologous
IL_8C3A_040
NA
IL_6EM1_0321/1/1120:1122,
1/1/1136:1138		Isolated non-canonical cWW pair
homologous
IL_8C3A_049
NA
IL_6EM1_0331/1/1167:1171,
1/1/1328:1332		UAA/GAN
homologous
IL_8C3A_051
NA
IL_6EM1_0341/1/1173:1180,
1/1/1325:1326		SSU/LSU pseudoknot
geometric
IL_5TBW_049
NA
IL_6EM1_0351/1/1180:1182,
1/1/1324:1325		Single bulged U
homologous
IL_5TBW_050
NA
IL_6EM1_0361/1/1186:1194,
1/1/1314:1320		No text annotation
IL_6EM1_0371/1/1194:1206,
1/1/1298:1314		No text annotation
IL_6EM1_0381/1/1207:1209,
1/1/1296:1297		Single bulged U
homologous
IL_5TBW_053
NA
IL_6EM1_0391/1/1218:1226,
1/1/1283:1287		Kink-turn
homologous
IL_5TBW_054
NA
IL_6EM1_0411/1/1376:1378,
1/1/1428:1431		No text annotation
homologous
IL_8C3A_061
NA
IL_6EM1_0421/1/1385:1387,
1/1/1420:1421		Single bulged A
homologous
IL_8C3A_062
NA
IL_6EM1_0431/1/1388:1395,
1/1/1415:1419		Kink-turn
homologous
IL_5TBW_059
NA
IL_6EM1_0441/1/1398:1400,
1/1/1411:1412		Single bulged A
geometric
IL_4V9F_002
IL_14190.1
IL_6EM1_0451/1/1444:1450,
1/1/2354:2359		No text annotation
homologous
IL_8C3A_065
NA
IL_6EM1_0461/1/2391:2394,
1/1/2986:2988		Other IL
geometric
IL_5M0H_001
NA
IL_6EM1_0491/1/2889:2891,
1/1/2912:2914		Isolated non-canonical cWW pair
geometric
IL_5TBW_110
NA
IL_6EM1_0811/1/2889:2892,
1/1/2909:2914		No text annotation
homologous
IL_8P9A_338
IL_07469.3
IL_6EM1_0501/1/2891:2892,
1/1/2909:2912		Major groove platform with intercalation
homologous
IL_5TBW_111
NA
IL_6EM1_0511/1/3004:3007,
1/1/3139:3144		Double sheared
homologous
IL_5TBW_114
NA
IL_6EM1_0521/1/3012:3014,
1/1/3040:3042		Isolated non-canonical cWW pair
homologous
IL_8C3A_124
NA
IL_6EM1_0531/1/3018:3025,
1/1/3030:3036		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5TBW_116
NA
IL_6EM1_0541/1/3047:3053,
1/1/3089:3094		No text annotation
IL_6EM1_0851/1/3054:3059,
1/1/3084:3088		No text annotation
homologous
IL_8CRE_127
NA
IL_6EM1_0571/1/3103:3107,
1/1/3127:3131		UAA/GAN
homologous
IL_8C3A_129
NA
IL_6EM1_0581/1/3177:3179,
1/1/3210:3211		Single bulged A
geometric
IL_5TBW_123
NA
IL_6EM1_0591/1/3179:3188,
1/1/3204:3210		No text annotation
homologous
IL_5TBW_124
NA
IL_6EM1_0601/1/3193:3194,
1/1/3197:3199		Single bulged U
geometric
IL_5TBW_125
NA
IL_6EM1_0611/1/3225:3229,
1/1/3258:3260		No text annotation
homologous
IL_8C3A_133
NA
IL_6EM1_0631/1/3235:3238,
1/1/3249:3252		Tandem non-canonical cWW pairs
geometric
IL_4UYK_003
IL_71194.1
IL_6EM1_0641/1/3300:3303,
1/1/3311:3314		Tandem non-canonical cWW pairs
geometric
IL_5TBW_128
NA
IL_6EM1_0821/1/3332:3337,
1/1/3367:3371		No text annotation
homologous
IL_8C3A_139
NA
IL_6EM1_0721/2/44:64,
1/2/96:100		No text annotation
geometric
IL_5TBW_144
NA
IL_6EM1_0731/2/64:66,
1/2/93:96		Isolated non-canonical cWW pair
homologous
IL_5TBW_145
NA
IL_6EM1_0741/2/68:69,
1/2/89:91		Single bulged U
homologous
IL_5TBW_146
NA
IL_6EM1_0751/6/26:27,
1/6/51:54		Multiple bulged bases
geometric
IL_4V88_392
NA
IL_6EM1_0761/6/30:34,
1/6/45:48		No text annotation

Problematic loops

#loop idProblemSequence
IL_6EM1_008No text annotation
IL_6EM1_009Major groove platform with extra pair
IL_6EM1_023Single bulged A
IL_6EM1_024No text annotation
IL_6EM1_029No text annotation
IL_6EM1_031No text annotation
IL_6EM1_040No text annotation
IL_6EM1_080Isolated cWH basepair
IL_6EM1_047No text annotation
IL_6EM1_048No text annotation
IL_6EM1_055No text annotation
IL_6EM1_056No text annotation
IL_6EM1_062Isolated non-canonical cWW pair
IL_6EM1_065Single bulged U
IL_6EM1_066Single bulged U
IL_6EM1_067No text annotation
IL_6EM1_068No text annotation
IL_6EM1_069Single bulged U
IL_6EM1_070Double sheared; A in syn
IL_6EM1_071Multiple bulged bases
IL_6EM1_077Single stack bend

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6EM1_0071/1/185:189,
1/1/205:214,
1/1/226:231		No text annotation
homologous
J3_8P9A_044
J3_97456.1
J3_6EM1_0081/1/340:356,
1/1/363:368,
1/2/21:24		No text annotation
homologous
J3_8P9A_045
J3_07616.1
J3_6EM1_0011/1/369:376,
1/1/403:404,
1/2/19:20		No text annotation
homologous
J3_5TBW_002
NA
J3_6EM1_0091/1/369:379,
1/1/390:404,
1/2/19:20		No text annotation
homologous
J3_8C3A_049
NA
J3_6EM1_0101/1/436:442,
1/1/492:495,
1/1/618:623		No text annotation
J3_6EM1_0021/1/502:503,
1/1/588:597,
1/1/606:611		No text annotation
homologous
J3_5TBW_003
NA
J3_6EM1_0031/1/661:663,
1/1/799:802,
1/1/941:942		No text annotation
J3_6EM1_0051/1/2886:2889,
1/1/2914:2916,
1/1/2930:2936		No text annotation
homologous
J3_8C3A_011
NA
J3_6EM1_0061/1/3298:3300,
1/1/3314:3318,
1/1/3388:3390		No text annotation
homologous
J3_5TBW_015
NA
J3_6EM1_0111/2/44:45,
1/2/58:64,
1/2/96:100		No text annotation
homologous
J3_8P9A_067
J3_01004.1
J4_6EM1_0011/1/185:189,
1/1/205:208,
1/1/212:214,
1/1/226:231		No text annotation
homologous
J4_8P9A_013
J4_43318.1
J4_6EM1_0021/1/658:661,
1/1/942:944,
1/1/1375:1376,
1/1/1431:1437		No text annotation
J4_6EM1_0031/1/3010:3012,
1/1/3042:3043,
1/1/3098:3100,
1/1/3134:3136		No text annotation
homologous
J4_8C3A_009
NA
J5_6EM1_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_27223.1
J5_6EM1_0021/1/112:123,
1/1/149:158,
1/1/263:272,
1/1/293:299,
1/1/316:319		No text annotation
J5_6EM1_0031/1/112:124,
1/1/144:158,
1/1/263:272,
1/1/293:299,
1/1/316:319		No text annotation
J5_6EM1_0041/1/675:678,
1/1/702:706,
1/1/713:721,
1/1/749:751,
1/1/782:787		No text annotation
homologous
J5_8P9A_012
J5_56629.1
J6_6EM1_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_6EM1_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

#loop idProblemSequence
J3_6EM1_004No text annotation

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