RNA 3D Hub //

6S05 Internal, Hairpin and 3-way Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6S05_0011/A/31:53No text annotation
Not in a motif group
HL_6S05_0021/A/69:74No text annotation
Not in a motif group		homologous
HL_8C3A_002
HL_02862.2
HL_6S05_0031/A/90:96No text annotation
Not in a motif group		homologous
HL_5TBW_003
HL_67216.7
HL_6S05_0041/A/132:136No text annotation
Not in a motif group		homologous
HL_8C3A_004
HL_98426.1
HL_6S05_0051/A/194:201T-loop with 1 bulged base
Not in a motif group		homologous
HL_5TBW_005
HL_89380.2
HL_6S05_0061/A/208:212No text annotation
Not in a motif group		homologous
HL_5TBW_006
HL_98984.2
HL_6S05_0071/A/216:224No text annotation
Not in a motif group		homologous
HL_5TBW_007
HL_08002.8
HL_6S05_0081/A/278:287No text annotation
Not in a motif group		homologous
HL_8C3A_008
HL_71554.2
HL_6S05_0101/A/357:362No text annotation
Not in a motif group		homologous
HL_8C3A_010
HL_42097.1
HL_6S05_0111/A/382:387No text annotation
Not in a motif group		homologous
HL_8C3A_011
HL_42097.1
HL_6S05_0121/A/539:552No text annotation
Not in a motif group
HL_6S05_0131/A/599:604GNRA
Not in a motif group		homologous
HL_5TBW_013
HL_42097.1
HL_6S05_0141/A/639:650No text annotation
Not in a motif group		geometric
HL_4V9I_040
HL_22031.1
HL_6S05_0151/A/686:694No text annotation
Not in a motif group		homologous
HL_8C3A_015
HL_03345.1
HL_6S05_0171/A/732:737GNRA
Not in a motif group		homologous
HL_5TBW_017
HL_42097.1
HL_6S05_0221/A/958:963No text annotation
Not in a motif group		homologous
HL_8C3A_022
HL_96598.1
HL_6S05_0261/A/1148:1155No text annotation
Not in a motif group		homologous
HL_8C3A_026
HL_64430.2
HL_6S05_0291/A/1347:1357No text annotation
Not in a motif group
HL_6S05_0301/A/1403:1408No text annotation
Not in a motif group		homologous
HL_8C3A_030
HL_42097.1
HL_6S05_0641/A/3025:3030No text annotation
Not in a motif group		geometric
HL_5J7L_179
HL_42097.1
HL_6S05_0651/A/3068:3073Ribsomal LSU H95
Not in a motif group		homologous
HL_5TBW_066
HL_46680.1
HL_6S05_0661/A/3110:3124No text annotation
Not in a motif group		homologous
HL_8C3A_068
HL_56677.7
HL_6S05_0671/A/3194:3197No text annotation
Not in a motif group		geometric
HL_5TBW_068
HL_98426.1
HL_6S05_0681/A/3300:3314No text annotation
Not in a motif group
HL_6S05_0701/x/36:41No text annotation
Not in a motif group		geometric
HL_5TBW_185
HL_87939.1
HL_6S05_0711/x/88:93GNRA
Not in a motif group		homologous
HL_5TBW_186
HL_42097.1
HL_6S05_0721/y/69:89No text annotation
Not in a motif group
HL_6S05_0731/y/108:114No text annotation
Not in a motif group		homologous
HL_5TBW_075
HL_87939.1
HL_6S05_0741/y/124:129No text annotation
Not in a motif group		homologous
HL_8C3A_077
HL_96851.2

Problematic loops

#loop idProblemSequence
HL_6S05_009No text annotation
HL_6S05_016GNRA
HL_6S05_018No text annotation
HL_6S05_019Other HL
HL_6S05_020No text annotation
HL_6S05_021No text annotation
HL_6S05_023No text annotation
HL_6S05_024No text annotation
HL_6S05_025No text annotation
HL_6S05_027No text annotation
HL_6S05_028No text annotation
HL_6S05_031T-loop with 2 stacked bulged bases
HL_6S05_032No text annotation
HL_6S05_033No text annotation
HL_6S05_034No text annotation
HL_6S05_035No text annotation
HL_6S05_036GNRA
HL_6S05_037No text annotation
HL_6S05_038No text annotation
HL_6S05_039No text annotation
HL_6S05_040No text annotation
HL_6S05_041No text annotation
HL_6S05_042GNRA with one bulged base
HL_6S05_043UNCG
HL_6S05_044No text annotation
HL_6S05_045No text annotation
HL_6S05_046No text annotation
HL_6S05_047No text annotation
HL_6S05_048No text annotation
HL_6S05_049No text annotation
HL_6S05_050No text annotation
HL_6S05_051No text annotation
HL_6S05_052No text annotation
HL_6S05_053No text annotation
HL_6S05_054No text annotation
HL_6S05_055No text annotation
HL_6S05_056No text annotation
HL_6S05_057No text annotation
HL_6S05_058No text annotation
HL_6S05_059No text annotation
HL_6S05_060No text annotation
HL_6S05_061No text annotation
HL_6S05_062No text annotation
HL_6S05_063No text annotation
HL_6S05_069No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6S05_0011/A/7:8,
1/y/150:152		No text annotation
Not in a motif group		homologous
IL_8C3A_002
IL_61258.12
IL_6S05_0021/A/13:15,
1/y/144:145		No text annotation
Not in a motif group		homologous
IL_8C3A_003
IL_83039.13
IL_6S05_0031/A/27:28,
1/A/56:58		No text annotation
Not in a motif group		homologous
IL_8C3A_004
IL_76488.2
IL_6S05_0041/A/81:89,
1/A/97:104		9x8 Sarcin-Ricin with GA cWW pair; G-bulge
Not in a motif group		geometric
IL_3DIL_003
IL_34470.2
IL_6S05_0051/A/123:124,
1/A/144:149		No text annotation
Not in a motif group		geometric
IL_5TBW_007
IL_19724.2
IL_6S05_0061/A/125:127,
1/A/141:143		No text annotation
Not in a motif group		homologous
IL_8C3A_008
IL_95997.1
IL_6S05_0081/A/169:173,
1/A/245:253		No text annotation
Not in a motif group
IL_6S05_0091/A/177:179,
1/A/237:241		Major groove platform with extra pair
Not in a motif group		homologous
IL_5TBW_011
IL_63450.2
IL_6S05_0101/A/189:192,
1/A/203:205		CC cWW
Not in a motif group		geometric
IL_4E59_001
IL_95997.1
IL_6S05_0111/A/337:339,
1/y/25:26		No text annotation
Not in a motif group		homologous
IL_8C3A_014
IL_37497.2
IL_6S05_0121/A/376:379,
1/A/390:403		No text annotation
Not in a motif group		geometric
IL_5TBW_014
IL_60992.6
IL_6S05_0131/A/404:410,
1/y/13:19		Triple sheared with non-canonical cWW
Not in a motif group		homologous
IL_5TBW_015
IL_66414.6
IL_6S05_0141/A/412:414,
1/y/10:11		Single stack bend
Not in a motif group		geometric
IL_7A0S_054
IL_76488.2
IL_6S05_0151/A/414:415,
1/y/8:10		Single stack bend
Not in a motif group		geometric
IL_7A0S_054
IL_76488.2
IL_6S05_0161/A/429:431,
1/A/628:630		No text annotation
Not in a motif group		homologous
IL_5TBW_016
IL_51629.2
IL_6S05_0181/A/510:513,
1/A/577:581		Tandem non-canonical cWW pairs
Not in a motif group		geometric
IL_1MFQ_004
IL_30621.2
IL_6S05_0191/A/517:525,
1/A/567:573		No text annotation
Not in a motif group		homologous
IL_5TBW_019
IL_23992.1
IL_6S05_0201/A/531:538,
1/A/553:561		No text annotation
Not in a motif group		homologous
IL_5TBW_020
IL_07703.1
IL_6S05_0211/A/667:670,
1/A/792:795		Tandem non-canonical cWW pairs
Not in a motif group		geometric
IL_4K27_001
IL_30621.2
IL_6S05_0221/A/680:684,
1/A/696:700		No text annotation
Not in a motif group		homologous
IL_5TBW_022
IL_74284.1
IL_6S05_0231/A/725:728,
1/A/741:745		UAA/GAN
Not in a motif group		homologous
IL_5TBW_023
IL_07235.1
IL_6S05_0241/A/752:753,
1/A/779:781		No text annotation
Not in a motif group		homologous
IL_8C3A_026
IL_37497.2
IL_6S05_0251/A/755:757,
1/A/774:777		Isolated non-canonical cWW with bulges
Not in a motif group		geometric
IL_5J7L_009
IL_82068.2
IL_6S05_0271/A/803:805,
1/A/938:940		No text annotation
Not in a motif group		homologous
IL_8C3A_029
IL_95997.1
IL_6S05_0281/A/805:809,
1/A/931:938		No text annotation
Not in a motif group		geometric
IL_5TBW_028
IL_17470.6
IL_6S05_0341/A/954:956,
1/A/965:967		No text annotation
Not in a motif group		homologous
IL_5TBW_034
IL_95997.1
IL_6S05_0351/A/969:970,
1/A/1111:1113		No text annotation
Not in a motif group		homologous
IL_8C3A_038
IL_76488.2
IL_6S05_0361/A/977:981,
1/A/1102:1104		No text annotation
Not in a motif group
IL_6S05_0371/A/983:985,
1/A/1099:1100		No text annotation
Not in a motif group		homologous
IL_8C3A_040
IL_00225.2
IL_6S05_0411/A/1120:1122,
1/A/1136:1138		No text annotation
Not in a motif group		homologous
IL_5TBW_046
IL_95997.1
IL_6S05_0421/A/1167:1171,
1/A/1328:1332		UAA/GAN
Not in a motif group		homologous
IL_5TBW_048
IL_89002.2
IL_6S05_0431/A/1173:1180,
1/A/1325:1326		SSU/LSU pseudoknot
Not in a motif group		geometric
IL_5TBW_049
IL_15861.7
IL_6S05_0441/A/1180:1182,
1/A/1324:1325		Single bulged U
Not in a motif group		homologous
IL_5TBW_050
IL_83039.13
IL_6S05_0471/A/1207:1209,
1/A/1296:1297		No text annotation
Not in a motif group		homologous
IL_8C3A_056
IL_83039.13
IL_6S05_0501/A/1376:1378,
1/A/1428:1431		No text annotation
Not in a motif group		homologous
IL_8C3A_061
IL_52767.2
IL_6S05_0521/A/1388:1397,
1/A/1413:1419		No text annotation
Not in a motif group
IL_6S05_0541/A/1444:1450,
1/A/2354:2359		7x6 Sarcin-Ricin; G-bulge
Not in a motif group		homologous
IL_5TBW_061
IL_76042.2
IL_6S05_1041/A/3002:3007,
1/A/3139:3146		No text annotation
Not in a motif group
IL_6S05_1051/A/3012:3014,
1/A/3040:3042		No text annotation
Not in a motif group		homologous
IL_8C3A_124
IL_95997.1
IL_6S05_1061/A/3018:3025,
1/A/3030:3036		8x7 Sarcin-Ricin; G-bulge
Not in a motif group		homologous
IL_5TBW_116
IL_04346.7
IL_6S05_1071/A/3047:3051,
1/A/3091:3094		No text annotation
Not in a motif group		homologous
IL_8C3A_126
IL_37712.2
IL_6S05_1081/A/3054:3059,
1/A/3084:3088		No text annotation
Not in a motif group		homologous
IL_8C3A_127
IL_17136.1
IL_6S05_1101/A/3102:3107,
1/A/3127:3132		UAA/GAN with extra cWW
Not in a motif group		geometric
IL_5J7L_350
IL_49767.5
IL_6S05_1111/A/3162:3166,
1/A/3284:3288		No text annotation
Not in a motif group		geometric
IL_5TBW_121
IL_05145.2
IL_6S05_1131/A/3177:3179,
1/A/3210:3211		Single bulged A
Not in a motif group		geometric
IL_5TBW_123
IL_37497.2
IL_6S05_1141/A/3179:3188,
1/A/3204:3210		No text annotation
Not in a motif group		homologous
IL_5TBW_124
IL_15174.1
IL_6S05_1151/A/3193:3194,
1/A/3197:3199		Single bulged U
Not in a motif group		homologous
IL_5TBW_125
IL_83039.13
IL_6S05_1161/A/3318:3320,
1/A/3387:3388		No text annotation
Not in a motif group		homologous
IL_8C3A_136
IL_83039.13
IL_6S05_1171/A/3324:3327,
1/A/3379:3383		Tandem non-canonical cWW pairs
Not in a motif group		geometric
IL_3WBM_002
IL_30621.2
IL_6S05_1191/A/3332:3337,
1/A/3367:3371		No text annotation
Not in a motif group		homologous
IL_5TBW_133
IL_83162.5
IL_6S05_1211/x/15:16,
1/x/63:65		No text annotation
Not in a motif group
IL_6S05_1221/x/21:27,
1/x/53:58		No text annotation
Not in a motif group		homologous
IL_5TBW_373
IL_10207.2
IL_6S05_1231/x/28:29,
1/x/49:52		Minor groove platform
Not in a motif group		geometric
IL_5TBW_374
IL_63797.2
IL_6S05_1241/x/29:30,
1/x/47:49		Single stack bend
Not in a motif group		homologous
IL_5TBW_375
IL_76488.2
IL_6S05_1251/x/31:36,
1/x/41:46		No text annotation
Not in a motif group		homologous
IL_7A0S_105
IL_93630.2
IL_6S05_1261/x/83:85,
1/x/96:97		Single stack bend
Not in a motif group		geometric
IL_5J7L_269
IL_76488.2
IL_6S05_1271/y/44:64,
1/y/96:100		No text annotation
Not in a motif group		geometric
IL_5TBW_144
IL_44998.1
IL_6S05_1281/y/64:66,
1/y/93:96		Isolated non-canonical cWW with bulges
Not in a motif group		geometric
IL_5TBW_145
IL_82068.2
IL_6S05_1291/y/68:69,
1/y/89:91		Single bulged U
Not in a motif group		homologous
IL_5TBW_146
IL_83039.13

Problematic loops

#loop idProblemSequence
IL_6S05_007Single stack bend
IL_6S05_017No text annotation
IL_6S05_026No text annotation
IL_6S05_029No text annotation
IL_6S05_030Triple sheared
IL_6S05_031No text annotation
IL_6S05_032No text annotation
IL_6S05_033No text annotation
IL_6S05_038No text annotation
IL_6S05_039No text annotation
IL_6S05_040No text annotation
IL_6S05_045No text annotation
IL_6S05_046No text annotation
IL_6S05_048No text annotation
IL_6S05_049No text annotation
IL_6S05_051No text annotation
IL_6S05_053Single bulged A
IL_6S05_055No text annotation
IL_6S05_056UAA/GAN
IL_6S05_057No text annotation
IL_6S05_058Major groove outside cWW, minor groove, intercalation pocket
IL_6S05_059No text annotation
IL_6S05_060Triple sheared
IL_6S05_061Single stack bend
IL_6S05_062Single stack bend
IL_6S05_063Single bulged C
IL_6S05_064No text annotation
IL_6S05_065No text annotation
IL_6S05_066No text annotation
IL_6S05_067Kink-turn
IL_6S05_068No text annotation
IL_6S05_069No text annotation
IL_6S05_070No text annotation
IL_6S05_071Intercalated tWH
IL_6S05_072No text annotation
IL_6S05_073No text annotation
IL_6S05_074No text annotation
IL_6S05_075No text annotation
IL_6S05_076No text annotation
IL_6S05_077No text annotation
IL_6S05_078No text annotation
IL_6S05_079No text annotation
IL_6S05_080Multiple bulged bases
IL_6S05_081No text annotation
IL_6S05_082No text annotation
IL_6S05_083Minor groove platform with intercalation
IL_6S05_084No text annotation
IL_6S05_085Minor groove platform
IL_6S05_086Double sheared
IL_6S05_087No text annotation
IL_6S05_088No text annotation
IL_6S05_089No text annotation
IL_6S05_090Single bulged A
IL_6S05_091Isolated tHS basepair with bulges
IL_6S05_092Single bulged A
IL_6S05_093No text annotation
IL_6S05_094No text annotation
IL_6S05_095No text annotation
IL_6S05_096No text annotation
IL_6S05_097No text annotation
IL_6S05_098No text annotation
IL_6S05_099Multiple bulged bases
IL_6S05_100No text annotation
IL_6S05_101Minor groove platform with intercalation
IL_6S05_102No text annotation
IL_6S05_103Single bulged A
IL_6S05_109No text annotation
IL_6S05_112No text annotation
IL_6S05_118No text annotation
IL_6S05_120No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6S05_0021/A/369:376,
1/A/403:404,
1/y/19:20		No text annotation
Not in a motif group		homologous
J3_5TBW_002
NA
J3_6S05_0031/A/502:503,
1/A/588:597,
1/A/606:611		No text annotation
Not in a motif group		homologous
J3_5TBW_003
NA
J3_6S05_0061/A/986:987,
1/A/1062:1066,
1/A/1092:1098		No text annotation
Not in a motif group
J3_6S05_0151/A/3298:3300,
1/A/3314:3318,
1/A/3388:3390		No text annotation
Not in a motif group
J3_6S05_0161/x/9:14,
1/x/66:68,
1/x/110:112		No text annotation
Not in a motif group

Problematic loops

#loop idProblemSequence
J3_6S05_001No text annotation
J3_6S05_004No text annotation
J3_6S05_005No text annotation
J3_6S05_007No text annotation
J3_6S05_008No text annotation
J3_6S05_009No text annotation
J3_6S05_010No text annotation
J3_6S05_011No text annotation
J3_6S05_012No text annotation
J3_6S05_013No text annotation
J3_6S05_014No text annotation

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