RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8OIP_0011/AA/8:18No text annotation
homologous
HL_4LFB_001
HL_73535.1
HL_8OIP_0021/AA/56:61No text annotation
HL_8OIP_0031/AA/89:93No text annotation
HL_8OIP_0041/AA/122:129No text annotation
HL_8OIP_0051/AA/147:153No text annotation
geometric
HL_5J7L_018
NA
HL_8OIP_0061/AA/160:165No text annotation
HL_8OIP_0071/AA/198:203GNRA
homologous
HL_4LFB_010
HL_34789.4
HL_8OIP_0081/AA/248:253GNRA
geometric
HL_1G1X_003
NA
HL_8OIP_0091/AA/342:351No text annotation
homologous
HL_4LFB_015
HL_38491.2
HL_8OIP_0101/AA/376:381GNRA
homologous
HL_4LFB_016
HL_34789.4
HL_8OIP_0111/AA/426:436No text annotation
homologous
HL_4LFB_017
HL_38491.2
HL_8OIP_0121/AA/467:477No text annotation
HL_8OIP_0131/AA/501:506Mini UNCG
geometric
HL_6TQA_003
NA
HL_8OIP_0141/AA/568:577No text annotation
homologous
HL_5J7L_021
NA
HL_8OIP_0151/AA/598:605No text annotation
HL_8OIP_0161/AA/636:641Mini UNCG
geometric
HL_5FQ5_002
HL_90436.3
HL_8OIP_0171/AA/664:670Pseudoknot geometry
geometric
HL_4GXY_003
HL_97725.1
HL_8OIP_0181/AA/728:734No text annotation
geometric
HL_5NFV_001
HL_69752.4
HL_8OIP_0191/AA/760:767T-loop with 2 stacked bulged bases
geometric
HL_4V9F_010
HL_13999.3
HL_8OIP_0201/AA/800:810No text annotation
homologous
HL_4LFB_030
HL_86432.1
HL_8OIP_0271/AA/881:887No text annotation
geometric
HL_7ENI_002
HL_19413.2
HL_8OIP_0221/AA/941:946GNRA
homologous
HL_4LFB_032
HL_34789.4
HL_8OIP_0231/AG/13:19tRNA D-loop
geometric
HL_2AZX_004
NA
HL_8OIP_0241/AG/28:36tRNA anticodon loop
geometric
HL_4TUE_034
NA

Problematic loops

#loop idProblemSequence
HL_8OIP_026No text annotation
HL_8OIP_021No text annotation
HL_8OIP_025No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8OIP_0011/AA/3:5,
1/AA/21:22		No text annotation
IL_8OIP_0021/AA/39:40,
1/AA/215:217		Single bulged A
geometric
IL_5J7L_002
NA
IL_8OIP_0031/AA/44:46,
1/AA/178:179		Single bulged A
geometric
IL_6WPI_001
IL_14190.2
IL_8OIP_0041/AA/48:50,
1/AA/175:176		Minor groove platform
homologous
IL_4LFB_004
IL_34520.3
IL_8OIP_0051/AA/78:79,
1/AA/103:105		Minor groove platform
geometric
IL_6DTD_003
IL_34520.3
IL_8OIP_0061/AA/81:85,
1/AA/97:101		Double sheared with non-canonical cWW
geometric
IL_5J7L_274
NA
IL_8OIP_0071/AA/110:115,
1/AA/135:142		Kink-turn with non-sequential stacking
geometric
IL_4LFB_011
IL_46174.4
IL_8OIP_0081/AA/116:119,
1/AA/133:134		Major groove platform; stack outside cWW
geometric
IL_3DIL_004
IL_74641.2
IL_8OIP_0471/AA/116:120,
1/AA/131:134		No text annotation
IL_8OIP_0091/AA/119:120,
1/AA/131:133		No text annotation
IL_8OIP_0101/AA/186:189,
1/AA/210:212		Isolated non-canonical cWW pair
geometric
IL_5TBW_042
NA
IL_8OIP_0111/AA/190:194,
1/AA/208:209		C-loop
homologous
IL_5J7L_018
NA
IL_8OIP_0481/AA/190:195,
1/AA/206:209		C-loop with extra cWW pair
geometric
IL_4V88_408
NA
IL_8OIP_0121/AA/194:195,
1/AA/206:208		Single bulged G
geometric
IL_5J7L_019
NA
IL_8OIP_0131/AA/226:228,
1/AA/269:271		Isolated non-canonical cWW pair
geometric
IL_5CCB_001
IL_01003.4
IL_8OIP_0141/AA/230:239,
1/AA/264:267		No text annotation
IL_8OIP_0151/AA/241:247,
1/AA/254:262		Kink-turn related
geometric
IL_4V88_415
NA
IL_8OIP_0161/AA/290:296,
1/AA/484:485		No text annotation
homologous
IL_5J7L_026
NA
IL_8OIP_0171/AA/301:305,
1/AA/397:401		UAA/GAN
geometric
IL_4V9F_037
IL_08938.1
IL_8OIP_0491/AA/306:321,
1/AA/389:396		No text annotation
IL_8OIP_0181/AA/327:334,
1/AA/360:367		No text annotation
IL_8OIP_0191/AA/339:341,
1/AA/352:355		No text annotation
IL_8OIP_0201/AA/414:418,
1/AA/444:445		Left turn
homologous
IL_5J7L_036
NA
IL_8OIP_0211/AA/419:423,
1/AA/439:443		tSH-tHW-tHS
homologous
IL_4LFB_033
IL_05821.1
IL_8OIP_0221/AA/491:500,
1/AA/507:514		10x8 Sarcin-Ricin; G-bulge
geometric
IL_6UFH_002
IL_22278.1
IL_8OIP_0551/AA/526:527,
1/AA/837:839		Single bulged A
homologous
IL_5J7L_039
NA
IL_8OIP_0231/AA/529:531,
1/AA/834:835		Single bulged G
homologous
IL_4LFB_036
IL_28408.2
IL_8OIP_0241/AA/537:541,
1/AA/824:828		No text annotation
IL_8OIP_0561/AA/559:560,
1/AA/710:712		Minor groove platform
homologous
IL_4LFB_038
IL_34520.3
IL_8OIP_0521/AA/595:607,
1/AA/695:700		No text annotation
IL_8OIP_0261/AA/608:610,
1/AA/693:694		Single bulged U
homologous
IL_4LFB_042
IL_97561.5
IL_8OIP_0271/AA/612:616,
1/AA/689:691		Isolated cWS basepair
homologous
IL_4LFB_044
IL_82453.1
IL_8OIP_0281/AA/617:618,
1/AA/684:688		Minor groove platform
homologous
IL_6CZR_155
NA
IL_8OIP_0291/AA/620:621,
1/AA/680:682		Single bulged A
homologous
IL_5J7L_049
NA
IL_8OIP_0301/AA/621:623,
1/AA/678:680		Isolated non-canonical cWW pair
geometric
IL_5J7L_050
NA
IL_8OIP_0311/AA/629:632,
1/AA/652:655		Tandem non-canonical cWW pairs
geometric
IL_6CZR_168
NA
IL_8OIP_0321/AA/633:634,
1/AA/643:651		Multiple bulged bases
geometric
IL_1R3E_001
IL_05670.1
IL_8OIP_0331/AA/749:754,
1/AA/773:778		No text annotation
IL_8OIP_0341/AA/843:845,
1/AA/927:930		No text annotation
homologous
IL_5J7L_058
NA
IL_8OIP_0531/AA/845:848,
1/AA/923:927		No text annotation
homologous
IL_5J7L_059
NA
IL_8OIP_0361/AA/849:851,
1/AA/920:922		Isolated non-canonical cWW pair
geometric
IL_4V88_465
NA
IL_8OIP_0371/AA/851:855,
1/AA/915:920		No text annotation
IL_8OIP_0381/AA/857:859,
1/AA/911:913		Isolated non-canonical cWW pair
homologous
IL_5J7L_061
NA
IL_8OIP_0541/AA/860:863,
1/AA/907:910		Double sheared
homologous
IL_5J7L_062
NA

Problematic loops

#loop idProblemSequence
IL_8OIP_045No text annotation
IL_8OIP_046No text annotation
IL_8OIP_050No text annotation
IL_8OIP_051Other IL
IL_8OIP_025Minor groove platform with extra cWW
IL_8OIP_035No text annotation
IL_8OIP_039No text annotation
IL_8OIP_040No text annotation
IL_8OIP_041No text annotation
IL_8OIP_042Isolated non-canonical cWW pair
IL_8OIP_043Isolated non-canonical cWW pair
IL_8OIP_044Tandem non-canonical cWW pairs

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8OIP_0081/AA/31:34,
1/AA/222:226,
1/AA/271:274		No text annotation
J3_8OIP_0091/AA/41:44,
1/AA/179:186,
1/AA/212:214		No text annotation
J3_8OIP_0101/AA/326:327,
1/AA/367:375,
1/AA/382:384		No text annotation
J3_8OIP_0111/AA/542:545,
1/AA/788:794,
1/AA/816:823		No text annotation
homologous
J3_5J7L_052
NA
J3_8OIP_0031/AA/549:552,
1/AA/719:721,
1/AA/781:784		No text annotation
homologous
J3_4LFB_003
J3_44359.1
J3_8OIP_0131/AA/561:567,
1/AA/578:589,
1/AA/706:709		No text annotation
J3_8OIP_0051/AA/595:598,
1/AA/605:607,
1/AA/695:700		No text annotation
homologous
J3_5J7L_007
NA
J3_8OIP_0061/AA/623:628,
1/AA/656:663,
1/AA/671:678		No text annotation
J3_8OIP_0141/AA/721:725,
1/AA/737:749,
1/AA/778:781		No text annotation
J4_8OIP_0011/AA/52:55,
1/AA/62:69,
1/AA/156:158,
1/AA/167:173		No text annotation
J4_8OIP_0021/AA/71:77,
1/AA/106:108,
1/AA/144:147,
1/AA/153:154		No text annotation
J4_8OIP_0051/AA/296:298,
1/AA/404:409,
1/AA/450:461,
1/AA/483:484		No text annotation
homologous
J4_5J7L_003
NA
J4_8OIP_0061/AG/7:10,
1/AG/22:24,
1/AG/40:45,
1/AG/60:61		No text annotation

Problematic loops

#loop idProblemSequence
J3_8OIP_001No text annotation
J3_8OIP_002No text annotation
J3_8OIP_012No text annotation
J3_8OIP_004No text annotation
J3_8OIP_007No text annotation
J4_8OIP_003No text annotation
J4_8OIP_004No text annotation

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