7OHV Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_7OHV_002 | 1/1/69:74 | No text annotation | homologous HL_8C3A_002 NA | |
| HL_7OHV_004 | 1/1/132:136 | No text annotation | homologous HL_8C3A_004 NA | |
| HL_7OHV_005 | 1/1/194:201 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_005 NA | |
| HL_7OHV_006 | 1/1/208:212 | No text annotation | homologous HL_5TBW_006 NA | |
| HL_7OHV_007 | 1/1/216:224 | T-loop with unstacked turn | homologous HL_8C3A_007 NA | |
| HL_7OHV_008 | 1/1/278:287 | No text annotation | homologous HL_8C3A_008 NA | |
| HL_7OHV_010 | 1/1/357:362 | GNRA | homologous HL_8C3A_010 NA | |
| HL_7OHV_011 | 1/1/382:387 | GNRA | homologous HL_8C3A_011 NA | |
| HL_7OHV_014 | 1/1/640:649 | No text annotation | ||
| HL_7OHV_015 | 1/1/686:694 | No text annotation | homologous HL_8C3A_015 NA | |
| HL_7OHV_021 | 1/1/1148:1155 | No text annotation | homologous HL_5TBW_026 NA | |
| HL_7OHV_025 | 1/1/1403:1408 | GNRA | homologous HL_8C3A_030 NA | |
| HL_7OHV_027 | 1/1/1506:1512 | Pseudoknot geometry with 3' bulge | homologous HL_8C3A_032 NA | |
| HL_7OHV_029 | 1/1/1565:1574 | No text annotation | ||
| HL_7OHV_055 | 1/1/2896:2905 | No text annotation | ||
| HL_7OHV_041 | 1/1/2897:2904 | No text annotation | homologous HL_5TBW_062 NA | |
| HL_7OHV_042 | 1/1/3025:3030 | GNRA | homologous HL_8C3A_066 NA | |
| HL_7OHV_044 | 1/1/3110:3124 | No text annotation | homologous HL_8C3A_068 NA | |
| HL_7OHV_046 | 1/1/3240:3247 | No text annotation | homologous HL_5TBW_069 NA | |
| HL_7OHV_049 | 1/2/47:56 | tRNA anticodon loop | geometric HL_6JXM_002 HL_97725.1 | |
| HL_7OHV_050 | 1/2/68:91 | No text annotation | homologous HL_8C3A_075 NA | |
| HL_7OHV_052 | 1/2/124:129 | No text annotation | homologous HL_5TBW_076 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_7OHV_001 | No text annotation | ||
| HL_7OHV_003 | No text annotation | ||
| HL_7OHV_009 | No text annotation | ||
| HL_7OHV_012 | No text annotation | ||
| HL_7OHV_013 | GNRA | ||
| HL_7OHV_016 | GNRA | ||
| HL_7OHV_017 | GNRA | ||
| HL_7OHV_018 | No text annotation | ||
| HL_7OHV_019 | Externally structured | ||
| HL_7OHV_020 | No text annotation | ||
| HL_7OHV_022 | No text annotation | ||
| HL_7OHV_023 | GNRA wlth tandem sheared | ||
| HL_7OHV_024 | No text annotation | ||
| HL_7OHV_026 | T-loop with 2 stacked bulged bases | ||
| HL_7OHV_028 | GNRA variation | ||
| HL_7OHV_030 | No text annotation | ||
| HL_7OHV_031 | GNRA | ||
| HL_7OHV_032 | No text annotation | ||
| HL_7OHV_033 | No text annotation | ||
| HL_7OHV_034 | No text annotation | ||
| HL_7OHV_035 | No text annotation | ||
| HL_7OHV_036 | No text annotation | ||
| HL_7OHV_037 | Externally structured | ||
| HL_7OHV_038 | No text annotation | ||
| HL_7OHV_039 | No text annotation | ||
| HL_7OHV_040 | Mini UNCG | ||
| HL_7OHV_043 | Ribsomal LSU H95 | ||
| HL_7OHV_045 | No text annotation | ||
| HL_7OHV_047 | No text annotation | ||
| HL_7OHV_048 | No text annotation | ||
| HL_7OHV_051 | No text annotation | ||
| HL_7OHV_053 | No text annotation | ||
| HL_7OHV_054 | No text annotation | ||
| HL_7OHV_056 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_7OHV_001 | 1/1/7:8, 1/2/150:152 | Single bulged C | homologous IL_8C3A_002 NA | |
| IL_7OHV_002 | 1/1/13:15, 1/2/144:145 | Single bulged U | homologous IL_8C3A_003 NA | |
| IL_7OHV_003 | 1/1/27:28, 1/1/56:58 | No text annotation | homologous IL_8C3A_004 NA | |
| IL_7OHV_090 | 1/1/32:38, 1/1/45:52 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_4V9F_006 IL_62167.3 | |
| IL_7OHV_005 | 1/1/82:89, 1/1/97:103 | No text annotation | homologous IL_8C3A_006 NA | |
| IL_7OHV_006 | 1/1/123:124, 1/1/144:149 | No text annotation | homologous IL_8C3A_007 NA | |
| IL_7OHV_007 | 1/1/125:127, 1/1/141:143 | Isolated non-canonical cWW pair | homologous IL_8C3A_008 NA | |
| IL_7OHV_008 | 1/1/164:166, 1/1/256:257 | Single bulged A | geometric IL_7RQB_059 NA | |
| IL_7OHV_009 | 1/1/169:171, 1/1/247:253 | No text annotation | ||
| IL_7OHV_011 | 1/1/189:191, 1/1/204:205 | Single bulged U | homologous IL_8C3A_013 NA | |
| IL_7OHV_012 | 1/1/337:339, 1/2/25:26 | Single bulged A | homologous IL_5TBW_013 NA | |
| IL_7OHV_013 | 1/1/376:379, 1/1/390:403 | No text annotation | geometric IL_5TBW_014 NA | |
| IL_7OHV_014 | 1/1/404:411, 1/2/12:19 | No text annotation | ||
| IL_7OHV_015 | 1/1/429:431, 1/1/628:630 | Isolated non-canonical cWW pair | homologous IL_5TBW_016 NA | |
| IL_7OHV_017 | 1/1/512:513, 1/1/577:579 | Single bulged A | homologous IL_8C3A_020 NA | |
| IL_7OHV_018 | 1/1/517:525, 1/1/567:573 | No text annotation | homologous IL_5TBW_019 NA | |
| IL_7OHV_019 | 1/1/531:538, 1/1/553:561 | No text annotation | homologous IL_5TBW_020 NA | |
| IL_7OHV_020 | 1/1/668:670, 1/1/792:794 | Isolated non-canonical cWW pair | homologous IL_8C3A_023 NA | |
| IL_7OHV_021 | 1/1/680:684, 1/1/696:700 | No text annotation | homologous IL_5TBW_022 NA | |
| IL_7OHV_025 | 1/1/803:805, 1/1/938:940 | Isolated non-canonical cWW pair | homologous IL_8C3A_029 NA | |
| IL_7OHV_026 | 1/1/805:809, 1/1/931:938 | No text annotation | ||
| IL_7OHV_092 | 1/1/972:974, 1/1/1107:1109 | Isolated cWH basepair | geometric IL_8C3A_413 NA | |
| IL_7OHV_028 | 1/1/975:982, 1/1/1101:1106 | No text annotation | ||
| IL_7OHV_029 | 1/1/983:985, 1/1/1099:1100 | Single bulged G | homologous IL_8C3A_040 NA | |
| IL_7OHV_031 | 1/1/1167:1171, 1/1/1328:1332 | UAA/GAN | homologous IL_8C3A_051 NA | |
| IL_7OHV_032 | 1/1/1173:1180, 1/1/1325:1326 | SSU/LSU pseudoknot | homologous IL_8C3A_052 NA | |
| IL_7OHV_033 | 1/1/1180:1182, 1/1/1324:1325 | Single bulged U | homologous IL_8C3A_053 NA | |
| IL_7OHV_034 | 1/1/1186:1194, 1/1/1314:1320 | No text annotation | ||
| IL_7OHV_036 | 1/1/1207:1209, 1/1/1296:1297 | Single bulged U | homologous IL_5TBW_053 NA | |
| IL_7OHV_099 | 1/1/1218:1226, 1/1/1283:1287 | Kink-turn | homologous IL_8CRE_057 NA | |
| IL_7OHV_040 | 1/1/1376:1378, 1/1/1428:1431 | No text annotation | homologous IL_8C3A_061 NA | |
| IL_7OHV_041 | 1/1/1385:1387, 1/1/1420:1421 | Single bulged A | homologous IL_8C3A_062 NA | |
| IL_7OHV_042 | 1/1/1388:1395, 1/1/1415:1419 | Kink-turn | homologous IL_5TBW_059 NA | |
| IL_7OHV_043 | 1/1/1398:1400, 1/1/1411:1412 | Single bulged A | homologous IL_5TBW_060 NA | |
| IL_7OHV_044 | 1/1/1444:1450, 1/1/2354:2359 | No text annotation | homologous IL_8C3A_065 NA | |
| IL_7OHV_048 | 1/1/1618:1621, 1/1/1824:1826 | Other IL | homologous IL_5TBW_064 NA | |
| IL_7OHV_054 | 1/1/1694:1698, 1/1/1747:1752 | No text annotation | homologous IL_8C3A_077 NA | |
| IL_7OHV_063 | 1/1/3004:3007, 1/1/3139:3144 | Double sheared | homologous IL_8C3A_123 NA | |
| IL_7OHV_065 | 1/1/3018:3025, 1/1/3030:3036 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_5TBW_116 NA | |
| IL_7OHV_066 | 1/1/3047:3051, 1/1/3091:3094 | Major groove minor groove platform with tHH | homologous IL_8C3A_126 NA | |
| IL_7OHV_070 | 1/1/3103:3107, 1/1/3127:3131 | UAA/GAN | homologous IL_8C3A_129 NA | |
| IL_7OHV_074 | 1/1/3177:3179, 1/1/3210:3211 | Single bulged A | homologous IL_5TBW_123 NA | |
| IL_7OHV_075 | 1/1/3179:3188, 1/1/3204:3210 | No text annotation | geometric IL_5TBW_124 NA | |
| IL_7OHV_076 | 1/1/3193:3194, 1/1/3197:3199 | Single bulged U | geometric IL_5TBW_125 NA | |
| IL_7OHV_077 | 1/1/3225:3229, 1/1/3258:3260 | No text annotation | homologous IL_8C3A_133 NA | |
| IL_7OHV_080 | 1/1/3300:3303, 1/1/3311:3314 | Tandem non-canonical cWW pairs | geometric IL_5EW4_002 IL_15225.2 | |
| IL_7OHV_083 | 1/1/3328:3330, 1/1/3373:3378 | No text annotation | homologous IL_8C3A_138 NA | |
| IL_7OHV_084 | 1/1/3332:3337, 1/1/3367:3371 | No text annotation | homologous IL_8C3A_139 NA | |
| IL_7OHV_087 | 1/2/64:66, 1/2/93:96 | Isolated non-canonical cWW pair | homologous IL_5TBW_145 NA | |
| IL_7OHV_088 | 1/6/26:27, 1/6/51:54 | Multiple bulged bases | geometric IL_4V88_392 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_7OHV_004 | tSH-tHW-tHH-tHS | ||
| IL_7OHV_010 | Major groove platform | ||
| IL_7OHV_091 | Isolated tWW contact | ||
| IL_7OHV_016 | No text annotation | ||
| IL_7OHV_022 | No text annotation | ||
| IL_7OHV_023 | Single bulged A | ||
| IL_7OHV_024 | No text annotation | ||
| IL_7OHV_027 | No text annotation | ||
| IL_7OHV_093 | No text annotation | ||
| IL_7OHV_030 | Isolated non-canonical cWW pair | ||
| IL_7OHV_094 | Isolated non-canonical cWW pair | ||
| IL_7OHV_035 | No text annotation | ||
| IL_7OHV_037 | No text annotation | ||
| IL_7OHV_095 | No text annotation | ||
| IL_7OHV_096 | No text annotation | ||
| IL_7OHV_038 | No text annotation | ||
| IL_7OHV_039 | Major groove platform with extra cWW | ||
| IL_7OHV_045 | No text annotation | ||
| IL_7OHV_046 | C-loop | ||
| IL_7OHV_047 | UAA/GAN | ||
| IL_7OHV_100 | No text annotation | ||
| IL_7OHV_049 | Isolated tHS basepair with bulges | ||
| IL_7OHV_050 | No text annotation | ||
| IL_7OHV_051 | Triple sheared | ||
| IL_7OHV_052 | Isolated non-canonical cWW pair | ||
| IL_7OHV_053 | Single stack bend | ||
| IL_7OHV_055 | No text annotation | ||
| IL_7OHV_056 | Kink-turn | ||
| IL_7OHV_057 | No text annotation | ||
| IL_7OHV_058 | Triple non-canonical cWW pairs | ||
| IL_7OHV_059 | No text annotation | ||
| IL_7OHV_097 | No text annotation | ||
| IL_7OHV_060 | No text annotation | ||
| IL_7OHV_061 | Isolated non-canonical cWW pair | ||
| IL_7OHV_062 | Major groove platform with intercalation | ||
| IL_7OHV_064 | Isolated non-canonical cWW pair | ||
| IL_7OHV_067 | No text annotation | ||
| IL_7OHV_101 | No text annotation | ||
| IL_7OHV_068 | No text annotation | ||
| IL_7OHV_069 | No text annotation | ||
| IL_7OHV_071 | Isolated cWS basepair | ||
| IL_7OHV_072 | Isolated non-canonical cWW pair | ||
| IL_7OHV_073 | Tandem non-canonical cWW pairs | ||
| IL_7OHV_098 | Isolated non-canonical cWW pair | ||
| IL_7OHV_078 | Isolated non-canonical cWW pair | ||
| IL_7OHV_079 | Tandem non-canonical cWW pairs | ||
| IL_7OHV_081 | Single bulged U | ||
| IL_7OHV_082 | Single bulged U | ||
| IL_7OHV_085 | Major groove intercalation | ||
| IL_7OHV_086 | Double sheared; A in syn | ||
| IL_7OHV_089 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_7OHV_001 | 1/1/113:123, 1/1/149:158, 1/1/263:267 | No text annotation | homologous J3_8P9A_042 J3_69230.1 | |
| J3_7OHV_010 | 1/1/113:124, 1/1/144:158, 1/1/263:267 | No text annotation | ||
| J3_7OHV_011 | 1/1/340:356, 1/1/363:368, 1/2/21:24 | No text annotation | homologous J3_8C3A_047 NA | |
| J3_7OHV_002 | 1/1/369:376, 1/1/403:404, 1/2/19:20 | No text annotation | homologous J3_5TBW_002 NA | |
| J3_7OHV_003 | 1/1/502:503, 1/1/588:597, 1/1/606:611 | No text annotation | homologous J3_5TBW_003 NA | |
| J3_7OHV_006 | 1/1/1526:1531, 1/1/1591:1595, 1/1/1612:1613 | No text annotation | homologous J3_5TBW_010 NA | |
| J3_7OHV_013 | 1/1/3171:3176, 1/1/3212:3220, 1/1/3265:3279 | No text annotation | homologous J3_8P9A_064 J3_03190.1 | |
| J3_7OHV_008 | 1/1/3298:3300, 1/1/3314:3318, 1/1/3388:3390 | No text annotation | homologous J3_5TBW_015 NA | |
| J3_7OHV_009 | 1/2/44:45, 1/2/58:64, 1/2/96:100 | No text annotation | homologous J3_8C3A_060 NA | |
| J4_7OHV_001 | 1/1/112:113, 1/1/267:272, 1/1/293:299, 1/1/316:319 | No text annotation | homologous J4_8P9A_012 J4_94698.1 | |
| J4_7OHV_002 | 1/1/185:189, 1/1/205:208, 1/1/212:214, 1/1/226:231 | No text annotation | homologous J4_8C3A_002 NA | |
| J4_7OHV_003 | 1/1/1492:1496, 1/1/1520:1525, 1/1/1614:1615, 1/1/1829:1836 | No text annotation | homologous J4_8C3A_004 NA | |
| J4_7OHV_005 | 1/1/3010:3014, 1/1/3040:3043, 1/1/3098:3100, 1/1/3134:3136 | No text annotation | ||
| J5_7OHV_001 | 1/1/20:22, 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_7OHV_002 | 1/1/658:663, 1/1/799:802, 1/1/941:944, 1/1/1375:1376, 1/1/1431:1437 | No text annotation | homologous J5_8C3A_002 NA | |
| J5_7OHV_003 | 1/1/675:678, 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_7OHV_001 | 1/1/22:27, 1/1/58:68, 1/1/75:79, 1/1/106:110, 1/1/321:331, 1/2/32:35 | No text annotation | ||
| J7_7OHV_001 | 1/1/949:958, 1/1/964:968, 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 id | Problem | Sequence |
|---|---|---|---|
| J3_7OHV_004 | No text annotation | ||
| J3_7OHV_005 | No text annotation | ||
| J3_7OHV_007 | No text annotation | ||
| J3_7OHV_012 | No text annotation | ||
| J4_7OHV_004 | No text annotation |
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