6EM1 Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6EM1_050 | 1/1/38:45 | No text annotation | homologous HL_8P9A_113 HL_30068.2 | |
| HL_6EM1_002 | 1/1/69:74 | No text annotation | homologous HL_8C3A_002 NA | |
| HL_6EM1_003 | 1/1/90:96 | No text annotation | homologous HL_8C3A_003 NA | |
| HL_6EM1_004 | 1/1/132:136 | No text annotation | homologous HL_5TBW_004 NA | |
| HL_6EM1_005 | 1/1/194:201 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_005 NA | |
| HL_6EM1_006 | 1/1/208:212 | No text annotation | homologous HL_5TBW_006 NA | |
| HL_6EM1_007 | 1/1/216:224 | T-loop with unstacked turn | homologous HL_5TBW_007 NA | |
| HL_6EM1_008 | 1/1/278:287 | No text annotation | homologous HL_8C3A_008 NA | |
| HL_6EM1_010 | 1/1/357:362 | GNRA | homologous HL_5TBW_010 NA | |
| HL_6EM1_011 | 1/1/382:387 | GNRA | homologous HL_5TBW_011 NA | |
| HL_6EM1_012 | 1/1/462:468 | No text annotation | ||
| HL_6EM1_013 | 1/1/542:549 | No text annotation | geometric HL_5NFV_001 HL_69752.2 | |
| HL_6EM1_014 | 1/1/599:604 | GNRA | homologous HL_5TBW_013 NA | |
| HL_6EM1_015 | 1/1/640:649 | No text annotation | ||
| HL_6EM1_046 | 1/1/687:693 | No text annotation | geometric HL_5J7L_151 HL_80922.2 | |
| HL_6EM1_017 | 1/1/707:712 | No text annotation | geometric HL_5U3G_001 HL_75660.5 | |
| HL_6EM1_018 | 1/1/732:737 | GNRA | homologous HL_5TBW_017 NA | |
| HL_6EM1_021 | 1/1/956:965 | No text annotation | ||
| HL_6EM1_023 | 1/1/1126:1132 | No text annotation | geometric HL_5U3G_001 HL_75660.5 | |
| HL_6EM1_024 | 1/1/1148:1155 | No text annotation | homologous HL_5TBW_026 NA | |
| HL_6EM1_025 | 1/1/1239:1249 | No text annotation | homologous HL_8C3A_027 NA | |
| HL_6EM1_026 | 1/1/1267:1274 | GNRA wlth tandem sheared | homologous HL_8C3A_028 NA | |
| HL_6EM1_027 | 1/1/1347:1357 | No text annotation | ||
| HL_6EM1_028 | 1/1/1403:1408 | GNRA | homologous HL_8C3A_030 NA | |
| HL_6EM1_030 | 1/1/2369:2378 | No text annotation | geometric HL_2ZNI_001 HL_75660.5 | |
| HL_6EM1_031 | 1/1/2840:2848 | No text annotation | geometric HL_1WZ2_007 HL_75660.5 | |
| HL_6EM1_032 | 1/1/2897:2904 | No text annotation | homologous HL_8C3A_063 NA | |
| HL_6EM1_033 | 1/1/2918:2928 | No text annotation | ||
| HL_6EM1_034 | 1/1/3025:3030 | GNRA | homologous HL_8C3A_066 NA | |
| HL_6EM1_035 | 1/1/3068:3073 | Ribsomal LSU H95 | homologous HL_8C3A_067 NA | |
| HL_6EM1_036 | 1/1/3110:3124 | No text annotation | geometric HL_4WF9_062 HL_74055.2 | |
| HL_6EM1_037 | 1/1/3194:3197 | No text annotation | homologous HL_5TBW_068 NA | |
| HL_6EM1_038 | 1/1/3240:3247 | No text annotation | homologous HL_5TBW_069 NA | |
| HL_6EM1_039 | 1/1/3303:3311 | No text annotation | homologous HL_8C3A_071 NA | |
| HL_6EM1_040 | 1/1/3350:3353 | Mini UNCG | homologous HL_5TBW_071 NA | |
| HL_6EM1_048 | 1/2/47:56 | No text annotation | homologous HL_8P9A_186 HL_93438.2 | |
| HL_6EM1_041 | 1/2/69:89 | No text annotation | homologous HL_8P4V_073 NA | |
| HL_6EM1_042 | 1/2/108:114 | No text annotation | homologous HL_5TBW_075 NA | |
| HL_6EM1_043 | 1/2/124:129 | No text annotation | ||
| HL_6EM1_051 | 1/6/12:16 | No text annotation | ||
| HL_6EM1_049 | 1/6/36:43 | No text annotation | ||
| HL_6EM1_045 | 1/6/38:42 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6EM1_001 | No text annotation | ||
| HL_6EM1_009 | Externally structured | ||
| HL_6EM1_016 | No text annotation | ||
| HL_6EM1_019 | No text annotation | ||
| HL_6EM1_020 | No text annotation | ||
| HL_6EM1_022 | No text annotation | ||
| HL_6EM1_029 | No text annotation | ||
| HL_6EM1_047 | No text annotation | ||
| HL_6EM1_044 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6EM1_001 | 1/1/7:8, 1/2/150:152 | Single bulged C | homologous IL_8C3A_002 NA | |
| IL_6EM1_002 | 1/1/13:15, 1/2/144:145 | Single bulged U | homologous IL_8C3A_003 NA | |
| IL_6EM1_003 | 1/1/27:28, 1/1/56:58 | Single stack bend | homologous IL_5TBW_004 NA | |
| IL_6EM1_083 | 1/1/31:38, 1/1/45:53 | tSH-tHW-tHH-tHS | homologous IL_8CRE_005 IL_84694.2 | |
| IL_6EM1_004 | 1/1/82:89, 1/1/97:103 | No text annotation | homologous IL_8C3A_006 NA | |
| IL_6EM1_005 | 1/1/123:124, 1/1/144:149 | No text annotation | homologous IL_5TBW_007 NA | |
| IL_6EM1_006 | 1/1/125:127, 1/1/141:143 | Isolated non-canonical cWW pair | homologous IL_8C3A_008 NA | |
| IL_6EM1_007 | 1/1/164:166, 1/1/256:257 | Single bulged A | geometric IL_7RQB_059 NA | |
| IL_6EM1_078 | 1/1/169:170, 1/1/248:253 | No text annotation | ||
| IL_6EM1_084 | 1/1/177:178, 1/1/238:241 | No text annotation | ||
| IL_6EM1_010 | 1/1/189:191, 1/1/204:205 | Single bulged U | homologous IL_8C3A_013 NA | |
| IL_6EM1_011 | 1/1/337:339, 1/2/25:26 | Single bulged A | homologous IL_5TBW_013 NA | |
| IL_6EM1_012 | 1/1/376:379, 1/1/390:403 | No text annotation | homologous IL_5TBW_014 NA | |
| IL_6EM1_013 | 1/1/404:410, 1/2/13:19 | Triple sheared with non-canonical cWW | homologous IL_5TBW_015 NA | |
| IL_6EM1_014 | 1/1/429:431, 1/1/628:630 | Isolated non-canonical cWW pair | homologous IL_5TBW_016 NA | |
| IL_6EM1_015 | 1/1/445:449, 1/1/485:489 | Triple non-canonical cWW pairs | geometric IL_5BTM_001 IL_49751.4 | |
| IL_6EM1_016 | 1/1/452:454, 1/1/476:482 | No text annotation | ||
| IL_6EM1_017 | 1/1/512:513, 1/1/577:579 | Single bulged A | homologous IL_8C3A_020 NA | |
| IL_6EM1_018 | 1/1/517:525, 1/1/567:573 | No text annotation | homologous IL_5TBW_019 NA | |
| IL_6EM1_019 | 1/1/531:538, 1/1/553:561 | No text annotation | homologous IL_5TBW_020 NA | |
| IL_6EM1_020 | 1/1/668:670, 1/1/792:794 | Isolated non-canonical cWW pair | homologous IL_8C3A_023 NA | |
| IL_6EM1_021 | 1/1/680:684, 1/1/696:700 | No text annotation | homologous IL_5TBW_022 NA | |
| IL_6EM1_022 | 1/1/725:728, 1/1/741:745 | No text annotation | homologous IL_8C3A_025 NA | |
| IL_6EM1_023 | 1/1/752:753, 1/1/779:781 | Single bulged A | geometric IL_7A0S_002 IL_31462.7 | |
| IL_6EM1_024 | 1/1/755:757, 1/1/774:777 | No text annotation | geometric IL_4QIK_001 IL_99358.1 | |
| IL_6EM1_025 | 1/1/803:805, 1/1/938:940 | Isolated non-canonical cWW pair | homologous IL_5TBW_027 NA | |
| IL_6EM1_026 | 1/1/805:809, 1/1/931:938 | tHW-tHW cross-strand stack | geometric IL_5TBW_028 NA | |
| IL_6EM1_027 | 1/1/969:970, 1/1/1111:1113 | No text annotation | homologous IL_8C3A_038 NA | |
| IL_6EM1_028 | 1/1/972:974, 1/1/1107:1109 | Isolated non-canonical cWW pair | geometric IL_3GM7_002 IL_87907.2 | |
| IL_6EM1_079 | 1/1/975:981, 1/1/1102:1106 | No text annotation | ||
| IL_6EM1_030 | 1/1/983:985, 1/1/1099:1100 | Single bulged G | homologous IL_8C3A_040 NA | |
| IL_6EM1_032 | 1/1/1120:1122, 1/1/1136:1138 | Isolated non-canonical cWW pair | homologous IL_8C3A_049 NA | |
| IL_6EM1_033 | 1/1/1167:1171, 1/1/1328:1332 | UAA/GAN | homologous IL_8C3A_051 NA | |
| IL_6EM1_034 | 1/1/1173:1180, 1/1/1325:1326 | SSU/LSU pseudoknot | geometric IL_5TBW_049 NA | |
| IL_6EM1_035 | 1/1/1180:1182, 1/1/1324:1325 | Single bulged U | homologous IL_5TBW_050 NA | |
| IL_6EM1_036 | 1/1/1186:1194, 1/1/1314:1320 | No text annotation | ||
| IL_6EM1_037 | 1/1/1194:1206, 1/1/1298:1314 | No text annotation | ||
| IL_6EM1_038 | 1/1/1207:1209, 1/1/1296:1297 | Single bulged U | homologous IL_5TBW_053 NA | |
| IL_6EM1_039 | 1/1/1218:1226, 1/1/1283:1287 | Kink-turn | homologous IL_5TBW_054 NA | |
| IL_6EM1_040 | 1/1/1234:1238, 1/1/1250:1254 | No text annotation | homologous IL_8C3A_058 NA | |
| IL_6EM1_041 | 1/1/1376:1378, 1/1/1428:1431 | No text annotation | homologous IL_8C3A_061 NA | |
| IL_6EM1_042 | 1/1/1385:1387, 1/1/1420:1421 | Single bulged A | homologous IL_8C3A_062 NA | |
| IL_6EM1_043 | 1/1/1388:1395, 1/1/1415:1419 | Kink-turn | homologous IL_5TBW_059 NA | |
| IL_6EM1_044 | 1/1/1398:1400, 1/1/1411:1412 | Single bulged A | geometric IL_4V9F_002 IL_31462.7 | |
| IL_6EM1_045 | 1/1/1444:1450, 1/1/2354:2359 | No text annotation | homologous IL_8C3A_065 NA | |
| IL_6EM1_046 | 1/1/2391:2394, 1/1/2986:2988 | Other IL | geometric IL_5M0H_001 NA | |
| IL_6EM1_047 | 1/1/2833:2839, 1/1/2849:2855 | No text annotation | ||
| IL_6EM1_048 | 1/1/2878:2882, 1/1/2940:2948 | No text annotation | ||
| IL_6EM1_049 | 1/1/2889:2891, 1/1/2912:2914 | Isolated non-canonical cWW pair | geometric IL_5TBW_110 NA | |
| IL_6EM1_081 | 1/1/2889:2892, 1/1/2909:2914 | No text annotation | homologous IL_8P9A_338 IL_07469.2 | |
| IL_6EM1_050 | 1/1/2891:2892, 1/1/2909:2912 | Major groove platform with intercalation | homologous IL_5TBW_111 NA | |
| IL_6EM1_051 | 1/1/3004:3007, 1/1/3139:3144 | Double sheared | homologous IL_5TBW_114 NA | |
| IL_6EM1_052 | 1/1/3012:3014, 1/1/3040:3042 | Isolated non-canonical cWW pair | homologous IL_8C3A_124 NA | |
| IL_6EM1_053 | 1/1/3018:3025, 1/1/3030:3036 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_5TBW_116 NA | |
| IL_6EM1_054 | 1/1/3047:3053, 1/1/3089:3094 | No text annotation | ||
| IL_6EM1_085 | 1/1/3054:3059, 1/1/3084:3088 | No text annotation | homologous IL_8CRE_127 IL_21001.1 | |
| IL_6EM1_056 | 1/1/3063:3064, 1/1/3077:3080 | No text annotation | homologous IL_8C3A_128 NA | |
| IL_6EM1_057 | 1/1/3103:3107, 1/1/3127:3131 | UAA/GAN | homologous IL_8C3A_129 NA | |
| IL_6EM1_058 | 1/1/3177:3179, 1/1/3210:3211 | Single bulged A | geometric IL_5TBW_123 NA | |
| IL_6EM1_059 | 1/1/3179:3188, 1/1/3204:3210 | No text annotation | homologous IL_5TBW_124 NA | |
| IL_6EM1_060 | 1/1/3193:3194, 1/1/3197:3199 | Single bulged U | geometric IL_5TBW_125 NA | |
| IL_6EM1_061 | 1/1/3225:3229, 1/1/3258:3260 | No text annotation | homologous IL_8C3A_133 NA | |
| IL_6EM1_062 | 1/1/3233:3235, 1/1/3252:3254 | Isolated non-canonical cWW pair | homologous IL_5TBW_127 NA | |
| IL_6EM1_063 | 1/1/3235:3238, 1/1/3249:3252 | Tandem non-canonical cWW pairs | geometric IL_4UYK_003 IL_77658.1 | |
| IL_6EM1_064 | 1/1/3300:3303, 1/1/3311:3314 | Tandem non-canonical cWW pairs | geometric IL_5TBW_128 NA | |
| IL_6EM1_065 | 1/1/3318:3320, 1/1/3387:3388 | Single bulged U | homologous IL_5TBW_130 NA | |
| IL_6EM1_066 | 1/1/3324:3325, 1/1/3381:3383 | Single bulged U | homologous IL_8C3A_137 NA | |
| IL_6EM1_067 | 1/1/3328:3330, 1/1/3373:3378 | No text annotation | homologous IL_8C3A_138 NA | |
| IL_6EM1_082 | 1/1/3332:3337, 1/1/3367:3371 | No text annotation | homologous IL_8C3A_139 NA | |
| IL_6EM1_069 | 1/1/3340:3342, 1/1/3363:3364 | Single bulged U | geometric IL_4KZD_001 IL_89505.4 | |
| IL_6EM1_070 | 1/1/3342:3345, 1/1/3360:3363 | Double sheared; A in syn | homologous IL_5TBW_135 NA | |
| IL_6EM1_071 | 1/1/3349:3350, 1/1/3353:3356 | Multiple bulged bases | homologous IL_8C3A_142 NA | |
| IL_6EM1_072 | 1/2/44:64, 1/2/96:100 | No text annotation | geometric IL_5TBW_144 NA | |
| IL_6EM1_073 | 1/2/64:66, 1/2/93:96 | Isolated non-canonical cWW pair | homologous IL_5TBW_145 NA | |
| IL_6EM1_074 | 1/2/68:69, 1/2/89:91 | Single bulged U | homologous IL_5TBW_146 NA | |
| IL_6EM1_075 | 1/6/26:27, 1/6/51:54 | Multiple bulged bases | geometric IL_4V88_392 NA | |
| IL_6EM1_076 | 1/6/30:34, 1/6/45:48 | No text annotation | ||
| IL_6EM1_077 | 1/6/36:38, 1/6/42:43 | Single stack bend | geometric IL_7KGA_003 IL_90729.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6EM1_008 | No text annotation | ||
| IL_6EM1_009 | Major groove platform with extra pair | ||
| IL_6EM1_029 | No text annotation | ||
| IL_6EM1_031 | No text annotation | ||
| IL_6EM1_080 | Isolated cWH basepair | ||
| IL_6EM1_055 | No text annotation | ||
| IL_6EM1_068 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6EM1_007 | 1/1/185:189, 1/1/205:214, 1/1/226:231 | No text annotation | homologous J3_8P9A_044 J3_75408.1 | |
| J3_6EM1_008 | 1/1/340:356, 1/1/363:368, 1/2/21:24 | No text annotation | homologous J3_8P9A_045 J3_30040.2 | |
| J3_6EM1_001 | 1/1/369:376, 1/1/403:404, 1/2/19:20 | No text annotation | homologous J3_5TBW_002 NA | |
| J3_6EM1_009 | 1/1/369:379, 1/1/390:404, 1/2/19:20 | No text annotation | homologous J3_8C3A_049 NA | |
| J3_6EM1_010 | 1/1/436:442, 1/1/492:495, 1/1/618:623 | No text annotation | ||
| J3_6EM1_002 | 1/1/502:503, 1/1/588:597, 1/1/606:611 | No text annotation | homologous J3_5TBW_003 NA | |
| J3_6EM1_003 | 1/1/661:663, 1/1/799:802, 1/1/941:942 | No text annotation | ||
| J3_6EM1_004 | 1/1/1230:1232, 1/1/1256:1266, 1/1/1275:1279 | No text annotation | ||
| J3_6EM1_005 | 1/1/2886:2889, 1/1/2914:2916, 1/1/2930:2936 | No text annotation | homologous J3_8C3A_011 NA | |
| J3_6EM1_006 | 1/1/3298:3300, 1/1/3314:3318, 1/1/3388:3390 | No text annotation | homologous J3_5TBW_015 NA | |
| J3_6EM1_011 | 1/2/44:45, 1/2/58:64, 1/2/96:100 | No text annotation | homologous J3_8P9A_067 J3_35667.2 | |
| J4_6EM1_001 | 1/1/185:189, 1/1/205:208, 1/1/212:214, 1/1/226:231 | No text annotation | homologous J4_8P9A_013 J4_12410.1 | |
| J4_6EM1_002 | 1/1/658:661, 1/1/942:944, 1/1/1375:1376, 1/1/1431:1437 | No text annotation | ||
| J4_6EM1_003 | 1/1/3010:3012, 1/1/3042:3043, 1/1/3098:3100, 1/1/3134:3136 | No text annotation | homologous J4_8C3A_009 NA | |
| J5_6EM1_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_01737.2 | |
| J5_6EM1_002 | 1/1/112:123, 1/1/149:158, 1/1/263:272, 1/1/293:299, 1/1/316:319 | No text annotation | ||
| J5_6EM1_003 | 1/1/112:124, 1/1/144:158, 1/1/263:272, 1/1/293:299, 1/1/316:319 | No text annotation | ||
| J5_6EM1_004 | 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_23272.1 | |
| J6_6EM1_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_6EM1_001 | 1/1/949:956, 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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