Motif IL_73276.5 Version IL_73276.5 of this group appears in releases 1.8 to 1.13
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | break | 6 | 7 | 1-3 | 1-7 | 2-3 | 2-4 | 2-5 | 2-6 | 3-7 | 4-7 | 5-6 | 5-7 | |||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | ➜ | 4MGN | 0.2953 | 1 | C | glyQS T box riboswitch | C | 29 | C | 30 | U | 31 | C | 32 | U | 33 | * | A | 73 | G | 75 | cWW | cSH | ntWH | ntHS | ncWS | cWW | |||||
| 2 | ➜ | 2QBG | 0.2600 | 1 | B | 23S rRNA | C | 1319 | C | 1320 | A | 1321 | A | 1322 | C | 1323 | * | G | 1331 | G | 1333 | cWW | ncSH | ntSW | tWH | ntHS | cWS | cWW | ||||
| 3 | ➜ | 1S72 | 0.1891 | 1 | 0 | LSU rRNA | C | 2717 | C | 2718 | A | 2719 | C | 2720 | U | 2721 | * | A | 2761 | G | 2763 | cWW | ncSH | tWH | ntHS | ncWS | cWW | |||||
| 4 | ➜ | 4IOA | 0.1271 | 1 | C-loop | X | LSU rRNA | C | 2659 | C | 2660 | G | 2661 | C | 2662 | U | 2663 | * | A | 2705 | G | 2707 | cWW | cSH | tWH | ntHS | ncWS | cWW | ||||
| 5 | ➜ | 3V2F | 0.0000 | 1 | A | 23S Ribosomal RNA | C | 2680 | C | 2681 | U | 2682 | C | 2683 | U | 2684 | * | A | 2725 | G | 2727 | cWW | cSH | tWH | ntHS | ncWS | cWW | |||||
| 6 | ➜ | 4JRC | 0.1460 | 1 | C-loop | B | Distal Stem I region of the glyQS T box leader RNA | C | 29 | C | 30 | U | 31 | C | 32 | U | 33 | * | A | 73 | G | 75 | cWW | cSH | tWH | ntHS | ncWS | cWW | ||||
| 7 | ➜ | 1KOG | 0.1529 | 1 | J | Threonyl-tRNA synthetase mRNA | C | 96 | C | 97 | A | 98 | C | 99 | U | 100 | * | A | 74 | G | 76 | cSH | cWW | cSH | tWH | ncWS | cWW | |||||
| 8 | ➜ | 2QBG | 0.1507 | 1 | B | 23S rRNA | U | 2680 | C | 2681 | A | 2682 | C | 2683 | U | 2684 | * | A | 2725 | A | 2727 | ncSH | cWW | cSH | tWH | cWS | cWW | |||||
| 9 | ➜ | 4BPP | 0.1909 | 1 | A | 18S RRNA | U | 1589 | C | 1590 | C | 1591 | C | 1592 | U | 1593 | * | A | 1130 | A | 1132 | ncSH | cWW | cSH | tWH | cWS | cWW | |||||
| 10 | ➜ | 3U5F | 0.1623 | 2 | 6 | 18S rRNA | U | 1617 | C | 1618 | C | 1619 | C | 1620 | U | 1621 | * | A | 1157 | A | 1160 | ncSH | cWW | cSH | cSH | tWH | cWS | cWW | ||||
| 11 | ➜ | 1S72 | 0.2401 | 1 | 0 | LSU rRNA | G | 1425 | C | 1426 | A | 1427 | C | 1428 | U | 1429 | * | A | 1437 | C | 1439 | cWW | cSH | tWH | cWS | cWW | ||||||
| 12 | ➜ | 3V2F | 0.2400 | 1 | A | 23S Ribosomal RNA | G | 1319 | C | 1320 | A | 1321 | A | 1322 | U | 1323 | * | A | 1331 | C | 1333 | cWW | cSH | tWH | cWS | cWW | ||||||
| 13 | ➜ | 2QBG | 0.2578 | 2 | B | 23S rRNA | G | 864 | C | 865 | A | 866 | C | 867 | U | 868 | * | A | 909 | C | 912 | ncSH | cWW | cSH | tWH | cWS | cWW | |||||
| 14 | ➜ | 4IOA | 0.3644 | 1 | C-loop | X | LSU rRNA | G | 1332 | G | 1333 | A | 1334 | A | 1335 | G | 1336 | * | C | 1344 | C | 1346 | ncSH | cWW | cWS | cWW | ||||||
| 15 | ➜ | 3U5H | 0.3987 | 3 | 5 | 25S rRNA | G | 999 | C | 1000 | A | 1002 | A | 1003 | U | 1004 | * | A | 1046 | C | 1049 | cWW | tWH | cWS | cWW | |||||||
| 16 | ➜ | 4A1B | 0.4167 | 3 | 1 | 26S RRNA | G | 1025 | C | 1026 | A | 1028 | A | 1029 | U | 1030 | * | A | 1072 | C | 1075 | ntSW | cWW | tWH | cWS | cWW | ncWS | |||||
| 17 | ➜ | 3V2F | 0.3350 | 2 | A | 23S Ribosomal RNA | G | 864 | C | 865 | A | 866 | C | 867 | U | 868 | * | A | 909 | C | 912 | tSW | cWW | ncSH | tWH | ncWS | cWW | |||||
| 18 | ➜ | 4IOA | 0.3325 | 2 | C-loop | X | LSU rRNA | G | 877 | C | 878 | A | 879 | C | 880 | U | 881 | * | A | 921 | C | 924 | tSW | cWW | cSH | tWH | cWS | cWW | ||||
| 19 | ➜ | 1FJG | 0.3969 | 0 | A | SSU rRNA | G | 371 | C | 372 | A | 373 | A | 374 | U | 375 | * | A | 389 | C | 390 | cWW | cSH | tWH | cWS | cWW | ||||||
| 20 | ➜ | 2AW7 | 0.4229 | 0 | A | 16S ribosomal RNA | A | 371 | C | 372 | A | 373 | A | 374 | U | 375 | * | A | 389 | U | 390 | ncSH | cWW | ncSH | ntWH | cWS | cWW | |||||
| 21 | ➜ | 4A1C | 0.5619 | 0 | 3 | 5S RRNA | U | 52 | U | 53 | A | 54 | A | 55 | G | 56 | * | C | 26 | A | 27 | ncSH | cWW | ncWW | ncHS | ncWS | ||||||
| 22 | ➜ | 1FJG | 0.9266 | 0 | A | SSU rRNA | C | 1128 | C | 1129 | A | 1130 | G | 1131 | C | 1132 | * | G | 1142 | G | 1143 | ncSH | cWW | ncWS | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GCACU*AAAC | 3 |
| CCUCU*ACG | 2 |
| GCGAAU*AAAC | 2 |
| GGAAG*CGC | 1 |
| GCAAU*AC | 1 |
| CCAGC*GG | 1 |
| UUAAG*CA | 1 |
| ACAAU*AU | 1 |
| GCAAU*AGC | 1 |
| ACCA*UCCCU | 1 |
| CCGCU*AUG | 1 |
| CCACU*ACG | 1 |
| CCAAC*GGG | 1 |
| CCUCU*AUG | 1 |
| CCACU*AUG | 1 |
| UCCCU*ACA | 1 |
| UCACU*AAA | 1 |
| GCACU*AGC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| CAC*AA | 3 |
| CUC*C | 2 |
| CGAA*AA | 2 |
| CAA* | 2 |
| CAA*G | 2 |
| CAG* | 1 |
| GAA*G | 1 |
| UAA* | 1 |
| CAC*G | 1 |
| CCC*C | 1 |
| CGC*U | 1 |
| CAC*C | 1 |
| CUC*U | 1 |
| CAC*U | 1 |
| CAC*A | 1 |
| CC*CCC | 1 |
Release history
| Release | 1.8 | 1.9 | 1.10 | 1.11 | 1.12 | 1.13 |
|---|---|---|---|---|---|---|
| Date | 2013-11-05 | 2013-12-07 | 2014-01-04 | 2014-02-01 | 2014-03-01 | 2014-03-29 |
| Status | Updated, 1 parent | Exact match | Exact match | Exact match | Exact match | Exact match |
Parent motifs
| Parent motif | Common motif instances | Only in IL_73276.5 | Only in the parent motif |
|---|---|---|---|
| IL_73276.4 Compare | IL_4IOA_049, IL_3U5H_042, IL_4JRC_003, IL_2QBG_102, IL_3U5F_060, IL_1S72_051, IL_2QBG_050, IL_4BPP_057, IL_1S72_091, IL_1FJG_015, IL_4IOA_028, IL_3V2F_029, IL_4A1B_046, IL_3V2F_100, IL_2QBG_033, IL_2AW7_018, IL_3V2F_048, IL_1KOG_002, IL_4IOA_097, IL_4A1C_005, IL_1FJG_047 | IL_4MGN_003 |
Children motifs
| Child motif | Common motif instances | Only in IL_73276.5 | Only in the child motif |
|---|---|---|---|
| IL_73276.6 Compare | IL_4A1C_005, IL_3U5H_042, IL_2QBG_033, IL_2QBG_102, IL_3U5F_060, IL_4IOA_049, IL_1S72_051, IL_2QBG_050, IL_4IOA_097, IL_1S72_091, IL_1FJG_015, IL_4IOA_028, IL_4A1B_046, IL_4MGN_003, IL_2AW7_018, IL_1KOG_002, IL_4JRC_003, IL_4BPP_057, IL_1FJG_047 | IL_3V2F_100, IL_3V2F_029, IL_3V2F_048 | IL_4NVV_050, IL_1VW3_085, IL_4NVV_100, IL_4NVV_031, IL_1VW3_027 |
- Annotations
-
- C-loop (4)
- Basepair signature
- cWW-tSW-tWH-cSH-cWS-cWW
- Heat map statistics
- Min 0.10 | Avg 0.39 | Max 0.98
Coloring options: