Motif IL_73276.9 Version IL_73276.9 of this group appears in releases 1.18 to 1.18
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | break | 6 | 7 | 1-3 | 1-7 | 2-4 | 2-6 | 3-7 | 4-7 | 5-6 | |||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | IL_1FJG_047 | 1FJG | 0.8912 | 0 | Minor groove platform (H) | A | SSU rRNA | C | 1128 | C | 1129 | A | 1130 | G | 1131 | C | 1132 | * | G | 1142 | G | 1143 | ncSH | cWW | ncWS | cWW | |||
| 2 | IL_4A1C_005 | 4A1C | 0.5380 | 0 | 3 | 5S RRNA | U | 52 | U | 53 | A | 54 | A | 55 | G | 56 | * | C | 26 | A | 27 | ncSH | cWW | ncWW | cWS | ||||
| 3 | IL_4W23_023 | 4W23 | 0.3878 | 0 | 2 | 18S ribosomal RNA | C | 491 | C | 492 | A | 493 | C | 494 | U | 495 | * | A | 508 | G | 509 | ncSH | cWW | ntWH | cWW | ||||
| 4 | IL_4CUX_024 | 4CUX | 0.4343 | 0 | 2 | 18S RRNA | C | 443 | C | 444 | A | 445 | A | 446 | U | 447 | * | A | 460 | G | 461 | cWW | ncWS | cWW | |||||
| 5 | IL_1FJG_015 | 1FJG | 0.3807 | 0 | C-loop (H) | A | SSU rRNA | G | 371 | C | 372 | A | 373 | A | 374 | U | 375 | * | A | 389 | C | 390 | cWW | tWH | cWS | cWW | |||
| 6 | IL_2AW7_018 | 2AW7 | 0.3821 | 0 | A | 16S ribosomal RNA | A | 371 | C | 372 | A | 373 | A | 374 | U | 375 | * | A | 389 | U | 390 | cSH | cWW | ntWH | cWS | cWW | |||
| 7 | IL_4IOA_028 | 4IOA | 0.2654 | 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 | |
| 8 | IL_4QCN_029 | 4QCN | 0.2613 | 2 | A | 23S Ribosomal RNA | G | 911 | C | 912 | A | 913 | C | 914 | U | 915 | * | A | 955 | C | 958 | tSW | cWW | cSH | tWH | cWS | cWW | ||
| 9 | IL_4W21_067 | 4W21 | 0.3830 | 3 | 5 | 28S ribosomal RNA | G | 1739 | C | 1740 | A | 1742 | A | 1743 | U | 1744 | * | A | 1786 | C | 1789 | ntSW | cWW | tWH | ncWW | ||||
| 10 | IL_4A1B_046 | 4A1B | 0.3323 | 3 | 1 | 26S RRNA | G | 1025 | C | 1026 | A | 1028 | A | 1029 | U | 1030 | * | A | 1072 | C | 1075 | ncWW | tWH | cWS | cWW | ||||
| 11 | IL_3U5H_042 | 3U5H | 0.3043 | 3 | 5 | 25S rRNA | G | 999 | C | 1000 | A | 1002 | A | 1003 | U | 1004 | * | A | 1046 | C | 1049 | cWW | tWH | cWS | cWW | ||||
| 12 | IL_4CUV_045 | 4CUV | 0.3042 | 3 | 1 | 25S RRNA | G | 999 | C | 1000 | A | 1002 | A | 1003 | U | 1004 | * | A | 1046 | C | 1049 | cWW | ntWH | cWS | cWW | ||||
| 13 | IL_1VX6_047 | 1VX6 | 0.3497 | 3 | A | 28S ribosomal RNA | G | 1121 | A | 1122 | A | 1124 | A | 1125 | U | 1126 | * | A | 1169 | C | 1172 | cWW | cWS | cWW | |||||
| 14 | IL_4W21_093 | 4W21 | 0.3715 | 1 | 5 | 28S ribosomal RNA | U | 2415 | G | 2416 | A | 2417 | A | 2418 | C | 2419 | * | G | 2427 | A | 2429 | cWW | cWS | cWW | |||||
| 15 | IL_4IOA_049 | 4IOA | 0.3883 | 1 | C-loop | X | LSU rRNA | G | 1332 | G | 1333 | A | 1334 | A | 1335 | G | 1336 | * | C | 1344 | C | 1346 | cWW | cWS | cWW | ||||
| 16 | IL_1S72_051 | 1S72 | 0.2383 | 1 | C-loop (H) | 0 | LSU rRNA | G | 1425 | C | 1426 | A | 1427 | C | 1428 | U | 1429 | * | A | 1437 | C | 1439 | cWW | cSH | tWH | cWS | cWW | ||
| 17 | IL_4QCN_047 | 4QCN | 0.2888 | 1 | A | 23S Ribosomal RNA | G | 1365 | C | 1366 | A | 1367 | A | 1368 | U | 1369 | * | A | 1377 | C | 1379 | cWW | tWH | cWS | cWW | ||||
| 18 | IL_2QBG_033 | 2QBG | 0.2617 | 2 | B | 23S rRNA | G | 864 | C | 865 | A | 866 | C | 867 | U | 868 | * | A | 909 | C | 912 | cWW | cSH | tWH | cWS | cWW | |||
| 19 | IL_1VW3_027 | 1VW3 | 0.2500 | 2 | A | 21S ribosomal RNA | G | 787 | C | 788 | A | 789 | A | 790 | U | 791 | * | A | 835 | C | 838 | ncSH | cWW | ntWH | cWS | cWW | |||
| 20 | IL_4W23_055 | 4W23 | 0.1911 | 2 | 2 | 18S ribosomal RNA | U | 1681 | C | 1682 | C | 1683 | C | 1684 | U | 1685 | * | A | 1214 | A | 1217 | cSH | cWW | ncSH | tWH | cWS | cWW | ||
| 21 | IL_1KOG_002 | 1KOG | 0.1537 | 1 | J | Threonyl-tRNA synthetase mRNA | C | 96 | C | 97 | A | 98 | C | 99 | U | 100 | * | A | 74 | G | 76 | ncSH | cWW | ncSH | tWH | cWS | cWW | ||
| 22 | IL_2QBG_102 | 2QBG | 0.1300 | 1 | B | 23S rRNA | U | 2680 | C | 2681 | A | 2682 | C | 2683 | U | 2684 | * | A | 2725 | A | 2727 | ncSH | cWW | ncSH | tWH | cWS | cWW | ||
| 23 | IL_4BPP_057 | 4BPP | 0.1184 | 1 | A | 18S RRNA | U | 1589 | C | 1590 | C | 1591 | C | 1592 | U | 1593 | * | A | 1130 | A | 1132 | cSH | cWW | ncSH | tWH | cWS | cWW | ||
| 24 | IL_3U5F_060 | 3U5F | 0.0000 | 2 | 6 | 18S rRNA | U | 1617 | C | 1618 | C | 1619 | C | 1620 | U | 1621 | * | A | 1157 | A | 1160 | ncSH | cWW | ncSH | tWH | cWS | cWW | ||
| 25 | IL_4JRC_003 | 4JRC | 0.2219 | 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 | tHS | cWS | cWW | |
| 26 | IL_4QCN_101 | 4QCN | 0.1913 | 1 | A | 23S Ribosomal RNA | C | 2692 | C | 2693 | U | 2694 | C | 2695 | U | 2696 | * | A | 2738 | G | 2740 | cWW | cSH | ntWH | tHS | cWS | cWW | ||
| 27 | IL_4IOA_097 | 4IOA | 0.2160 | 1 | C-loop | X | LSU rRNA | C | 2659 | C | 2660 | G | 2661 | C | 2662 | U | 2663 | * | A | 2705 | G | 2707 | cWW | cSH | tWH | cWS | cWW | ||
| 28 | IL_1VW3_085 | 1VW3 | 0.2747 | 1 | A | 21S ribosomal RNA | C | 2947 | C | 2948 | C | 2949 | A | 2950 | U | 2951 | * | A | 3061 | G | 3063 | cWW | ncSH | ntWH | cWS | cWW | |||
| 29 | IL_1S72_091 | 1S72 | 0.3139 | 1 | C-loop (H) | 0 | LSU rRNA | C | 2717 | C | 2718 | A | 2719 | C | 2720 | U | 2721 | * | A | 2761 | G | 2763 | cWW | cSH | tWH | cWS | cWW | ||
| 30 | IL_2QBG_050 | 2QBG | 0.3784 | 1 | B | 23S rRNA | C | 1319 | C | 1320 | A | 1321 | A | 1322 | C | 1323 | * | G | 1331 | G | 1333 | cWW | ncWS | cWW | |||||
| 31 | IL_4MGN_003 | 4MGN | 0.3541 | 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 |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GCGAAU*AAAC | 4 |
| GCACU*AAAC | 3 |
| UCCCU*ACCA | 2 |
| CCUCU*ACG | 2 |
| CCAGC*GG | 1 |
| UUAAG*CA | 1 |
| CCACU*AG | 1 |
| CCAAU*AG | 1 |
| GCAAU*AC | 1 |
| ACAAU*AU | 1 |
| GAUAAU*AAAC | 1 |
| UGAAC*GAA | 1 |
| GGAAG*CGC | 1 |
| GCACU*AGC | 1 |
| GCAAU*AGC | 1 |
| GCAAU*AAUC | 1 |
| CCACU*AUG | 1 |
| UCACU*AAA | 1 |
| UCCCU*ACA | 1 |
| CCUCU*AUG | 1 |
| CCGCU*AUG | 1 |
| CCCAU*AAG | 1 |
| CCACU*ACG | 1 |
| CCAAC*GGG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| CGAA*AA | 4 |
| CAA* | 3 |
| CAC*AA | 3 |
| CAA*G | 2 |
| CCC*CC | 2 |
| CUC*C | 2 |
| CAG* | 1 |
| UAA* | 1 |
| CAC* | 1 |
| AUAA*AA | 1 |
| GAA*A | 1 |
| GAA*G | 1 |
| CAC*G | 1 |
| CAA*AU | 1 |
| CAC*U | 1 |
| CAC*A | 1 |
| CCC*C | 1 |
| CUC*U | 1 |
| CGC*U | 1 |
| CCA*A | 1 |
| CAC*C | 1 |
Release history
| Release | 1.18 |
|---|---|
| Date | 2014-10-07 |
| Status | Updated, 2 parents |
Parent motifs
| Parent motif | Common motif instances | Only in IL_73276.9 | Only in the parent motif |
|---|---|---|---|
| IL_73276.8 Compare | IL_4A1C_005, IL_4CUV_045, IL_1VW3_027, IL_2AW7_018, IL_1FJG_047, IL_3U5H_042, IL_4CUX_024, IL_2QBG_102, IL_3U5F_060, IL_4QCN_101, IL_1VW3_085, IL_1VX6_047, IL_4MGN_003, IL_4BPP_057, IL_4IOA_049, IL_4QCN_047, IL_1S72_091, IL_1FJG_015, IL_2QBG_033, IL_4A1B_046, IL_4JRC_003, IL_1S72_051, IL_2QBG_050, IL_4IOA_097 | IL_4W23_055, IL_4W21_067, IL_4W21_093, IL_4IOA_028, IL_4QCN_029, IL_1KOG_002, IL_4W23_023 | IL_1VX2_023, IL_4BPP_023, IL_1VWW_094, IL_1VX2_053, IL_3J7A_053 |
| IL_48070.1 Compare | IL_4QCN_029, IL_4IOA_028, IL_1KOG_002 | IL_4A1C_005, IL_4CUV_045, IL_1VW3_027, IL_2AW7_018, IL_1FJG_047, IL_4W23_055, IL_4QCN_047, IL_4CUX_024, IL_2QBG_102, IL_3U5F_060, IL_1VW3_085, IL_4QCN_101, IL_1VX6_047, IL_4MGN_003, IL_4BPP_057, IL_4IOA_049, IL_3U5H_042, IL_4W21_093, IL_1S72_091, IL_1FJG_015, IL_2QBG_033, IL_4A1B_046, IL_4W23_023, IL_4W21_067, IL_4JRC_003, IL_1S72_051, IL_2QBG_050, IL_4IOA_097 |
Children motifs
This motif has no children motifs.- Annotations
-
- (23)
- C-loop (4)
- C-loop (H) (3)
- Minor groove platform (H) (1)
- Basepair signature
- cWW-tWH-cSH-L-cWS-cWW
- Heat map statistics
- Min 0.10 | Avg 0.40 | Max 0.98
Coloring options: