Motif IL_29996.2 Version IL_29996.2 of this group appears in releases 0.2 to 0.2
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name for chain | 1 | 2 | 3 | 4 | 5 | break | 6 | 7 | 8 | 9 | 1-9 | 2-8 | 3-7 | 4-7 | 5-6 | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | IL_3FTM_002 | 3FTM | 0.5110 | 0 | UAA/GAN variation | D+C | RNA (12-mer) | C | -1 | G | 1 | G | 2 | A | 3 | A | 4 | * | U | 46 | G | 47 | A | 48 | G | 49 | cWW | ntSH | cWW | ||
| 2 | IL_3FTM_001 | 3FTM | 0.4610 | 0 | B+A | RNA (12-mer) | C | -1 | G | 1 | G | 2 | A | 3 | A | 4 | * | U | 46 | G | 47 | A | 48 | G | 49 | cWW | ntSH | cWW | |||
| 3 | IL_429D_002 | 429D | 0.4544 | 1 | C+D | RNA (13-mer) + RNA (11-mer) | C | 122 | C | 123 | A | 125 | G | 126 | C | 127 | * | G | 143 | G | 144 | A | 145 | G | 146 | cWW | ncWW | cWW | |||
| 4 | IL_3LOA_001 | 3LOA | 0.2899 | 0 | UAA/GAN variation | B+A | RNA (23-mer) | G | 1497 | U | 1498 | A | 1499 | A | 1500 | C | 1501 | * | G | 1401 | C | 1402 | C | 1403 | C | 1404 | cWW | ncWW | cWW | ||
| 5 | IL_1GID_010 | 1GID | 0.0000 | 0 | B | P4-P6 RNA RIBOZYME DOMAIN | G | 112 | A | 113 | A | 114 | A | 115 | G | 116 | * | U | 205 | A | 206 | A | 207 | C | 208 | cWW | tSH | tHS | cWW | ||
| 6 | IL_2O3V_002 | 2O3V | 0.2029 | 0 | Decoding loop related | B+A | RNA (23-mer) | A | 38 | A | 39 | A | 40 | A | 41 | G | 42 | * | C | 7 | G | 8 | C | 9 | U | 10 | cWW | cWWa | cWW | ||
| 7 | IL_3FS0_001 | 3FS0 | 0.6577 | 0 | UAA/GAN related | B+A | RNA (11-mer) | C | -1 | G | 1 | G | 2 | A | 3 | A | 4 | * | U | 46 | G | 47 | A | 48 | G | 49 | cWW | tSH | ntHh | cWW | |
| 8 | IL_3G78_010 | 3G78 | 0.7412 | 0 | A | Group II catalytic intron D1-D4-3 | C | 190 | A | 191 | A | 192 | A | 193 | G | 194 | * | U | 172 | G | 173 | A | 174 | G | 175 | cWW | tSH | tHS | cWW | ||
| 9 | IL_1GID_003 | 1GID | 0.7412 | 0 | A | P4-P6 RNA RIBOZYME DOMAIN | G | 112 | A | 113 | A | 114 | A | 115 | G | 116 | * | U | 205 | A | 206 | A | 207 | C | 208 | cWW | tSH | tHS | ncWW | ||
| 10 | IL_3BNQ_008 | 3BNQ | 0.7734 | 0 | D+C | A site of human mitochondrial ribosome, B chain | G | 13 | C | 14 | A | 15 | A | 16 | G | 17 | * | C | 7 | A | 8 | C | 9 | C | 10 | cWW | ncWw | cWw | cWW | ||
| 11 | IL_3BNT_002 | 3BNT | 0.7998 | 0 | Tandem non-canonical cWW pairs | A | A site of human mitochondrial ribosome | G | 14||||4_665 | C | 15||||4_665 | A | 16||||4_665 | A | 17||||4_665 | G | 18||||4_665 | * | C | 6 | A | 7 | C | 8 | C | 9 | cWW | ncWB | cWw | cWW | |
| 12 | IL_3BNT_005 | 3BNT | 1.0711 | 0 | Tandem non-canonical cWW pairs | A | A site of human mitochondrial ribosome | G | 14 | C | 15 | A | 16 | A | 17 | G | 18 | * | C | 6||||4_665 | A | 7||||4_665 | C | 8||||4_665 | C | 9||||4_665 | cWW | ncWB | cWw | cWW | |
| 13 | IL_3BNQ_002 | 3BNQ | 1.2499 | 0 | B+A | A site of human mitochondrial ribosome, A chain | G | 15 | C | 16 | A | 17 | A | 18 | G | 19 | * | C | 7 | A | 8 | C | 9 | C | 10 | cWW | ncWB | cWw | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GCAAG*CACC | 4 |
| CGGAA*UGAG | 3 |
| GAAAG*UAAC | 2 |
| CCGAGC*GGAG | 1 |
| GUAAC*GCCC | 1 |
| AAAAG*CGCU | 1 |
| CAAAG*UGAG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| CAA*AC | 4 |
| GGA*GA | 3 |
| AAA*AA | 2 |
| CGAG*GA | 1 |
| UAA*CC | 1 |
| AAA*GC | 1 |
| AAA*GA | 1 |
Release history
| Release | 0.2 |
|---|---|
| Date | 2011-12-08 |
| Status | Updated, 2 parents |
Parent motifs
| Parent motif | Common motif instances | Only in IL_29996.2 | Only in the parent motif |
|---|---|---|---|
| IL_29996.1 Compare | IL_3LOA_001, IL_3BNQ_008, IL_1GID_010, IL_3BNT_002, IL_3FS0_001, IL_3BNT_005, IL_3FTM_002, IL_3G78_010, IL_3FTM_001, IL_3BNQ_002, IL_1GID_003 | IL_429D_002, IL_2O3V_002 | |
| IL_16858.1 Compare | IL_429D_002, IL_2O3V_002 | IL_3LOA_001, IL_3G78_010, IL_1GID_003, IL_3FTM_001, IL_3FS0_001, IL_3BNT_005, IL_3FTM_002, IL_3BNT_002, IL_3BNQ_002, IL_1GID_010, IL_3BNQ_008 | IL_1FJG_008 |
Children motifs
| Child motif | Common motif instances | Only in IL_29996.2 | Only in the child motif |
|---|---|---|---|
| IL_29996.3 Compare | IL_3LOA_001, IL_3G78_010, IL_1GID_010, IL_429D_002, IL_2O3V_002, IL_3BNT_005, IL_3BNT_002, IL_3FTM_001, IL_3BNQ_002, IL_1GID_003, IL_3BNQ_008 | IL_3FTM_002, IL_3FS0_001 | |
| IL_07672.1 Compare | IL_3FTM_002, IL_3FS0_001 | IL_3LOA_001, IL_3BNQ_008, IL_1GID_010, IL_429D_002, IL_2O3V_002, IL_3BNT_005, IL_3BNT_002, IL_3G78_010, IL_3FTM_001, IL_3BNQ_002, IL_1GID_003 | IL_1FJG_061, IL_2ZY6_001 |
- Annotations
-
- (7)
- Tandem non-canonical cWW pairs (2)
- UAA/GAN variation (2)
- Decoding loop related (1)
- UAA/GAN related (1)
- Basepair signature
- Heat map statistics
- Min 0.00 | Avg 0.65 | Max 1.36
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