Motif IL_65542.1 Version IL_65542.1 of this group appears in releases 1.17 to 1.17
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name for chain | 1 | 2 | 3 | 4 | 5 | 6 | break | 7 | 8 | 9 | 10 | 11 | 12 | 1-12 | 2-10 | 2-11 | 3-9 | 3-10 | 4-9 | 5-8 | 6-7 | 9-10 | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | IL_1VWW_084 | 1VWW | 0.7363 | -4 | 5 | LSU rRNA | U | 2032 | A | 2033 | G | 2034 | C | 2035 | C | 2036 | C | 2037 | * | G | 1945 | G | 1946 | G | 1948 | U | 1949 | U | 1950 | G | 1951 | cWW | ncWw | cWW | |||||||
| 2 | IL_1VX2_032 | 1VX2 | 0.3386 | 0 | 2 | SSU rRNA | U | 1025 | C | 1026 | A | 1027 | A | 1028 | G | 1029 | A | 1030 | * | U | 675 | C | 676 | G | 677 | U | 678 | A | 679 | G | 680 | ncWW | ntSH | ncSH | |||||||
| 3 | IL_2XXA_015 | 2XXA | 0.2089 | 0 | G | SSRP RNA | U | 40 | C | 41 | A | 42 | G | 43 | A | 44 | G | 45 | * | C | 54 | A | 55 | G | 56 | C | 57 | A | 58 | G | 59 | cWW | ntSH | ntHW | tHS | cWw | cWW | ||||
| 4 | IL_1DUH_004 | 1DUH | 0.0000 | 0 | A | 4.5S RNA DOMAIN IV | U | 45||||4_555 | C | 46||||4_555 | A | 47||||4_555 | G | 48||||4_555 | G | 49||||4_555 | U | 50||||4_555 | * | A | 59 | A | 60 | G | 61 | C | 62 | A | 63 | G | 64 | cWW | tSH | tHW | tHS | cWW | cWW | ||||
| 5 | IL_1DUH_002 | 1DUH | 0.0000 | 0 | A | 4.5S RNA DOMAIN IV | U | 45 | C | 46 | A | 47 | G | 48 | G | 49 | U | 50 | * | A | 59||||4_555 | A | 60||||4_555 | G | 61||||4_555 | C | 62||||4_555 | A | 63||||4_555 | G | 64||||4_555 | cWW | tSH | tHW | tHS | cWW | cWW | ||||
| 6 | IL_2PXV_002 | 2PXV | 0.1394 | 0 | B | 4.5 S RNA | U | 146 | C | 147 | A | 148 | G | 149 | G | 150 | U | 151 | * | A | 160 | A | 161 | G | 162 | C | 163 | A | 164 | G | 165 | cWW | ntWH | tSH | tHW | tHS | cWW | cWW | |||
| 7 | IL_1LNT_002 | 1LNT | 0.1799 | 0 | tSH-tWH-tHS-cWW | A+B | RNA (12-mer) | U | 4 | C | 5 | A | 6 | G | 7 | G | 8 | U | 9 | * | A | 16 | A | 17 | G | 18 | C | 19 | A | 20 | G | 21 | cWW | tSH | tHW | tHS | cWW | cWW | |||
| 8 | IL_1MFQ_007 | 1MFQ | 0.2033 | 0 | tSH-tWH-tHS-cWW | A | SRP RNA | C | 190 | C | 191 | A | 192 | G | 193 | G | 194 | U | 195 | * | G | 204 | A | 205 | G | 206 | C | 207 | A | 208 | G | 209 | cWW | tWH | ntSH | tHW | tHS | cWW | cWW | ||
| 9 | IL_4CUX_035 | 4CUX | 0.5263 | 0 | 2 | SSU rRNA | C | 627 | G | 628 | U | 629 | A | 630 | G | 631 | U | 632 | * | A | 967 | U | 968 | C | 969 | A | 970 | A | 971 | G | 972 | ntSH | cWW | ||||||||
| 10 | IL_4A1B_017 | 4A1B | 0.5856 | 0 | 1 | LSU rRNA | C | 516 | A | 517 | G | 518 | A | 519 | A | 520 | C | 521 | * | G | 457 | G | 458 | G | 459 | A | 460 | A | 461 | G | 462 | cWW | ntHS | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| UCAGGU*AAGCAG | 3 |
| UGA*UACCA | 1 |
| UCGUAG*UCAAGA | 1 |
| UCAGAG*CAGCAG | 1 |
| AAGCAG*UCAGGU | 1 |
| CCAGGU*GAGCAG | 1 |
| CGUAGU*AUCAAG | 1 |
| CAGAAC*GGGAAG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| CAGG*AGCA | 4 |
| G*ACC | 1 |
| CGUA*CAAG | 1 |
| CAGA*AGCA | 1 |
| AGCA*CAGG | 1 |
| GUAG*UCAA | 1 |
| AGAA*GGAA | 1 |
Release history
| Release | 1.17 |
|---|---|
| Date | 2014-09-04 |
| Status | New id, 2 parents |
Parent motifs
| Parent motif | Common motif instances | Only in IL_65542.1 | Only in the parent motif |
|---|---|---|---|
| IL_47444.3 Compare | IL_2PXV_002, IL_1DUH_002, IL_1LNT_002, IL_1DUH_004, IL_2XXA_015, IL_1MFQ_007 | IL_4A1B_017, IL_1VX2_032, IL_4CUX_035, IL_1VWW_084 | IL_3U5H_127, IL_4FAW_007, IL_1D4R_002 |
| IL_21761.1 Compare | IL_4A1B_017, IL_4CUX_035 | IL_2PXV_002, IL_1VWW_084, IL_1DUH_002, IL_1LNT_002, IL_1DUH_004, IL_1VX2_032, IL_2XXA_015, IL_1MFQ_007 | IL_4CUX_093, IL_4CUV_031, IL_2AW7_059, IL_3U5F_079, IL_4A1B_037, IL_4BPP_078, IL_3U5H_027, IL_1FJG_053, IL_4CUV_132 |
Children motifs
| Child motif | Common motif instances | Only in IL_65542.1 | Only in the child motif |
|---|---|---|---|
| IL_98284.1 Compare | IL_2PXV_002, IL_1DUH_002, IL_1LNT_002, IL_1DUH_004, IL_2XXA_015, IL_1MFQ_007 | IL_4A1B_017, IL_1VX2_032, IL_4CUX_035, IL_1VWW_084 | IL_1D4R_002, IL_4W21_041, IL_4FAW_007 |
| IL_26321.2 Compare | IL_4A1B_017, IL_4CUX_035 | IL_2PXV_002, IL_1VWW_084, IL_1DUH_002, IL_1LNT_002, IL_1DUH_004, IL_1VX2_032, IL_2XXA_015, IL_1MFQ_007 | IL_4QK9_001, IL_4QK8_001, IL_4QLM_002, IL_3B5F_001 |
- Annotations
-
- (8)
- tSH-tWH-tHS-cWW (2)
- Basepair signature
- cWW-tSH-tWH-tHW-tHS-cWW-cWW
- Heat map statistics
- Min 0.14 | Avg 0.42 | Max 1.01
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