Motif J4_70449.2 Version J4_70449.2 of this group appears in releases 3.3 to 3.7
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | break | 4 | 5 | 6 | break | 7 | 8 | 9 | 10 | 11 | break | 12 | 13 | 1-13 | 3-4 | 3-9 | 4-9 | 5-8 | 6-7 | 11-12 | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | J4_4MGN_001 | 4MGN | 0.4100 | 3 | tRNA junction | B | tRNA-glycine | G | 7 | A | 9 | G | 10 | * | C | 24 | A | 25 | C | 26 | * | G | 42 | G | 43 | G | 44 | G | 45 | G | 48 | * | U | 64 | C | 65 | cWW | cWW | cWW | cWW | cWW | ||
| 2 | J4_3AMU_002 | 3AMU | 0.2955 | 3 | tRNA junction | B | tRNA | G | 7 | A | 9 | G | 10 | * | C | 25 | G | 26 | C | 27 | * | G | 43 | C | 44 | G | 45 | G | 46 | G | 49 | * | C | 65 | C | 66 | ncWW | cWW | cHS | cWW | cWW | ||
| 3 | J4_4RDX_003 | 4RDX | 0.3599 | 3 | tRNA junction | C | tRNA | G | 7 | A | 9 | G | 10 | * | C | 25 | A | 26 | C | 27 | * | G | 43 | G | 44 | G | 45 | G | 46 | G | 49 | * | U | 65 | C | 66 | cWW | cWW | cHS | ncWW | ncWW | cWW | |
| 4 | J4_1N78_001 | 1N78 | 0.4403 | 2 | tRNA junction | C | tRNA(Glu) | A | 507 | C | 509 | G | 510 | * | C | 525 | G | 526 | C | 527 | * | G | 543 | A | 544 | A | 545 | A | 546 | G | 549 | * | C | 565 | U | 566 | cWW | cWW | cHS | cWW | cWW | cWW | |
| 5 | J4_5HR7_002 | 5HR7 | 0.4127 | 2 | tRNA junction | D | tRNA | U | 7 | C | 9 | G | 10 | * | C | 25 | A | 26 | C | 27 | * | G | 43 | U | 44 | A | 45 | A | 46 | A | 48 | * | U | 64 | A | 65 | cWW | cWW | cHS | cWW | cWW | ||
| 6 | J4_5HR6_001 | 5HR6 | 0.4014 | 2 | tRNA junction | C | tRNA | U | 6 | C | 8 | G | 9 | * | C | 25 | A | 26 | C | 27 | * | G | 43 | U | 44 | A | 45 | A | 46 | A | 48 | * | U | 64 | A | 65 | cWW | cWW | cHS | cWW | cWW | ||
| 7 | J4_2DER_002 | 2DER | 0.2867 | 2 | tRNA junction | D | tRNA | U | 7 | C | 9 | G | 10 | * | C | 25 | A | 26 | C | 27 | * | G | 43 | U | 44 | A | 45 | A | 46 | A | 49 | * | U | 65 | A | 66 | cWW | cWW | ncHS | cWW | ncWW | ||
| 8 | J4_1IL2_001 | 1IL2 | 0.2904 | 2 | tRNA junction | C | tRNA | A | 907 | A | 909 | G | 910 | * | U | 925 | G | 926 | G | 927 | * | C | 943 | A | 944 | G | 945 | A | 946 | 5MC | 949 | * | G | 965 | U | 966 | cWW | cWW | cHS | cWW | cWW | cWW | |
| 9 | J4_3EPH_001 | 3EPH | 0.3604 | 3 | tRNA junction | E | tRNA | A | 7 | G | 9 | G | 10 | * | C | 25 | A | 26 | G | 27 | * | U | 43 | U | 44 | G | 45 | G | 46 | C | 49 | * | G | 65 | U | 66 | cWW | cWW | ncWW | cWW | |||
| 10 | J4_1F7U_001 | 1F7U | 0.3475 | 3 | tRNA junction | B | TRNA(ARG) | G | 907 | 1MG | 909 | 2MG | 910 | * | C | 925 | M2G | 926 | PSU | 927 | * | A | 943 | A | 944 | G | 945 | A | 946 | 5MC | 949 | * | G | 965 | C | 966 | cWW | cWW | cHS | cWW | cWW | ||
| 11 | J4_1FIR_001 | 1FIR | 0.2783 | 3 | tRNA junction | A | tRNA | A | 7 | A | 9 | 2MG | 10 | * | C | 25 | A | 26 | PSU | 27 | * | A | 43 | G | 44 | G | 45 | 7MG | 46 | 5MC | 49 | * | G | 65 | U | 66 | cWW | cWW | cHS | cWW | cWW | cWW | |
| 12 | J4_2AZX_002 | 2AZX | 0.3243 | 3 | tRNA junction | D | 72-MER | G | 507 | G | 509 | G | 510 | * | C | 525 | G | 526 | U | 527 | * | A | 543 | A | 544 | G | 545 | G | 546 | G | 549 | * | U | 565 | C | 566 | cWW | cWW | cHS | cWW | cWW | cWW | |
| 13 | J4_2ZUE_001 | 2ZUE | 0.2920 | 3 | tRNA junction | B | tRNA-Arg | G | 907 | A | 909 | G | 910 | * | C | 925 | G | 926 | G | 927 | * | C | 943 | A | 944 | G | 945 | G | 946 | C | 949 | * | G | 965 | C | 966 | cWW | cWW | ncHS | cWW | cWW | cWW | |
| 14 | J4_3KFU_002 | 3KFU | 0.2936 | 3 | tRNA junction | L | tRNA | G | 7 | A | 9 | G | 10 | * | C | 25 | A | 26 | G | 27 | * | U | 43 | A | 44 | G | 45 | G | 46 | G | 49 | * | C | 65 | C | 66 | cWW | cWW | cHS | ncWw | cWW | cWW | |
| 15 | J4_1H4S_001 | 1H4S | 0.2216 | 3 | tRNA junction | T | tRNA | G | 7 | A | 9 | G | 10 | * | C | 25 | A | 26 | C | 27 | * | G | 43 | G | 44 | G | 45 | G | 46 | G | 49 | * | U | 65 | C | 66 | cWW | cWW | cHS | ncWW | cWW | cWW | |
| 16 | J4_5E81_027 | 5E81 | 0.0000 | 3 | tRNA junction | 2K | tRNA | G | 7 | G | 9 | G | 10 | * | C | 26 | G | 27 | U | 28 | * | A | 44 | A | 45 | G | 46 | G7M | 47 | G | 50 | * | C | 66 | C | 67 | cWW | cWW | cHS | ncWW | cWW | cWW | |
| 17 | J4_4V9Q_031 | 4V9Q | 0.1102 | 3 | tRNA junction | DV | tRNA | G | 7 | G | 9 | G | 10 | * | C | 25 | G | 26 | U | 27 | * | A | 43 | A | 44 | G | 45 | G | 46 | G | 49 | * | C | 65 | C | 66 | cWW | cWW | cHS | cWW | cWW | cWW | |
| 18 | J4_6CFJ_015 | 6CFJ | 0.1306 | 3 | 1x | tRNA | G | 7 | G | 9 | G | 10 | * | C | 25 | G | 26 | U | 27 | * | A | 43 | A | 44 | G | 45 | G | 46 | G | 49 | * | C | 65 | C | 66 | cWW | cWW | cHS | cWW | cWW | cWW | ||
| 19 | J4_4WT8_034 | 4WT8 | 0.1397 | 3 | tRNA junction | D4 | tRNA | G | 7 | G | 9 | G | 10 | * | C | 26 | G | 27 | U | 28 | * | A | 44 | A | 45 | G | 46 | G | 47 | G | 50 | * | C | 66 | C | 67 | ncWW | ncWW | cHS | cWW | cWW | ncWW | |
| 20 | J4_4TUE_004 | 4TUE | 0.1663 | 3 | tRNA junction | QV | tRNA | G | 6 | G | 8 | G | 9 | * | C | 25 | G | 26 | U | 27 | * | A | 43 | A | 44 | G | 45 | G | 46 | G | 49 | * | C | 65 | C | 66 | cWW | cWW | cHS | cWW | cWW | cWW | |
| 21 | J4_4WJ4_001 | 4WJ4 | 0.2013 | 3 | tRNA junction | B | tRNA | A | 7 | A | 9 | G | 10 | * | C | 25 | A | 26 | A | 27 | * | U | 43 | G | 44 | G | 45 | G | 46 | C | 49 | * | G | 65 | U | 66 | cWW | cWW | cHS | ncWW | cWW | cWW | |
| 22 | J4_3TUP_001 | 3TUP | 0.1936 | 3 | tRNA junction | T | tRNA | G | 7 | A | 9 | G | 10 | * | C | 25 | A | 26 | U | 27 | * | A | 43 | G | 44 | U | 45 | G | 46 | G | 49 | * | U | 65 | C | 66 | cWW | cWW | ncWW | cWW | ncWW | ||
| 23 | J4_3WQY_001 | 3WQY | 0.2218 | 3 | tRNA junction | C | tRNA | G | 1607 | A | 1609 | G | 1610 | * | C | 1625 | G | 1626 | C | 1627 | * | G | 1643 | A | 1644 | G | 1645 | G | 1646 | G | 1649 | * | C | 1665 | C | 1666 | cWW | cWW | cHS | cWW | cWW | cWW | |
| 24 | J4_1GAX_004 | 1GAX | 0.1946 | 3 | tRNA junction | D | TRNA(VAL) | C | 907 | A | 909 | G | 910 | * | C | 924 | G | 925 | C | 926 | * | G | 942 | A | 943 | G | 944 | G | 945 | G | 948 | * | C | 964 | G | 965 | ncWW | cWW | cHS | cWW | cWW | cWW | |
| 25 | J4_1EVV_001 | 1EVV | 0.2189 | 3 | tRNA junction | A | tRNA | U | 7 | A | 9 | 2MG | 10 | * | C | 25 | M2G | 26 | C | 27 | * | G | 43 | A | 44 | G | 45 | 7MG | 46 | 5MC | 49 | * | G | 65 | A | 66 | cWW | cWW | cHS | cWW | cWW | cWW | |
| 26 | J4_5AXM_001 | 5AXM | 0.2453 | 3 | tRNA junction | P | tRNA | U | 7 | A | 9 | G | 10 | * | C | 25 | G | 26 | C | 27 | * | G | 43 | A | 44 | G | 45 | G | 46 | C | 49 | * | G | 65 | A | 66 | cWW | cWW | cHS | cWW | cWW | cWW | |
| 27 | J4_1YFG_001 | 1YFG | 0.2302 | 3 | tRNA junction | A | tRNA | G | 7 | 1MG | 9 | 2MG | 10 | * | C | 25 | M2G | 26 | C | 27 | * | G | 43 | A | 44 | U | 45 | 7MG | 46 | 5MC | 49 | * | G | 65 | C | 66 | cWW | cWW | cWW | cWW | cWW | ||
| 28 | J4_1QU2_001 | 1QU2 | 0.2530 | 3 | tRNA junction | T | tRNA | G | 7 | A | 9 | G | 10 | * | C | 25 | G | 26 | C | 27 | * | G | 43 | A | 44 | G | 45 | G | 46 | G | 49 | * | U | 65 | C | 66 | cWW | cWW | cWW | cWW | cWW | ||
| 29 | J4_1J1U_001 | 1J1U | 0.3044 | 3 | tRNA junction | B | tRNA(Tyr) | G | 507 | A | 509 | G | 510 | * | C | 526 | G | 527 | G | 528 | * | C | 544 | A | 545 | U | 546 | G | 547 | G | 550 | * | C | 566 | C | 567 | cWW | cWW | cWW | cWW | cWW | ||
| 30 | J4_5L4O_001 | 5L4O | 0.2980 | 3 | tRNA junction | A | tRNA | G | 7 | G | 9 | G | 10 | * | C | 25 | G | 26 | U | 27 | * | A | 43 | A | 44 | G | 45 | A | 46 | G | 49 | * | C | 65 | C | 66 | cWW | cWW | cHS | ncWW | cWW | cWW | |
| 31 | J4_4V9K_004 | 4V9K | 0.3520 | 3 | tRNA junction | AW | tRNA | G | 7 | A | 9 | G | 10 | * | C | 25 | A | 26 | C | 27 | * | G | 43 | G | 44 | G | 45 | G | 46 | A | 49 | * | U | 65 | C | 66 | cWW | cWW | cHS | cWW | cWW | ncWW | |
| 32 | J4_5EL4_030 | 5EL4 | 0.3316 | 3 | tRNA junction | 3L | tRNA | U | 7 | A | 9 | G | 10 | * | C | 25 | A | 26 | G | 27 | * | U | 43 | U | 44 | G | 45 | G | 46 | G | 49 | * | C | 65 | A | 66 | cWW | cWW | cHS | ncWWa | cWW | ||
| 33 | J4_5E81_030 | 5E81 | 0.3519 | 3 | tRNA junction | 3L | tRNA | U | 7 | A | 9 | G | 10 | * | C | 25 | A | 26 | G | 27 | * | U | 43 | U | 44 | G | 45 | G | 46 | G | 49 | * | C | 65 | A | 66 | cWW | cWW | ncWW | cWW | |||
| 34 | J4_1C0A_001 | 1C0A | 0.2930 | 3 | tRNA junction | B | tRNA | G | 607 | A | 609 | G | 610 | * | U | 625 | A | 626 | C | 627 | * | G | 643 | G | 644 | G | 645 | G7M | 646 | G | 649 | * | PSU | 665 | C | 666 | cWW | cWW | cHS | ncBW | cWW | cWW | cWW |
| 35 | J4_5CCB_001 | 5CCB | 0.5797 | 3 | tRNA junction | N | tRNA | A | 7 | A | 9 | G | 10 | * | C | 25 | A | 26 | U | 27 | * | A | 43 | G | 44 | G | 45 | G | 46 | C | 49 | * | G | 65 | U | 66 | cWW | cWW | ncHS | cWW | cWW | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| UUCG*CAC*GUAACA*UA | 3 |
| GUGG*CGU*AAGGUCG*CC | 3 |
| GUAG*CAC*GGGGUCG*UC | 2 |
| UUAG*CAG*UUGGUCG*CA | 2 |
| GUAG*CGC*GCGGUCG*CC | 1 |
| AUCG*CGC*GAAACG*CU | 1 |
| AUAG*UGG*CAGAU5MC*GU | 1 |
| AUGG*CAG*UUGGUCC*GU | 1 |
| GU(1MG)2MG*C(M2G)PSU*AAGA(H2U)U5MC*GC | 1 |
| AUA2MG*CAPSU*AGG(7MG)(H2U)(5MC)5MC*GU | 1 |
| GUGG*CGU*AAGGUUG*UC | 1 |
| GUAG*CGG*CAGGUCC*GC | 1 |
| GUAG*CAG*UAGGUCG*CC | 1 |
| GUAG*CAC*GGGGGCG*UC | 1 |
| G(4SU)GG*CGU*AAG(G7M)UCG*CC | 1 |
| G(4SU)GG*CGU*AAGGUCG*CC | 1 |
| AUAG*CAA*UGGGUCC*GU | 1 |
| GUAG*CAU*AGUGUCG*UC | 1 |
| GUAG*CGC*GAGGCCG*CC | 1 |
| CUAG*CGC*GAGGUCG*CG | 1 |
| UUA2MG*C(M2G)C*GAG(7MG)UC5MC*GA | 1 |
| UUAG*CGC*GAGGUCC*GA | 1 |
| GU(1MG)2MG*C(M2G)C*GAU(7MG)(H2U)(5MC)5MC*GC | 1 |
| GUAG*CGC*GAGGUCG*UC | 1 |
| GUAG*CGG*CAUGUCG*CC | 1 |
| G(4SU)GG*CGU*AAGAUCG*CC | 1 |
| GUAG*CAC*GGGGUCA*UC | 1 |
| G(4SU)AG*UAC*GGG(G7M)UCG*PSUC | 1 |
| AUAG*CAU*AGGGUCC*GU | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| UA*A*GGGUC* | 5 |
| UA*G*AGGUC* | 4 |
| UC*A*UAAC* | 3 |
| UG*G*AGGUC* | 3 |
| UA*A*UGGUC* | 2 |
| UA*G*CGGUC* | 1 |
| UC*G*AAAC* | 1 |
| UA*G*AGAU* | 1 |
| UG*A*UGGUC* | 1 |
| U(1MG)*(M2G)*AGA(H2U)U* | 1 |
| UA*A*GG(7MG)(H2U)(5MC)* | 1 |
| UG*G*AGGUU* | 1 |
| UA*A*AGGUC* | 1 |
| UA*A*GGGGC* | 1 |
| (4SU)G*G*AG(G7M)UC* | 1 |
| (4SU)G*G*AGGUC* | 1 |
| UA*A*GUGUC* | 1 |
| UA*G*AGGCC* | 1 |
| UA*(M2G)*AG(7MG)UC* | 1 |
| U(1MG)*(M2G)*AU(7MG)(H2U)(5MC)* | 1 |
| UA*G*AUGUC* | 1 |
| (4SU)G*G*AGAUC* | 1 |
| (4SU)A*A*GG(G7M)UC* | 1 |
- Annotations
-
- tRNA junction (34)
- (1)
- Basepair signature
- cWW-cWW-cSH-cWW-F-cWW-F-cWW
- Heat map statistics
- Min 0.06 | Avg 0.35 | Max 0.76
Coloring options: