Query 511bd3c7298e7 finished in less than a minute
Unaligned nucleotides are translucent. Right click to view Jmol menu. More HelpQuery summary
- Molecule 1
- PDB id: 1S72, Chains: 9, Nucleotides: all
- Molecule 2
- PDB id: 3U5H, Chains: 7, Nucleotides: all
- Iteration 1
- d = 0.4, p = 2, β = 100
- Iteration 2
- d = 0.4, p = 10, β = 20
- Iteration 3
- d = 0.5, p = 9, β = 20
Local geometric similarity
Blue (low geometric discrepancy) indicates high 3D similarity.
Red (high geometric discrepancy) indicates low 3D similarity.
Bar Diagram Help
The arcs indicate basepairing interactions and are colored by type.
Bar Diagram Help
Basepair interactions are annotated according to the
Leontis-Westhof nomenclature and are colored by type.
Basepair Table Help
<0.1 | <0.2 | <0.3 | <0.4 | <0.5 | <0.6 | <0.7 | <0.8 | <0.9 | <1.0 | >=1.0 |
1S72 | 3U5H | Disc | ||||
---|---|---|---|---|---|---|
9:U1 | --- | --- | --- | |||
9:U2 | --- | --- | --- | |||
9:A3 | tSS | 9:G21 | --- | 7:G21 | ||
9:A3 | cHW | 9:G25 | --- | 7:A24 | ||
--- | --- | 7:G1 | cWW | 7:C120 | ||
--- | --- | 7:G2 | tSS | 7:A23 | ||
--- | 9:G25 | 7:G2 | tSS | 7:A24 | ||
--- | 9:C121 | 7:G2 | cWW | 7:U119 | ||
--- | 9:A120 | 7:U3 | cWW | 7:A118 | ||
9:G4 | cWW | 9:C119 | 7:U4 | cWW | 7:A117 | |
9:G5 | cWW | 9:C118 | 7:G5 | cWW | 7:C116 | |
9:C6 | cWW | 9:G117 | 7:C6 | cWW | 7:G115 | |
9:G7 | cWW | 9:C116 | 7:G7 | cWW | 7:U114 | |
9:G8 | cWW | 9:C115 | 7:G8 | cWW | 7:C113 | |
9:C9 | cWW | 9:G114 | 7:C9 | cWW | 7:G112 | |
9:C10 | --- | 7:C10 | --- | |||
9:A11 | tSS | 9:G68 | 7:A11 | --- | ||
9:A11 | ---- | 9:U69 | 7:A11 | tSS | 7:G67 | |
9:C12 | --- | 7:U12 | --- | |||
9:A13 | --- | 7:A13 | --- | |||
9:G14 | cWW | 9:C67 | 7:U14 | cWW | 7:A66 | |
9:C15 | cWW | 9:G66 | 7:C15 | cWW | 7:G65 | |
9:G16 | cWW | 9:C64 | 7:U16 | cWW | 7:A63 | |
9:G17 | cWW | 9:C63 | 7:A17 | cWW | 7:U62 | |
9:U18 | cWW | 9:A62 | 7:C18 | cWW | 7:G61 | |
9:G19 | cWW | 9:C61 | 7:C19 | cWW | 7:G60 | |
9:G20 | cWW | 9:C60 | 7:A20 | cWW | 7:U59 | |
9:G21 | tSS | 9:A3 | 7:G21 | --- | ||
9:G21 | cWW | 9:C59 | 7:G21 | cWW | 7:C58 | |
--- | --- | 7:A22 | --- | |||
9:G22 | tSW | 9:C26 | --- | 7:G25 | ||
9:U23 | --- | --- | --- | |||
9:U24 | --- | --- | --- | |||
--- | --- | 7:A23 | tSS | 7:G2 | ||
9:G25 | cWH | 9:A3 | 7:A24 | --- | ||
9:G25 | --- | 7:A24 | tSS | 7:G2 | ||
9:C26 | tWS | 9:G22 | 7:G25 | --- | ||
9:C27 | bif | 9:A54 | 7:C26 | ---- | 7:U53 | |
9:C27 | cWW | 9:U55 | 7:C26 | cWW | 7:U54 | |
9:U28 | cWW | 9:A54 | 7:A27 | cWW | 7:U53 | |
9:U28 | tSW | 9:A57 | 7:A27 | --- | ||
9:C29 | cWW | 9:G53 | 7:C28 | cWW | 7:G52 | |
9:C29 | cSW | 9:A56 | 7:C28 | cSW | 7:A55 | |
9:C30 | cWW | 9:G50 | 7:C29 | ---- | 7:U48 | |
9:C30 | cSW | 9:A52 | 7:C29 | cSW | 7:A51 | |
9:C30 | ---- | 9:A51 | 7:C29 | cWW | 7:G49 | |
9:C31 | cWW | 9:G49 | 7:G30 | cWW | 7:C47 | |
9:G32 | cWW | 9:C48 | 7:U31 | cWW | 7:A46 | |
9:U33 | cWW | 9:A47 | 7:U32 | cWW | 7:A45 | |
9:A34 | --- | 7:U33 | --- | |||
9:C35 | --- | 7:C34 | --- | |||
9:C36 | cWS | 9:A47 | 7:C35 | cWS | 7:A45 | |
9:C37 | cWW | 9:G43 | 7:C36 | cWW | 7:G41 | |
9:A38 | cSW | 9:A45 | 7:G37 | ntSH | 7:U43 | |
9:U39 | tSH | 9:A44 | 7:U38 | tSH | 7:A42 | |
9:C40 | --- | --- | --- | |||
9:C41 | --- | 7:C39 | --- | |||
9:C42 | --- | 7:C40 | --- | |||
9:G43 | cWW | 9:C37 | 7:G41 | cWW | 7:C36 | |
9:G43 | tSW | 9:C46 | 7:G41 | tSW | 7:C44 | |
9:A44 | tHS | 9:U39 | 7:A42 | tHS | 7:U38 | |
9:A45 | cWS | 9:A38 | 7:U43 | ntHS | 7:G37 | |
9:C46 | tWS | 9:G43 | 7:C44 | tWS | 7:G41 | |
9:A47 | cWW | 9:U33 | 7:A45 | cWW | 7:U32 | |
9:A47 | cSW | 9:C36 | 7:A45 | cSW | 7:C35 | |
9:C48 | cWW | 9:G32 | 7:A46 | cWW | 7:U31 | |
9:G49 | cWW | 9:C31 | 7:C47 | cWW | 7:G30 | |
9:G50 | cWW | 9:C30 | 7:U48 | ---- | 7:C29 | |
9:A51 | cSH | 9:A52 | 7:G49 | ncSH | 7:A51 | |
9:A51 | cSH | 9:G53 | 7:G49 | ncSH | 7:G52 | |
9:A51 | ---- | 9:C30 | 7:G49 | cWW | 7:C29 | |
--- | --- | 7:U50 | --- | |||
9:A52 | cWS | 9:C30 | 7:A51 | cWS | 7:C29 | |
9:A52 | cHS | 9:A51 | 7:A51 | ncHS | 7:G49 | |
9:G53 | cWW | 9:C29 | 7:G52 | cWW | 7:C28 | |
9:G53 | cHS | 9:A51 | 7:G52 | ncHS | 7:G49 | |
9:A54 | bif | 9:C27 | 7:U53 | ---- | 7:C26 | |
9:A54 | cWW | 9:U28 | 7:U53 | cWW | 7:A27 | |
9:U55 | cWW | 9:C27 | 7:U54 | cWW | 7:C26 | |
9:A56 | cWS | 9:C29 | 7:A55 | cWS | 7:C28 | |
--- | --- | 7:A56 | --- | |||
9:A57 | tWS | 9:U28 | --- | 7:A27 | ||
9:G58 | --- | 7:G57 | --- | |||
9:C59 | cWW | 9:G21 | 7:C58 | cWW | 7:G21 | |
9:C60 | cWW | 9:G20 | 7:U59 | cWW | 7:A20 | |
9:C61 | cWW | 9:G19 | 7:G60 | cWW | 7:C19 | |
9:A62 | cWW | 9:U18 | 7:G61 | cWW | 7:C18 | |
9:C63 | cWW | 9:G17 | 7:U62 | cWW | 7:A17 | |
9:C64 | cWW | 9:G16 | 7:A63 | cWW | 7:U16 | |
--- | --- | 7:A64 | --- | |||
9:A65 | --- | --- | --- | |||
9:G66 | cWW | 9:C15 | 7:G65 | cWW | 7:C15 | |
9:C67 | cWW | 9:G14 | 7:A66 | cWW | 7:U14 | |
9:G68 | tSS | 9:A11 | --- | 7:A11 | ||
9:U69 | cWW | 9:U112 | 7:G67 | cWW | 7:U111 | |
9:U69 | ---- | 9:A11 | 7:G67 | tSS | 7:A11 | |
9:U70 | cWW | 9:U111 | 7:C68 | cWW | 7:G110 | |
9:C71 | cWW | 9:G110 | 7:C69 | cWW | 7:G109 | |
9:C72 | cWW | 9:G109 | 7:U70 | cWW | 7:A108 | |
9:G73 | cWW | 9:C108 | 7:G71 | cWW | 7:C107 | |
9:G74 | cWW | 9:C107 | 7:A72 | cWW | 7:U106 | |
--- | --- | 7:C73 | --- | |||
9:G75 | cWW | 9:C106 | 7:C74 | ncWW | 7:C105 | |
9:G76 | tSH | 9:A105 | 7:G75 | tSH | 7:A104 | |
9:A77 | tHH | 9:A104 | 7:A76 | tHH | 7:A103 | |
9:G78 | cSH | 9:U79 | 7:G77 | cSH | 7:U78 | |
9:U79 | cHS | 9:G78 | 7:U78 | cHS | 7:G77 | |
9:U79 | tWH | 9:A103 | 7:U78 | tWH | 7:A102 | |
9:A80 | tHS | 9:G102 | 7:A79 | tHS | 7:G101 | |
9:C81 | cWW | 9:G101 | 7:G80 | cWW | 7:C100 | |
9:U82 | cWW | 9:G100 | 7:U81 | cWW | 7:G99 | |
9:G83 | cWW | 9:U99 | 7:G82 | cWW | 7:C98 | |
9:G84 | cWW | 9:C98 | 7:U83 | cWW | 7:A97 | |
9:A85 | cWW | 9:U97 | 7:A84 | cWW | 7:U96 | |
9:G86 | cWW | 9:C96 | 7:G85 | cWW | 7:A95 | |
9:U87 | --- | 7:U86 | --- | |||
9:G88 | cWW | 9:C95 | 7:G87 | cWW | 7:C94 | |
9:C89 | cWW | 9:G94 | 7:G88 | cWW | 7:C93 | |
9:G90 | tSH | 9:A93 | 7:G89 | tSH | 7:A92 | |
9:C91 | --- | 7:U90 | --- | |||
9:G92 | --- | 7:G91 | --- | |||
9:A93 | tHS | 9:G90 | 7:A92 | tHS | 7:G89 | |
9:G94 | cWW | 9:C89 | 7:C93 | cWW | 7:G88 | |
9:C95 | cWW | 9:G88 | 7:C94 | cWW | 7:G87 | |
9:C96 | cWW | 9:G86 | 7:A95 | cWW | 7:G85 | |
9:U97 | cWW | 9:A85 | 7:U96 | cWW | 7:A84 | |
9:C98 | cWW | 9:G84 | 7:A97 | cWW | 7:U83 | |
9:U99 | cWW | 9:G83 | 7:C98 | cWW | 7:G82 | |
9:G100 | cWW | 9:U82 | 7:G99 | cWW | 7:U81 | |
9:G101 | cWW | 9:C81 | 7:C100 | cWW | 7:G80 | |
9:G102 | tSH | 9:A80 | 7:G101 | tSH | 7:A79 | |
9:A103 | tHW | 9:U79 | 7:A102 | tHW | 7:U78 | |
9:A104 | tHH | 9:A77 | 7:A103 | tHH | 7:A76 | |
9:A105 | tHS | 9:G76 | 7:A104 | tHS | 7:G75 | |
9:C106 | cWW | 9:G75 | 7:C105 | ncWW | 7:C74 | |
9:C107 | cWW | 9:G74 | 7:U106 | cWW | 7:A72 | |
9:C108 | cWW | 9:G73 | 7:C107 | cWW | 7:G71 | |
9:G109 | cWW | 9:C72 | 7:A108 | cWW | 7:U70 | |
9:G110 | cWW | 9:C71 | 7:G109 | cWW | 7:C69 | |
9:U111 | cWW | 9:U70 | 7:G110 | cWW | 7:C68 | |
9:U112 | cWW | 9:U69 | 7:U111 | cWW | 7:G67 | |
9:C113 | --- | --- | --- | |||
9:G114 | cWW | 9:C9 | 7:G112 | cWW | 7:C9 | |
9:C115 | cWW | 9:G8 | 7:C113 | cWW | 7:G8 | |
9:C116 | cWW | 9:G7 | 7:U114 | cWW | 7:G7 | |
9:G117 | cWW | 9:C6 | 7:G115 | cWW | 7:C6 | |
9:C118 | cWW | 9:G5 | 7:C116 | cWW | 7:G5 | |
9:C119 | cWW | 9:G4 | 7:A117 | cWW | 7:U4 | |
9:A120 | --- | 7:A118 | cWW | 7:U3 | ||
9:C121 | --- | 7:U119 | cWW | 7:G2 | ||
--- | --- | 7:C120 | cWW | 7:G1 | ||
--- | --- | 7:U121 | --- | |||
9:C122 | --- | --- | --- |
UUA---GGCGGCCACAGCGGUGGG--GUUGCCUCCCGUACCCAUCCCGAACACGGA-AGAUA-AGCCCACC-AGCGUUCC ---GGUUGCGGCCAUAUCUACCAGAA---AGCACCGUUUCCCGU-CCGAUCAACUGUAGUUAA-GCUGGUAA-GA-GCCU GG-GGAGUACUGGAGUGCGCGAGCCUCUGGGAAACCCGGUUCGCCGCCAC--C- GACCGAGUAGUGUAGUGGGUGACCAUACGCGAAACUCAGGU-GCUGCAAUCU--
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