Structure of PDB 8bn3 Chain M0 Binding Site BS02

Receptor Information
>8bn3 Chain M0 (length=206) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ARRPARCYRYQKNKPYPKSRYNRAVPDSKIRIYDLGKKKATVDEFPLCVH
LVSNELEQLSSEALEAARICANKYMTTVSGRDAFHLRVRVHPFHVLRINK
GMRGAWGKPHGLAARVDIGQIIFSVRTKDSNKDVVVEGLRRARYKFPGQQ
KIILSKKWGFTNLDRPEYLKKREAGEVKDDGAFVKFLSKKGSLENNIREF
PEYFAA
Ligand information
>8bn3 Chain 1 (length=3143) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucaggccagcaucaguuuu
gguggcaggauaaauccauaggaauguagcuugccucgguaaguauuaua
gccugugggaauacugccagcugggacugaggacugcgacguaagucaag
gaugcuggcauaaugguuauaugccgcccgucuugaaacacggaccaagg
agucuaacgucuaugcgaguguuuggguguaaaacccauacgcguaauga
aagugaacguagguuggggccucgcaagaggugcacaaucgaccgauccu
gaugucuucggauggauuugaguaagagcauagcuguugggacccgaaag
auggugaacuaugccugaauagggugaagccagaggaaacucugguggag
gcucguagcgguucugacgugcaaaucgaucgucgaauuuggguauaggg
gcgaaagacuaaucgaaccaucuaguagcugguuccugccgaaguuuccc
ucaggauagcagaagcucguaucaguuuuaugagguaaagcgaaugauua
gagguuccggggucgaaaugaccuugaccuauucucaaacuuuaaauaug
uaagaaguccuuguuacuuaauugaacguggacauuugaaugaagagcuu
uuagugggccauuuuugguaagcagaacuggcgaugcgggaugaaccgaa
cguagaguuaaggugccggaauacacgcucaucagacaccacaaaaggug
uuaguucaucuagacagccggacgguggccauggaagucggaauccgcua
aggaguguguaacaacucaccggccgaaugaacuagcccugaaaauggau
ggcgcucaagcguguuaccuauacucuaccgucaggguugauaugaugcc
cugacgaguaggcaggcguggaggucagugacgaagccuagaccguaagg
ucgggucgaacggccucuagugcagaucuuggugguaguagcaaauauuc
aaaugagaacuuugaagacugaaguggggaaagguuccacgucaacagca
guuggacguggguuagucgauccuaagagauggggaagcuccguuucaaa
ggccugauuuuaugcaggccaccaucgaaagggaauccgguuaagauucc
ggaaccuggauauggauucuucacgguaacguaacugaauguggagacgu
cggcgcgagcccugggaggaguuaucuuuucuucuuaacagcuuaucacc
ccggaauugguuuauccggagauggggucuuauggcuggaagaggccagc
accuuugcuggcuccggugcgcuugugacggcccgugaaaauccacagga
aggaauaguuuucaugccaggucguacugauaaccgcagcaggucuccaa
ggugaacagccucuaguugauagaauaauguagauaagggaagucggcaa
aauagauccguaacuucgggauaaggauuggcucuaagggucgaucaacu
uagaacugguacggacaaggggaaucugacugucuaauuaaaacauagca
uugcgauggucagaaagugauguugacgcaaugugauuucugcccagugc
ucugaaugucaaagugaagaaauucaaccaagcgcggguaaacggcggga
guaacuaugacucucuuaagguagccaaaugccucgucaucuaauuagug
acgcgcaugaauggauuaacgagauucccacugucccuaucuacuaucua
gcgaaaccacagccaagggaacgggcuuggcagaaucagcggggaaagaa
gacccuguugagcuugacucuaguuugacauugugaagagacauuuauag
uuucuuuacuuauucaaugaagcggagcuggaauucauuuuccacguucu
agcauucaaggucccauucggggcugauccggguugaagacauugucagg
uggggaguuuggcuggggcggcacaucuguuaaacgauaacgcagauguc
cuaaggggggcucauggagaacagaaaucuccaguagaacaaaaggguaa
aagcccccuugauuuugauuuucagugugaauacaaaccaugaaagugug
gccuaucgauccuuuagucccucggaauuugaggcuagaggugccagaaa
aguuaccacagggauaacuggcuuguggcagucaagcguucauagcgaca
uugcuuuuugauucuucgaugucggcucuuccuaucauaccgaagcagaa
uucgguaagcguuggauuguucacccacuaauagggaacgugagcugggu
uuagaccgucgugagacagguuaguuuuacccuacugaugaauguuaccg
caauaguaauugaacuuaguacgagaggaacaguucauucggauaauugg
uuuuugcggcugucugaucaggcauugccgcgaagcuaccauccgcugga
uuauggcugaacgccucuaagucagaauccaugcuagaacgcggugauuu
cuuugcuccacacaauauagauggauacgaauaaggcguccuuguggcgu
cgcugaaccauagcaggcuagcaacggugcacuuggcggaaaggccuugg
gugcuugcuggcgaauugcaaugucauuuugcguggggauaaaucauuug
uauacgacuuagauguacaacgggguauuguaagcaguagaguagccuug
uuguuacgaucugcugagauuaagccuuuguugucugauuugu
........................<<<<<<.....<......>......>
>>>>.>.........<<....>>..<<<<<......<<.....>>.....
>>>>>..<<<..<<.......<<.<<<<<<...>>>>>>.>>.......>
>....<<<<<<<.<<<<<<<<<<<<<<<<<<<<<....<<<<......>>
>>.(.......<<<......)>>>..>.>>>>>>>>..>>>>>>>>....
>>>>>>>>>>>........<<<<<<<........>>>>>>>.....<<<<
<..((((((>>>>>..>>>...............................
...<<....>>...............<<<<....>>>>............
......................<<<<<.<<<<<..<<<<<<<.<<<<<<<
<<<<<<<<.....<<<<<<<<<......<<<<<......>>>>>......
.>>>>>>>.>.>.>>>>>.>>>>>>>>>>........<<<....>>>...
..>>>>>>>.....>>>>>.>>>>>..<<<<........>>>><<<<<<.
...<<<<<<.<<<<<<..<<<...<<<<.....>>>>...>>>...<<..
..>>.......<<<<<..<<<<<....>>>>>...>>>>>.<<<<<<<<.
..<<....>>...>>>.>>>.>>....>>>>>>.>>>>>>..<<.<..<<
<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>>>>>>>....
.>>>...<<<..<<.<<........>>>>.>>>....>>>>>>>>>...<
<.......>>......>>>>>>...>..>.>>..<<<<<<....<.<<<.
...>>>.><<<<<<<<<<...<<<.<<<<<<<.....<<<....<<<..<
.<<<<...<<<<<<.....>>>>>>.>>>>.>..>>>..>.>>.....>>
>>>...<<<<.<<<<.<......>>>>>.>>>>.....>>>>>.>>>>>>
>>.>>..<<<<.<<<<<.....>>>>>.>>>>....<<<......>>>..
.<<<<<<<..<<<<(((.....<<<<<<.....<<..........<<<.<
<<<<<<<<<.......<<<<<.......<<.........>>.........
...................>>>>>...>>>>>>>>>>>>>..........
))).>>...>>>>>>.>>>>..>>>>>>><<<<<<<<<.........>>>
>>>>>>....>>>>>><.<<<<<<<<.<<......<<<<.<<<<....>>
>>>>>>...>>>>>>>>>>..>.....>>>>>><<.....<<.....<<<
<<<.......>>>>>><<<<.....<<<<<.<<...<<<<<<...<<...
..>>.>>>>>>....((<<<<<<...<<....<<<....>>>........
<<<<<<........>>>>>>....>>....>>...<<<<<........>>
>>>))<<<<.<<<<<<<.....<<<....>>>.......<<<<<<...<<
<<.<<<<<<<.<<<<<<<<<<..[[[..>>>>>><...<<<<<....<<<
<<<....<<<.....>>>....>>>>>>.....>>>>>....><<<<<<<
<....>>>>>>>>>>>>...>>>>>>>.>>>>.........>>>>>>...
.......>>>..>>>>>>>>>>>>..>>.....<<......>>>>>>>.<
<<<.....>>>>..>>>>..<<<<.....<<<<<<<.<<.........<.
....<<<<<...............>>>>><<.<<<<<<<<<..>>>..>>
>>>>.>>............<<<<<<<<<..<<<.........>>>..<<<
<<<<....<<<<.....>>>>......>>>>>>>...<<..<<<..<<<<
<<.<...<<.....<<<<....>>>>.....>>.>>>>>..>>>>><<<<
<<.......>>>>>>........<...........<<<<<.......>>>
>>.....>.....>>....>>.>>>>>>>..>..>>.>>>>>>>..>>>>
>>....>>....<<<<<........>>>>>....<<<<<..<<<.<<...
...<<<<.<<<<<<..<<<<<.<<<<<<<<..<<<<<<<<<<.......>
>>>>>>>>>...<<<<<.....<<<<..<<<<........>>>>......
.........<<<<<<....>>>>>>..>>>>..>>>>>.....>>>>>>>
>..>>>>>...<<<.....>>>..<<<<<<...........>>>>>>..<
<...<<<<<<<...<<<<<<.......>>>>>>.....<<...(((>>..
..>>>>>>>...<<<.<<<<<.......>>>>.>>>>.<<<....>>>.>
>)))......<<<<<<<..<<<<.))))))>>>>>>>>>>>.........
>>>>..>>>>>>.......<<.<.<.<<<<<<...<<.......>>...>
>>>>>...>>.>.>.......<<<<<.<<<<<<..<.<<<<<<<......
>>>>>>>...>.<<<.........>>>.....>>>>>..>...>>>.>>.
...<<<<<<<....>>>.>>>>....>>..>>>.>>>>>....<<<<<<<
<..<<<<...<<<<<<...............>>>>>>..<<<<<...<<<
<....<<<<<<<<<<]]].>>>>>..>>>>>...>>>>..>>>>>.<<<<
...<<<<<...........>>>>>...>>>>.>>>>....>>>>>>>>..
.....<<<<<<.<<<.<<....<<..........<<<<<<.....>>>>>
>......>>.......<<<<<<...<<<<<.<..<<<......>>>..>.
>>>>>.>>>>>>.............>>.>>>.>>>>>>..<<<<<.<...
..........>.....<<<<<<<<<.<<<....<<<<.<..<<<<<....
..>>>>>..>>>>>...>>>....>>>>.>>>>>..>>>>>..
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8bn3 Evolving precision: rRNA Expansion Segment 7S enhances translation accuracy in eukaryal ribosomes
Resolution2.4 Å
Binding residue
(original residue number in PDB)		R3 R4 A6 R7 C8 K13 K15 P16 Y22 R24 Y34 K39 S61 E63 A64 A67 R90 H92 F94 R98 N100 M115 R116 A118 W119 G120 Y157 K158 P160 D193 G194 F196 K198
Binding residue
(residue number reindexed from 1)		R2 R3 A5 R6 C7 K12 K14 P15 Y21 R23 Y33 K38 S60 E62 A63 A66 R89 H91 F93 R97 N99 M102 R103 A105 W106 G107 Y144 K145 P147 D180 G181 F183 K185
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
--> -->
 
 
UnboundLocalError		Python 3.6.8: /usr/bin/python3
Wed Dec 4 21:03:50 2024

A problem occurred in a Python script. Here is the sequence of function calls leading up to the error, in the order they occurred.

 /var/www/html/BioLiP/pdb.cgi in <module>()
   1435     title=pdb2title(pdbid)
   1436     if bs.startswith("BS"):
=> 1437         pubmed,uniprot=display_interaction(pdbid,asym_id,bs,title)
   1438     else:
   1439         if lig3:
pubmed = '', uniprot = '', display_interaction = <function display_interaction>, pdbid = '8bn3', asym_id = 'M0', bs = 'BS02', title = 'Evolving precision: rRNA Expansion Segment 7S enhances translation accuracy in eukaryal ribosomes'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='8bn3', asym_id='M0', bs='BS02', title='Evolving precision: rRNA Expansion Segment 7S enhances translation accuracy in eukaryal ribosomes')
   1295         display_ec(ec,csaOrig,csaRenu)
   1296     if go:
=> 1297         display_go(go,uniprot,pdbid,asym_id)
   1298     return pubmed,uniprot
   1299 
global display_go = <function display_go>, go = '0003735,0005840,0006412', uniprot = '', pdbid = '8bn3', asym_id = 'M0'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005840,0006412', uniprot='', pdbid='8bn3', asym_id='M0')
    480         '''.replace("$namespace_link",namespace_link
    481           ).replace("$namespace",namespace
=>  482           ).replace("$uniprot",u
    483         ))
    484         for l,(term,name) in enumerate(go2aspect[Aspect]):
u undefined

UnboundLocalError: local variable 'u' referenced before assignment
      args = ("local variable 'u' referenced before assignment",)
      with_traceback = <built-in method with_traceback of UnboundLocalError object>