Structure of PDB 5it7 Chain SS Binding Site BS01

Receptor Information
>5it7 Chain SS (length=169) Species: 28985 (Kluyveromyces lactis) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
FKEYQVIGRRLPTESVPEPKLFRMRIFAPNDVVAKSRYWYFLQKLHKVKK
ASGEIVSLNVISEAHPTTVKNFGVWVRYDSRSGTHNMYKEIRDVTRVGAV
ESLYQDMAARHRARFRSIHILKVVELEKTADVKRQYVKQFLTKDLKFPLP
HRVQKSTKVFAYKRPTTFY
Ligand information
>5it7 Chain 5 (length=3270) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uugaccucaaaucagguaggaauacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucuggcgucuucgacguccgaguuguaau
uugaagaaggcaacuuuguagcugguccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggaucccaguuauuugu
aaagugcuuucgacgagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaugggccagcauc
aguuuuagcgguuggauaaauccucgggaauguggcucugcuucgguaga
guguuauagcccgugggaauacagccagcugggacugaggauugcgacuu
uugucaaggaugcuggcguaaugguuaaaugccgcccgucuugaaacacg
gaccaaggagucuaacgucuaugcgaguguuuggguguaaaacccguacg
cguaaugaaagugaacguaggugagggcccgcaagggugcaucaucgacc
gauccugaugucuucggauggauuugaguaagagcauagcuguugggacc
cgaaagauggugaacuaugccugaauagggugaagccagaggaaacucug
guggaggcucguagcgguucugacgugcaaaucgaucgucgaauuugggu
auaggggcgaaagacuaaucgaaccaucuaguagcugguuccugccgaag
uuucccucaggauagcagaagcucguaucaguuuuaugagguaaagcgaa
ugauuagagguaccgggguugaaaugaccuugaccuauucucaaacuuua
aauauguaagaaguccuuguugcuuaauugaacguggacauuugaaugaa
gagcuuuuagugggccauuuuugguaagcagaacuggcgaugcgggauga
accgaacguggaguuaaggugccggaauacacgcucaucagacaccacaa
aagguguuaguucaucuagacagccggacgguggccauggaagucggaau
ccgcuaaggaguguguaacaacucaccggccgaaugaacuagcccugaaa
auggauggcgcucaagcguguuaccuauacuccaccgucaggguuaauau
gaugcccugacgaguaggcaggcguggaggucagugacgaagccuaggcu
guaaagcuggguagaacggccucuagugcagaucuuggugguaguagcaa
auauucaaaugagaacuuugaagacugaaguggggaaagguuccacguca
acagcaguuggacguggguuagucgauccuaagagauggggaagcuccgu
uucaaaggccuaauuuucuaggccaccaucgaaagggaauccgguuaaua
uuccggaaccuggauauggauucuucacgguaacguaacugaauguggag
acgucggcgcgagcccugggaggaguuaucuuuucuucuuaacagcuuau
caccccggaauugguuuauccggagagggggucuuauggcuggaagagcc
cagcccuugugcuggguccggugcgcccgcgacggcccuugaaaauccac
aggaaggaauaguuuucaugccaggucguacugauaaccgcagcaggucu
ccaaggugaacagccucuaguugauagaauaauguagauaagggaagucg
gcaaaauagauccguaacuucgggauaaggauuggcucuaaggaucgggc
gugagggccuuggucagacgcggcguuguagacggccuugguaggucucu
uguagaugcugcaauuaacgaucaacuuagaacugguacggacaagggga
aucugacugucuaauuaaaacauagcauugcgauggucagaaagugaugu
ugacgcaaugugauuucugcccagugcucugaaugucaaagugaagaaau
ucaaccaagcgcggguaaacggcgggaguaacuaugacucucuuaaggua
gccaaaugccucgucaucuaauuagugacgcgcaugaauggauuaacgag
auucccacugucccuaucuacuaucuagcgaaaccacagccaagggaacg
ggcuuggcagaaucagcggggaaagaagacccuguugagcuugacucuag
uuugacauugugaagagacauagaggguguagcauaagugggagcuucgg
cgccagugaaauaccacuaccuuuauaguuucuuuacuuauucaauuaag
cggagcuggaauucauuuuccacguucuagcauucaaaguccuauacggg
cugauccggguugaagacauugucagguggggaguuuggcuggggcggca
caucuguuaaacgauaacgcagauguccuaagggggacucauggagaaca
gaaaucuccaguagaacaaaaggguaaaaguccccuugauuuugauuuuc
agugugaauacaaaccaugaaaguguggccuaucgauccuuuagguccuc
ggaauuugaggcuagaggugccagaaaaguuaccacagggauaacuggcu
uguggcagucaagcguucauagcgacauugcuuuuugauucuucgauguc
ggcucuuccuaucauaccgaagcagaauucgguaagcguuggauuguuca
cccacuaauagggaacgugagcuggguuuagaccgucgugagacagguua
guuuuacccuacugaugaauguuaucgcaauaguaauugaacuuaguacg
agaggaacaguucauucggauaauugguuuuugcggcugucugaucaggc
auugccgcgaagcuaccauccgcuggauuauggcugaacgccucuaaguc
agaauccaugcuagaacgcgaugauuucuuugccuugcacaauauagaag
gauaagaauaaggcgucuuuuuggcgucgcugaaccauagcaggcuggca
acggugcucuuagcggaaaggcuuugggugcuugccggcgaauugcaaug
ucauuuugcgcaaggauaaaucauuuguauacgacuuaaauguacaacag
gguauuguaagcaguagaguagccuuguuguuacgaucugcugagauuaa
gccuucguugucugauuugu
........................<<<<<<.....<......>......>
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>....<<<<<<<.<<<<.<<<<<<<<<<<<<<<<....<<<<......>>
>>.(.......<<<......)>>>..>.>>>>>>>>..>>>>>>>.....
>>>>>>>>>>>........<<<<<<<........>>>>>>>.....<<<<
<..((((((>>>>>..>>>....>..........................
...<<....>>...............<<<<....>>>>............
......................<<<<<<<<<<<<.......<<<<<<<.<
<<<<<<<<<<<<<<.....<<<<.<<<<......<<<<<<<....>>>>>
>>.......>>>>.>>.>.>.>>>>>.>>>>>>>>>>........<<<..
..>>>.....>>>>>>>....>>>>>>>>>>>>..<<<<........>>>
><<<<<<....<<<<<<.<<<<<<..<<<..<<<<<.....>>>>>..>>
>...<<....>>.......<<<<<..<<<<....>>>>...>>>>>.<<<
<<<<<...<<....>>...>>>.>>>.>>....>>>>>>.>>>>>>..<<
.<..<<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>>>>>
>>.....>>>...<<<<.<<.<<........>>>>>>>>....>>>>>>>
>>...<<.......>>......>>>>>>...>..>.>>..<<<<<<....
<.<<<....>>>.><<<<<<<<<<...<<<.<<.<<<<.....<<<....
<<<..<.<<<<..<<<<<<<.....>>>>>>>>>>>.>..>>>..>.>>.
....>>>>>...<<<<.<<<<.<......>>>>>.>>>>......>>>>.
>>>>>>>>.>>..<<<<.<<<<<.....>>>>>.>>>>....<<<.....
.>>>...<<<<<<<..<<<<(((.....<<<<<<......<.........
.<<<.<<<<<<<<<<.......<<<<<.<<<...<<.........>>...
>>>.........<<......>>...>>>>>...>>>>>>>>>>>>>....
......))).>....>>>>>>.>>>>..>>>>>>><<<<<<<<<......
...>>>>>>>>>....>>>>>>..<<<<<<<..<<......<<<<.<<<<
....>>>>>>>>...>>.>>>>>>>........>>>>>><<.....<<..
...<<<<<<.......>>>>>><<<<.....<<<<<.<<...<<<<<<..
.<<.....>>.>>>>>>....((<<<<<<...<<....<<<....>>>..
......<<<<<<......>>>>>>....>>....>>...<<<<<......
..>>>>>))<<<<.<<<<<<<...<.<<<....>>>.......<<<<<<.
..<<<<.<<<<.<<<<<<<<<<<<<..[[[..>>>>>><...<<<<<...
.<<<<<.....<<<.....>>>.....>>>>>.....>>>>>....><<<
<<<<......>>>>>>>>>>>.>.>>.>>>>.>>>>.........>>>>>
>.....>....>>>..>>>>>>>>>>>>..>>.....<<......>>>>>
>>.<<<<.....>>>>..>>>>..<<<<.....<<<<<<<.<<.......
........<<<<<...............>>>>><<.<<<<<<<<<<....
......<<<..<<<<....<<<<..>>>>....>>>>..>>>........
...................>>>>..>>>>>>.>>............<<<<
<<<<<..<<<.........>>>..<<<<<<<....<<<<.....>>>>..
....>>>>>>>.<.<<..<<<..<<<<<<....<<<....<<<<<....>
>>>.>...>>>.>>>>..>>>>>.<<<<<.......>>>>>.........
<...........<<<<<.......>>>>>.....>.....>>.>..>>.>
>>>>>>.....>>.>>>>>>>..>>>>>>....>>....<<<<<......
..>>>>>....<<<<<..<<<.<<......<<<<.<<<<<<..<<<<<.<
<<<<<<<....<<<<.<.....<<<<..........<<<<<..<<....>
>............>>>>>.>>>>.....>>>.>>......<<<<<.....
<<<<....<<<......>>>.................<<<<<.....>>>
>>..>>>>..>>>>>.....>>>>>>>>..>>>>>...<<<.....>>>.
.<<<<<<...........>>>>>>..<<...<<<<<<<...<<<<<<...
....>>>>>>.....<<[..(((>>....>>>>>>>...<<<.<<<<<..
.....>>>>.>>>>.<<<....>>>.>>))).]....<<<<<<<..<<<<
.))))))>>>>>>>>>>>.........>>>>..>>>>>>.......<<.<
...<<<<<<...<<.......>>...>>>>>>....>.>.>.......<<
<<<..<<<<<..<.<<<<<<<......>>>>>>>...>.<<<........
.>>>.....>>>>>......>>>.>>....<<<<<<<....>>>.>>>>.
...>>..>>>.>>>>>....<<<<<<<<..<<<<...<<<<<<.......
........>>>>>>..<<<<<...<<<<....<<<<<<<<<<]]].>>>>
>..>>>>>...>>>>..>>>>>.<<<<...<<<<<...........>>>>
>...>>>>.>>>>....>>>>>>>>.......<<<<<<.<<<.<<....<
<..........<<<<<<.....>>>>>>......>>.......<<<<<<.
..<<<<<<<..<<<......>>>..>>>>>>>.>>>>>>...........
..>>.>>>.>>>>>>..<<<<<.<.............>.....<<<<<<<
<<.<<<....<<<<.<..<<<<<......>>>>>..>>>>>...>>>...
.>>>>.>>>>>..>>>>>..
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB5it7 Structural characterization of ribosome recruitment and translocation by type IV IRES.
Resolution3.6 Å
Binding residue
(original residue number in PDB)
N62 S65 E66 A67 H68 P69 S83 R84 S85 H88 M90 Y91 K92 Q108 A111 A112 R113 H114 R115 R117 T132 R137 Y139 L144 K146 H154 R155 K158 S159 Y165 K166 P168 T169 T170 F171
Binding residue
(residue number reindexed from 1)
N59 S62 E63 A64 H65 P66 S80 R81 S82 H85 M87 Y88 K89 Q105 A108 A109 R110 H111 R112 R114 T129 R134 Y136 L141 K143 H151 R152 K155 S156 Y162 K163 P165 T166 T167 F168
Gene Ontology
--> -->
 
 
UnboundLocalError
Python 3.6.8: /usr/bin/python3
Fri Nov 15 22:35:10 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 = '5it7', asym_id = 'SS', bs = 'BS01', title = 'Structural characterization of ribosome recruitment and translocation by type IV IRES.'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='5it7', asym_id='SS', bs='BS01', title='Structural characterization of ribosome recruitment and translocation by type IV IRES.')
   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 = '5it7', asym_id = 'SS'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005840,0006412', uniprot='', pdbid='5it7', asym_id='SS')
    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>