Structure of PDB 5xxb Chain O Binding Site BS01

Receptor Information
>5xxb Chain O (length=158) Species: 5811 (Toxoplasma gondii) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VKYAKESNENKCCKAFGQDLRVHFKNTHATVQAIKKDKKGNPMKLSAAKK
FLEDVMEKKRCVPFRKFTGCIGRKAQAKEFKHTQGRWPVKSCKFVLDLLR
NAESNAEMKNLDVDNLVIEHIQVNRAPKGRRRTYRAHGRINPYMSQPCHI
EVILREQE
Ligand information
>5xxb Chain 1 (length=3077) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
agaccugaaaucaggcgagguuacccgcugaacuuaagcauauuauuaag
cggaggagaagaaaauaacuaugauucccuuaguaacggcgagugaaccg
ggaucagcucaaaguggaaaucaacugcucuguugacuuguagccucgag
aggcguuaccaguggaagcgcaggguuaaguuucuugggaaagaacauca
uagagggugagaaucccguccuuccccugcguuuuuuguuccacguacgg
uacgcuuuuauagagucgcguucaucgggauuugagcgcaaaaugugugg
uagguuucacauaaagcuaaguacuggcgcgagaccgauagcaaacaagu
accgugagggaaagaugaaaaguucuuuggaaagagaguuaaaagugccu
gaaauugcugaaaaggaagcgauugggaccuugauuccaagaagugccgc
cgguuugccaucuaucccuuugccuucucucucucaccagguuuaggcuu
ugucuugauguauuuccgguucaucuuuuuggagaggucagcaucagcua
cucggaauugauuucguucaaagaagguagguuccuuguggaccguuaua
ucuuuguucuuuccuuuuccuuguggcugaggaguguuccuguuuccgag
cucgguuucugugaugcuggcuaucgguuccaaccgacgucuugaaacac
ggaccaaggagucuaacauaugugcgaguacggguuuuacuccuguaugc
gcaaugaaagugaaguagggagauuuugcuuugccauucuucgcaccuac
gaccgaccacgaucucugagagagguuugaguuggagcauaucuguuagg
acccgaaagauggugaacuaugccugaguagaaugaagucagggccugau
ggagguucguagcgauacugacgugcaaaucguucgucaaacuuggguau
aggggcgaaagacuaaucgaaccaucuaguagcugguuucuuccgaaguu
ucucucaggauagcuggaguuuuguuaguuuuaucagguaaagcgaauga
uuagaggcccucgaccuauucucaaacuuuaaauggguaagauccagugg
uuacuucauugaacugcugggauuaauaugacuccaagugggccauuuuu
gguaagcagaacuggcgaugagggaugcuccuaacgcuugguuaaggugc
caaaaugcucgcucaucagauaccauaaaagguguugguucauaugaacc
agcccugaaaauggauggcgcugaagcgggcuaccgauaccaggccauug
cuacuaauuaucacucgaccuuuuguagcaaugaguaggaagacgugggg
auugugacgaagcguucggcguaagccugcguggaacagucucuagugca
gaucuuggugguaguagcaaauauucaaaugagaacuuugaagacugaag
uggagaaggguuccaugugaacagcaauuggacauggguuagccgguccu
aagcgacagcuuaacugcguauacaguaccucguuucgcgaaagggaauc
ggguuaauauucccgagccaggacguggauacuguacgguaacguaagug
aacuccucgacgcaggcaggugcuccgggaagcguugucuuugcuuuuua
acagccacccuggaaucaguuuagcuggagauaggguuagcuggcuggua
gagcaccuuggaagguguccggugcgcuccugacugcccuugaaaagagg
agggaaaguuguuauuuacaccccuggccguaccaauaaccgcaucaggu
cuccaagguuaguagccucuggucgauagaauaagguagauaagggaagu
cggcaaaauagauccguaacuucgggaaaaggauuggcucugagggcugg
aacagcuaacucagaacuggagcggacaaggggaauccgacuguuuaauu
aaaacaaagcauugcgauggccauaacugguguugacgcaaugugauuuc
ugcccagugcucugucaaugugaugaaauuaaucaagcgcggguaaacgg
cgggaguaaugacucucuuaagguagccaaaugccucgucaucuaauuag
ugacgcgcaugaauggauuaacgagauucccacugucccuaucuacuauc
uagcgaaaccacagccaagggaacgggcuuggcagaaucagcggggaaag
aagacccuguugagcuugacucuaguccgacuuugugaaauuuacuuauu
ccguuaaguugagacucaugcucugcauguguuuugguuuuaagguggcc
cgcugaucuacgcggaagacacagucagguugggaguuuggcuggggcgg
cacaucugugaaacaauagcgcagguguccuaaggcaagcucaaugagaa
cagaaaucucauguugaccaaaaggggaaaagcuugcuugauuuugauuu
ucaguacgaauacaaacugugaaagcauggccuaucgauccuuuaggucu
gagaaacuuucagcuagaggugucagaaaaguuaccacagggauaacugg
cuuguggcagccaagcguucauagcgacguugcuuuuugauccuucgaug
ucggcucuuccuaucauugagacgcagaagucucaaagugucggauuguu
cacccgccaauagggaacgugagcuggguuuagaccgucgugagacaggu
uaguuuuacccuacugaugacuugauacugcgacaguaauccaacuuagu
acgagaggaacaguugggucggauacuugguaaaugcggcuagcugaaaa
gcuagugccgcgacgcuaccauccguuggauuaugacugaacgccucuaa
gucagaauccaugcuggauaugcaguguuauucaccgccuccuuuguuuc
augcaaugauacaggccucuggccugcuucucaucaaagcccugggcgag
aaucucaauuucuaacauuggaggugauacauccauugcagacgacuuug
uugcaaccggguauuguaaguaugagaguaggcuugucuacgaucuacua
agauuuuuccugcguuguucgaugugg
.......................<<<<<<.....<<....>>......>>
>>>.>.........<<....>>...<<<<......<<.....>>.....>
>>>...<<<...........<<<<<......>>>>>............<<
<<<<<.<<<<.<<<<<.<<<<<<<<......<<<<......>>>>.((..
....<<<.....))>>>.......>>>>>>>>.......>>>>>....>>
>>>>>>>>..>......<<<<<<<........>>>>>>>.....<<<<<.
.((((((>>>>>..>>>.................................
.<<....>>..............<<<<<....>>>>>.............
...................<<.<<<<<<<<.....<<<<<<<<<<...<<
<<<...................<<<...<<.<......>>>...>>>...
..............>>.>>>..>.>>>>>>>>>..<<<<<<<<<<<<<<<
<..<<<<........<..<<<<<<.....<<<<<.....>>>>>......
>>>>>>..>.......>>>>..>>>>>>>>.((((....<.<...<<<<.
.>>>>...>.>...>>>>>>>>...>>>>>>>>.>>..<<........>>
..<<<<<<...<<<<<<<.<<<<<<..<<<.<<<.......>>>...>>>
...<<....>>...<<<<<..<<....<<...>>......>>...>>>>>
<<<<<<<<.<..<<...>>..>.>>.>>>.>>>...>>>>>>.>>>>>>>
.<<.<..<<<<<<<.....<<<<<<<<<..<<<....<<<<<<.>>>>>>
.....>>>...<<<..<<.<<........>>>>.>>>....>>>>>>>>>
...<<.......>>......>>>>>>...>..>.>>..<<<<<<....<.
<<<....>>>.><<<<<<<.<....<<.<<<<<<<.....<<<....<<<
....<<<.......>>>....>>>..>>.>.....>>>>>...<<<<<<<
<<.<......>>>>>>>>>>....>>>>..>>>>>>.>>..<<<<.<<<<
<.....>>>>>.>>>>....<<<......>>>...<<<<<<<...<<<((
(.....<<<<<<......<..........<<<.<<<<<<<<<..>>>>>>
>>>>>>..........))).>....>>>>>>.>>>...>>>>>>><<<<<
<<<<........))))........>>>>>>>>>....>>>>>><.<<<<<
<<<<<......<<<<..<<<....>>>.>>>>...>>>>>>>>>>..>..
...>>>>>><<<....<<.....<<<<<<.......>>>>>><<<<....
.<<<<<.<<...<<<<<....<<.....>>..>>>>>....((<<<<<<.
..<<<<..<<......>>.................>>>>....>>...<<
<<<........>>>>>))<<<<..<<<<<<<....<<<....>>>.....
.{<<<<<<...<<<<.<<<<.<<.<<<<<<<<<<...[[..>>>>>>...
.<<<<<<<<<<<....<<<<...>>>>....>>>>>>.....>>>>>...
..<<<<<<<..>>>>>>>>>>>...>>.>>>>.>>>>.........>>>>
>>..........>>>>..>>>.>>>>>>>>..>>.....<<......>>>
>>>>.<<<<.....>>>>..>>>>..<<<<....<<<<<<<<.<<.....
....<.....<<<<<.....<..>......>>>>><<.<<<<<<<<<<<.
..>>>>>..>>>>>>.>>............<<<<<<<<<..<<<......
...>>>..<<<<<<<....<<<<....>>>>......>>>>>>>...<<.
.<<<..<<<<<<.<<.......<......>......>>..>>>>..>>>>
><<<<<<....>>>>>>........<...........<<<<<.......>
>>>>.....>.....>>....>>.>>>>>>>..>..>>.>>>>>>>>.>>
>>>>...>>>....<<<<<........>>>>>....<<<<<..<<<.<<.
.....<<<<.<<<<<<..<<<<<.<<<.<<<<..<<<<<.>>>>>...<<
<<<.....<.<<..<.<<.........>>.>........}...<<<<<.>
>>>>..>>.>..>>>>>.....>>>>.>>>..>>>>>...<<<.....>>
>..<<<<<<...........>>>>>>..<<...<<<<<<<...<<<<<<.
......>>>>>>.....<<...(((>>....>>>>>>>...<<<.<<<<<
.......>>>>.>>>>.<<<....>>>.>>)))......<<<<<<<..<<
<<.))))))>>>>>>>>>>>.........>>>>..>>>>>>.......<<
.<.<.<<<<<<...<<.......>>...>>>>>>...>>.>.>.......
<<<<<.<<<<<<..<<<<<<<<<......>>>>>>..>>>.<<<......
...>>>.....>>>>>..>...>>>.>>....<<<<<<<....>>>.>>>
>....>>..>>>.>>>>>.....<<<<<<<<..<<<<.<<<<<<<<....
...........>>>>>>>><<<<<...<<<<....<<<<<<<<<.]]...
>>>>..>>>>>...>>>>..>>>>>.<<<<...<<<<<...........>
>>>>...>>>>.>>>>.....>>>>>>>>......<<<<<<<..<<<<..
.............<<<<...>>>>................<<..>>....
.............>>>>..>>>>>>>..<<<<<<<.............>>
..<<<<<<<<<.<<<....<<<.<<..<<<<<<..>>>>>>..>>>>>..
.>>>....>>>>.>>>>>..>>>>>..
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB5xxb Cryo-EM structures of the 80S ribosomes from human parasites Trichomonas vaginalis and Toxoplasma gondii
Resolution3.17 Å
Binding residue
(original residue number in PDB)		V2 Y4 K16 F18 Q20 R23 H25 F26 K27 H30 K37 K40 K68 F69 G71 C72 G74 R75 K76 A77 Q78 K80 E81 Q86 R88 W89 P90 K92 N103 S106 N107 Q124 V125 K130 R133 Y136 R137 A138 H139 G140 I142 N143 P144 Y145 M146
Binding residue
(residue number reindexed from 1)		V1 Y3 K14 F16 Q18 R21 H23 F24 K25 H28 K35 K38 K66 F67 G69 C70 G72 R73 K74 A75 Q76 K78 E79 Q84 R86 W87 P88 K90 N101 S104 N105 Q122 V123 K128 R131 Y134 R135 A136 H137 G138 I140 N141 P142 Y143 M144
Gene Ontology
--> -->
 
 
UnboundLocalError		Python 3.6.8: /usr/bin/python3
Fri Nov 15 23:35:34 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 = '5xxb', asym_id = 'O', bs = 'BS01', title = 'Cryo-EM structures of the 80S ribosomes from hum...sites Trichomonas vaginalis and Toxoplasma gondii'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='5xxb', asym_id='O', bs='BS01', title='Cryo-EM structures of the 80S ribosomes from hum...sites Trichomonas vaginalis and Toxoplasma gondii')
   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 = '0003735,0005840,0006412,0015934', uniprot = '', pdbid = '5xxb', asym_id = 'O'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005840,0006412,0015934', uniprot='', pdbid='5xxb', asym_id='O')
    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>