Structure of PDB 4wsd Chain 59 Binding Site BS01

Receptor Information
>4wsd Chain 59 (length=170) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SRIGRLPIPVPKGVSVEVAPGRVKVKGPKGELEVPVSPEMRVVVEEGVVR
VERPSDERRHKSLHGLTRTLIANAVKGVSEGYSKELLIKGIGYRARLVGR
ALELTVGFSHPVVVEPPEGITFEVPEPTRVRVSGIDKQKVGQVAANIRAI
RKPSAYHEKGIYYAGEPVRL
Ligand information
>4wsd Chain 14 (length=2909) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
ggucaagaugguaagggcccacgguggaugccucggcacccgagccgaug
aaggacguggcuaccugcgauaagccagggggagccgguagcgggcgugg
aucccuggauguccgaaugggggaacccggccggcgggaacgccggucac
cgcgcuugcgcggggggaaccuggggaacugaaacaucucaguacccaga
ggagaggaaagagaaaucgacucccugaguagcggcgagcgaaaggggac
cagccuaaaccguccggcuuguccgggcggggucguggggcccucggaca
ccgaauccccagccuagccgaagcuguugggaagcagcgccagagagggu
gaaagccccguaggcgaaagguggggggauaggugaggguacccgaguac
cccgugguucguggagccaugggggaaucugggcggaccaccgccuaagg
cuaaguacuccgggugaccgauagcgcaccaguaccgugagggaaaggug
aaaagaaccccgggaggggagugaaauagagccugaaaccgugggcuuac
aagcagucacggccccgcaagggguuguggcgugccuauugaagcaugag
ccggcgacucacggucgugggcgagcuuaagccguugaggcggaggcgua
gggaaaccgaguccgaacagggcgcaaacggcccgcacgcgggccgaaaa
guccgcggccguggacccgaaaccgggcgagcuagcccuggccaggguga
agcuggggugagacccaguggaggcccgaaccggugggggaugcaaaccc
cucggaugagcuggggcuaggagugaaaagcuaaccgagcccggagauag
cugguucuccccgaaaugacuuuagggucagccucaggcgcugacugggg
ccuguagagcacugauagggcuagggggcccaccagccuaccaaacccug
ucaaacuccgaagggucccagguggagccugggagugagggcgcgagcga
uaacguccgcguccgagcgcgggaacaaccgagaccgccagcuaaggccc
ccaagucugggcuaagugguaaaggauguggcgccgcgaagacagccagg
auguuggcuuagaagcagccaucauuuaaagagugcguaauagcucacug
gucgaguggcgccgcgccgaaaaugaucggggcuuaagcccagcgccgaa
gcugcgggucugggggaugaccccaggcgguaggggagcguucccgaugc
cgaugaaggccgacccgcgagggcggcuggagguaagggaagugcgaaug
ccggcaugaguaacgauaaagagggugagaaucccucucgccguaagccc
aaggguuccuacgcaauggucgucagcguaggguuaggcgggaccuaagg
ugaagccgaaaggcguagccgaagggcagccgguuaauauuccggcccuu
cccgcaggugcgauggggggacgcucuaggcuagggggaccggagccaug
gacgagcccggccagaagcgcagggugggagguaggcaaauccgccuccc
aacaagcucugcgugguggggaagcccguacgggugacaaccccccgaag
ccagggagccaagaaaagccucuaagcacaaccugcgggaacccguaccg
caaaccgacacaggugggcgggugcaagagcacucaggcgcgcgggagaa
cccucgccaaggaacucugcaaguuggccccguaacuucgggagaagggg
ugcucccuggggugaugagccccggggagccgcagugaacaggcucuggc
gacuguuuaccaaaaacacagcucucugcgaacucguaagaggagguaua
gggagcgacgcuugcccggugccggaaggucaaggggaggggugcaagcc
ccgaaccgaagccccggugaacggcggccguaacuauaacgguccuaagg
uagcgaaauuccuugucggguaaguuccgaccugcacgaaaagcguaacg
accggagcgcugucucggcgagggacccggugaaauugaacuggccguga
agaugcggccuacccguggcaggacgaaaagaccccguggagcuuuacug
cagccugguguuggcucuuggucgcgccugcguaggauaggugggagccu
gugaacccccgccuccgggugggggggaggcgccggugaaauaccacccu
ggcgcggcugggggccuaacccucggauggggggacagcgcuuggcgggc
aguuugacuggggcggucgccuccuaaaagguaacggaggcgcccaaagg
uccccucaggcgggacggaaauccgccggagagcgcaaggguagaagggg
gccugacugcgaggccugcaagccgagcaggggcgaaagccgggccuagu
gaaccgguggucccguguggaagggccaucgaucaacggauaaaaguuac
cccggggauaacaggcugaucucccccgagcguccacagcggcggggagg
uuuggcaccucgaugucggcucgucgcauccuggggcugaagaagguccc
aaggguugggcuguucgcccauuaaagcggcacgcgagcuggguucagaa
cgucgugagacaguucggucucuauccgccacgggcgcaggaggcuugag
gggggcucuuccuaguacgagaggaccggaagggacgcaccucugguuuc
ccagcugucccuccaggggcauaagcuggguagccaugugcggaagggau
aaccgcugaaagcaucuaagcgggaagcccgccccaagaugaggccuccc
acggcgucaagccgguaaggacccgggaagaccacccgguggaugggccg
gggguguaagcgccgcgaggcguugagccgaccggucccaaucguccgag
gucuugacc
.<<..<<<......<<<<<<<<<<<.....<<..<<<<<<<<<<<<....
..<<<<<<.((..((.>>>.....<<<<<<<..<<<))..)).>>>....
.>>>>>>>...>>>....<<<....>>><<<<<<<<....>>>>>>>>.<
<<<<<..>>>>>>.>>...<<<<<<.....<<....>>......>>>>>.
>.........<<....>>...<<<<<.....<<.....>>....>>>>>.
..<<<....<<<<<<<<.....>>>>>>>>......<<<<<<<<<....<
<<...<<<<<.<<<<.<<<...<<<<<......>>>>>((......<<<.
....))>>>...>>>...>>>>..>>>>>..>>>>>>>>>.>>>.....<
<<<<<<<<.......>>>>>>>>>......<<<<<..((((>>>>>..>>
>......>>.>>>>>>.>>...............<<....>>....>>..
.......<<<<....>>>>..................>>>>>>>>>>>..
.....<<<<<<<<<<<....>>>>>>>>>>>...<............>.<
<<<<<....<<<<<<<<<<<<<..<<<...<<<.....>>>...>>>...
<<....>>..<<<<.....>>>>.....<<<<<<......>>>>>>....
>>>>>>>>>>>>>..<<.<...<<<<<<.....<<<<<<<<<..<<<...
.<<<<<<......>>>>>>.....>>>...<<<..<<<<........>>>
>.>>>....>>>>>>>>>...<<<.....>>>......>>>>>>......
>.>>..<<<<<<....<<<<<....>>>>><<<<<<<<<.....<<<<<<
<<<...<<<...<<<<<<<<....<<<<<......>>>>.>....>>>>>
>>>..>>.>...>>>>>>>>>.....>>>>>>>.>>..<<<<<<<.<<..
....>>.>>>>>>>.....<<<......>>>...<<<<.<<<...<<<((
(.....<<<<<<...........<<..<<<<<<<<<......<.<<<<<.
<<....<<.........>>....>>.........<<......>>...>>>
>>.>..>>>>>>>>>.>>..........)))......>>>>>>.>>>...
>>>>>>><<<<<<<<.....>>>>>>>>....>>>>>><.<<<<<...<<
<......<<<<<.<<<....>>>>>>>>...>>>..>>>>>..>.....>
>>>>><......<<.....<<<<<<.......>>>>>><<<<....<<<<
<.<<...<<<<<<...<<.....>>.>>>>>>....((<<<<.<<...<<
<...<<<....>>>...>>>...>>...<<<<<........>>>>>))<<
<<<<<<<<<<<...<<<<....<<<<<.<<<..<<<<<.<<<<.<<..[[
[[...>>>>>><<<...<<<<<<<<<<<<<<<<.<<.....>>>>>>>>>
.....>>>>>>>>>..>>><...<<<<....>>>>.....>>>>>>...>
>>..>>>>>.........>>>>...>>...>>>>>>>>>>>>>>>..>>.
....<<......>>>>>>>.<<<<<....>>>>>..>>>>..<<<<....
<<<<<<<<.<<.........<.....<<<<<...............>>>>
><<<<<<<<<<<<.....>>>>>>>>>>>>............<<<<<<<<
<..<<<.........>>>..<<<<<<<.....<<<....>>>.......>
>>>>>>.<<<<<.<<<..<<<<<<<..<<<...<<...<<<<<....>>>
>>...>>...>>>>>>>>..>>>>><<<<<<.......>>>>>>......
..<...........<<<<<<.....>>>>>>.....>....>>>>>..>>
.>>>>>>>..>..>>.>>>>>>>>.>>>>>>.....>.....<<<<<...
.....>>>>>..<<<<<<<<.<<<.........<<<<.<<<<<<..<<<<
<.<<<.<<<<<.<<<<<<<<<<<<<<<<............<.<<..<<..
......<<<<<<<<..>>>>>>>>.....>>............>>.>...
>>>>>>>>>>>>>>>>...<<<<<....>>>>>....>>>>>.>>>..>>
>>>..<<<<.....>>>><<<<<<...........>>>>>>..<<...<<
<<<<<...<<<<<<.......>>>>>>.....<<...(((>>....>>>>
>>>...<<<<..<<<......>>>..>>>>.<<<....>>>.>>)))...
....<<<<<<<.<<..))))..>>>>>>>>>.............>>>>..
>>>>>>.......<<<<.<.<<<<<<...<<.......>>...>>>>>>.
..>>>>.>.......<<<<<.<<<<<<..<<<<<<<<<......>>>>>>
>..>>.<<<<<.....>>>>>.....>>>>>..>...>>>.>>....<<<
<<<<....>>>.>>>>........>>>>>>>>>>>....<<<<<<<...<
<<<..<<<<<<<...............>>>>>>>.<<<<<...<<<<...
<<<<<<<<<<<]]]]>>>>>>...>>>>>...>>>>.>>>>>...<<<..
..<<<<.............>>>>....>>>.>>>>.......>>>>>>>.
.<<<<.....>>>.>...<<<<<<<<<.......>>>>>....<<<<<<<
<.<<<....<<<<<....>>>>>...>>>..>>>>>.>>>...>>>>...
.>>>..>>.
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB4wsd Structural insights into the translational infidelity mechanism.
Resolution2.95 Å
Binding residue
(original residue number in PDB)
S2 R3 R6 E58 R59 K62 S63 G66 L67 F109 S110 H111 Q139 G142 Q143 R152 Y157 H158 K160
Binding residue
(residue number reindexed from 1)
S1 R2 R5 E57 R58 K61 S62 G65 L66 F108 S109 H110 Q138 G141 Q142 R151 Y156 H157 K159
Gene Ontology
--> -->
 
 
UnboundLocalError
Python 3.6.8: /usr/bin/python3
Tue Mar 11 10:06:01 2025

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 = '4wsd', asym_id = '59', bs = 'BS01', title = 'Structural insights into the translational infidelity mechanism.'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='4wsd', asym_id='59', bs='BS01', title='Structural insights into the translational infidelity mechanism.')
   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 = '0003735,0005840,0006412,0019843', uniprot = '', pdbid = '4wsd', asym_id = '59'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005840,0006412,0019843', uniprot='', pdbid='4wsd', asym_id='59')
    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>