Structure of PDB 8p5d Chain SX0 Binding Site BS01

Receptor Information
>8p5d Chain SX0 (length=140) Species: 1358809 (Spraguea lophii 42_110) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MYGLLAARNLKKNRHKRRYADKDFAKKARGDIYQNAVGYSAPHAKGIVTE
KLGVEAKQPNSAIRKCVRVHIVRLNKKVIAYVPHDGGLNQIEINDEVIVE
GLGKKGCRSKGDIPGVRFRVCKVQKVSLKALVTKKKERPA
Ligand information
>8p5d Chain S60 (length=1354) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
accagguugauucugccugacguggaugcuagucucauagauuuagccau
gcauguguaagcgaagcgauuagugaagcggcggaaggcucaguaacggg
cgaguauuuaaucucuagaaccggacaaccucaggaaacagaggggaaaa
cggaguaagagcauguguuagcaugugaugagaacaacagugcaggagag
uaagaagccaucccaucaguuaguaaguaggguaagggccuauuuagacg
uagacggguacgggggauuaggguuugauuccggagagggagccugagag
acggcuaccagguccaaggacagcagcaggcgcgaaaauuaccgaagccu
ccaagagggcgguagugaagagacgugaaaacaaguguguguaaaaacca
caugaguaacuggaggucaaggcuggugccagcauccgcgguaauaccag
cuccaggagugucuaugaugauugcugcgauuaaaagguccguagucgaa
gaacaguacuuguuuguaauguggcuuaucgagagccgaauagaacgaga
agaguucagaguaaggagcgaaggagggcuagauuauugagcagcgagag
gugaaauuugaugaccugcuuaggaguaacagaggcgaaagcgcuaguca
agaacgaauccgaugaucaaggacguaggcuggaggaucgaagacgauua
gagaccguaguaguuccagcaguaaacgaugccuacgcuguugugguuau
gagcacggcagaagagaaaucuaguagggcuuuggggagaguacgcgcgc
aagcgauaaauuuaaaggaaauugacggaagaacaccacaaggaguggag
ugugcggcuuaauuugacucaacgcgggacagcuuaccauacccgauggc
cgugugagcguaguacgcgauaggucagagaguggugcauggccguuaac
gacgaguggggugaccuuuggguuaaguccgcgaaguagugagaucccua
ggauacgaaaguuaucgacagguguuaaaaacacaggaaggaaggggcaa
gaacaggucagugaugcccuuagaugguaugggcugcacgcgcacuacag
uggucacagcagaaacaaauagaaguaaaugugaucgagagggaaugagc
acuguaaugugcacaggaacgaggaauugcuaguaaucguuaucucauua
agaagcgaugaaugugucccuguucuuuguacacaccgcccgucguuauc
gaagauggaaccaggugcgaacaagugaaagcgagugagugcaggguucu
agaucugauacaagucguaacaaggcagcuguaggagaaccuguagcugg
auca
..<<<<<.[.(((.>>>>>.<<<<<<<<<..<<<<<.<.......<<<.<
<<..<<....<<...<<.....>>...>>.>>......<<.......<<<
<.....<<...<<<<<.<..<<<.....<<<<.<....>.>>>>......
>>>....<..<<<<<<....>>>>>>..>....<<....>>.>.>>>>>.
.>>...>>>.><<<....<<<..<<<<<<<<.......>>>>>>>>>>>.
.....>>>..<<<.<<<<....>>>>....>>>.>>.<<.<<<.......
...>>>.>>..<<<<..>>>>....>>>>>>.........<<<....<<<
<...>>>>..>>>...>..>>>>>..........<<<<<.........>>
>>>......<<<<<((....<.<<<<.....<<..))>>.......>>>>
>>>>>>..>>>>>>>>>..........<<<((.....<<<<...<<<...
<<<<....<<<<<<<......<<<<<<.....>>>>>>....>>>>>>>.
...>>>>.......<<<.<<......<<<<<<..<.<<<<<<<<...<<<
......>>>......>>>>>>>>..>........<<....>>.>>>>>>.
....>>..>>>...>>>...>>>>..<.<<<<<<<...<....<<<....
.....>>>....>>>>>>>>..>.......<<<.<<.<<<<<<<<.<<..
>>.>>>>>>>>..<<..))>>..>>..>>>.>>>.<<<.......<<<..
..>>>.....>>>....))).]<<<<<.<<<<<<<..<<..<.<<<..<<
<<<<<<<<......<<........>>..........<<<<<<<...<<<<
<......<<<<...>>>>....>>>>>..<<<.<<<..<<.<<<<<<...
.<<.<..<<<....>>>...<<......>>......>.>>....<<<<..
<..<<<....>>.>.>.....<<<<.....>>>>.........>>>>...
.>>>.>>>.....>>>>>>>>....>>>>>>>...>>.>>>>>>>>....
.<<<<<<<.....................>>>>>>>.........<<.<<
<<......>>>>.>>..........>>>.>.....<<<<<..<<......
.>>.>>>>>......>>...>>>>>>>>>>.>>.......<<.<..<<<<
<.<...<<<<<<..<<<<..<<..<<....>>..>>..>>>>..>>>>>>
...>.>>>>>...>.>>.........<<<<<<<<<....>>>>>>>>>..
....
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8p5d Spraguea lophii ribosome
Resolution10.8 Å
Binding residue
(original residue number in PDB)		M1 G3 L5 R8 R14 R17 R18 A20 K22 K26 R29 A41 P42 H43 N60 S61 R64 K65 P83 D85 E100 G101 G103 K104 K105 K110 G111 D112 R119 K135 K136
Binding residue
(residue number reindexed from 1)		M1 G3 L5 R8 R14 R17 R18 A20 K22 K26 R29 A41 P42 H43 N60 S61 R64 K65 P83 D85 E100 G101 G103 K104 K105 K110 G111 D112 R119 K135 K136
Gene Ontology
--> -->
 
 
UnboundLocalError		Python 3.6.8: /usr/bin/python3
Sat Nov 16 10:42:09 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 = '8p5d', asym_id = 'SX0', bs = 'BS01', title = 'Spraguea lophii ribosome'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='8p5d', asym_id='SX0', bs='BS01', title='Spraguea lophii ribosome')
   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 = '0003735,0005840,0006412,0015935', uniprot = '', pdbid = '8p5d', asym_id = 'SX0'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005840,0006412,0015935', uniprot='', pdbid='8p5d', asym_id='SX0')
    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>