Structure of PDB 8crx Chain M Binding Site BS01

Receptor Information
>8crx Chain M (length=98) Species: 1747 (Cutibacterium acnes) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KIRIRLRAYDHEVIDSSARKIVDTVTRTGAKVAGPVPLPTEKNVFCVIRS
PHKYKDSREHFEMRTHKRLIDILEPTPKTVDSLMRLDLPAGVDIEIKL
Ligand information
>8crx Chain A (length=1505) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
cauuggagaguuugauccuggcucaggacgaacgcuggcggcgugcuuaa
cacaugcaagucgaacggaaaggcccuuggggugcucgaguggcgaacgg
gugaguaacacgugaguaaccugcccuugacuuugggauaacuucaggaa
acuggggcuaauaccggauaggagcuccugcugcaugguggggguuggaa
aguuucggcgguuggggauggacucgcggcuuaucagcuuguuggugggg
uaguggcuuaccaaggcuuugacggguagccggccugagagggugaccgg
ccacauugggacugagauacggcccagacuccuacgggaggcagcagugg
ggaauauugcacaaugggcggaagccugaugcagcaacgccgcgugcggg
augacggccuucggguuguaaaccgcuuucgccugugacgaagcgugagu
gacgguaauggguaaagaagcaccggcuaacuacgugccagcagccgcgg
ugauacguagggugcgagcguuguccggauuuauugggcguaaagggcuc
guaggugguugaucgcgucggaaguguaaucuuggggcuuaacccugagc
gugcuuucgauacggguugacuugaggaagguaggggagaauggaauucc
ugguggagcgguggaaugcgcagauaucaggaggaacaccaguggcgaag
gcgguucucugggccuuuccugacgcugaggagcgaaagcguggggagcg
aacaggcuuagauacccugguaguccacgcuguaaacgguggguacuagg
ugugggguccauuccacggguuccgugccguagcuaacgcuuuaaguacc
ccgccuggggaguacggccgcaaggcuaaaacucaaaggaauugacgggg
ccccgcacaagcggcggagcaugcggauuaauucgaugcaacgcguagaa
ccuuaccuggguuugacauggaucgggagugcucagagaugggugugccu
cuuggucgguucacagguggugcauggcugucgucagcucgugucgugag
auguuggguuaagucccgcaacgagcgcaacccuuguucacuguugccag
cacguuaugguggggacucaguggagaccgccggggucaacucggaggaa
gguggggaugacgucaagucaucaugccccuuauguccagggcuucacgc
augcuacaauggcugguacagagaguggcgagccugugagggugagcgaa
ucucggaaagccggucucaguucggauuggggucugcaacucgaccucau
gaagucggagucgcuaguaaucgcagaucagcaacgcugcggugaauacg
uucccggggcuuguacacaccgcccgucaagucaugaaaguugguaacac
ccgaagccgguggccuaaccguugugggggagccgucgaaggugggacug
gugauuaggacuaagucguaacaagguagccguaccggaaggugcggcug
gauca
.......<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<.....
<<<.<<<..<<<..<<.<..<<.<<<..>>>...>>>..>>>>>......
<<........<<<<<<<..<<...<<<<<<<<<<<<.....<<<<<<...
.>>>>>>......>>>>.....<<<<<<<<<<....>>>>>>>>>>....
.<<....>>>>>>>>>>..>>>>>>>>>.<<<....<<<..<<<<<<<..
.......>>>>>>>>>>......>>>..<<<<<<<<....>>>>...>>>
>.>>.<<<<<.<.........>>>>>>.<<<<....>>>>...>>>>>>.
........<<<...<<<<<....>>>>.>>>>..>>.>>>>>>..<<<<.
.....<<<<....>>>>.....>>>>...<<<<<<<......<<....>>
.......>>>>>>...>..<<<<<(((...<<<<<.....<<.)))>>..
.....>>>>>>>>>>..>>>>>>>>>..........<<<((.....<<<<
...<<<.<<<<<<<.<<<<<<<<<<.....<<<<<<<.....>>>>>>>.
..>>>>>>>>..>>>>>>>>>...<<<<<<<<...<<<<<<<....<<<<
<<<<<..<<<......>>>.....>>>>>>>>>...........<<....
>>.>>>>>>>..>>>>.>>>>...>>>...>>>>...<<<<<<<...<<.
..<<<<.<.....>.>>>>...>>>>>>>>>.........<<<<<<..<<
<<<<<<<<<<.<...>.>>>>>>>>>>>>..<<<..))>>>....>>>>>
>.>>>.<<<......<<<<....>>>>....>>>..)))).]<<<<<.<<
<<<<<.<<.<<<<<<..<<<<<<<<<<......<<........>>.....
.....<<<<<<<......<<<<<.<....<<<<<<....>>>>>>.....
......>.>>>>>.<<<.<<<..<<<<<<.......<<<<<<<<<....>
>>..<<<<......>>>>..>>>>>>.....<<<<.<<<<<<<...<<..
<<<......>>>>>....>>>>>>>.....<<<<<.....>>>>>.....
...>>>>.........>>>...>>>>>>>>>...>>>>>>>...>>.>>>
>>>>>.....<<<<<<<.....<<<..<<..<<<<....>>>>..>>...
.>>>.....>>>>>>>......<....<<<<<<<........>>>>>>>.
...>.....>>>>>>....<<<<<<<..........>>>>>>>......>
>...>>>>>>>>>>.>>....<..<<.<.<<<<.<<<..<<<<<<..<<<
<....<.<<<<..<<<..<......>.>>>.>>>>.>...>>>>..>>>>
>>..>>>.>>>>..>.>>...>.....<<<<<<<<<....>>>>>>>>>.
.....
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8crx Sarecycline inhibits protein translation in Cutibacterium acnes 70S ribosome using a two-site mechanism.
Resolution2.78 Å
Binding residue
(original residue number in PDB)		R7 R9 H15 G38 P39 V40 P41 L42 P43 T44 K46 N47 C50 R53 S54 P55 H56 K57 Y58 K59 S61 R62 H64 H70 R72 L73
Binding residue
(residue number reindexed from 1)		R3 R5 H11 G34 P35 V36 P37 L38 P39 T40 K42 N43 C46 R49 S50 P51 H52 K53 Y54 K55 S57 R58 H60 H66 R68 L69
Gene Ontology
--> -->
 
 
UnboundLocalError		Python 3.6.8: /usr/bin/python3
Fri Nov 15 23:45:40 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 = '8crx', asym_id = 'M', bs = 'BS01', title = 'Sarecycline inhibits protein translation in Cuti...um acnes 70S ribosome using a two-site mechanism.'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='8crx', asym_id='M', bs='BS01', title='Sarecycline inhibits protein translation in Cuti...um acnes 70S ribosome using a two-site 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 = '0003723,0003735,0005840,0006412', uniprot = '', pdbid = '8crx', asym_id = 'M'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003723,0003735,0005840,0006412', uniprot='', pdbid='8crx', asym_id='M')
    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>