Structure of PDB 8uu7 Chain d Binding Site BS01

Receptor Information

>8uu7 Chain d (length=199) Species: 1642 (Listeria innocua)

ARYTGPSWKVSRRLGISLSGTGKELERRPYAPGQHGPTQRKKISEYGLQQ
AEKQKLRHMYGLTERQFKNTFNKAGKLQGKHGENFMILLEQRLDNIVYRL
GLARTRRAARQLVNHGHITVDGKRVDIPSYQVSVGQVISVREKSAKNSAI
AESLEVSSFVPEYVTFDAETLTGSLNRLPERSELAAEINEAFIVEFYSR

Ligand information

>8uu7 Chain a (length=1516)

aaagagaguuugauccuggcucaggacgaacgcuggcggcgugccuaaua
caugcaagucgaacgaacggaaguuaguggcggacgggugaguaacacgu
gggcaaccugccuguaaguuggggauaacuccgggaaaccggggcuaaua
ccgaaugauagaguguggcgcaugccacgcucuugaaagaugguuucggc
uaucgcuuacagaugggcccgcggugcauuagcuaguugguaggguaaug
gccuaccaaggcaacgaugcauagccgaccugagagggugaucggccaca
cugggacugagacacggcccagacuccuacgggaggcagcaguagggaau
cuuccgcaauggacgaaagucugacggagcaacgccgcguguaugaagaa
gguuuucggaucguaaaguacuguuguuagagaagaacaaggauaagagu
aacugcuugucccuugacgguaucuaaccagaaagccacggcuaacuacg
ugccagcagccgcgguaauacguagguggcaagcguuguccggauuuauu
gggcguaaagcgcgcgcaggcggucuuuuaagucugaugugaaagccccc
ggcuuaaccggggagggucauuggaaacuggaagacuggagugcagaaga
ggagaguggaauuccacguguagcggugaaaugcguagauauguggagga
acaccaguggcgaaggcgacucucuggucuguaacugacgcugaggcgcg
aaagcguggggagcaaacaggauuagauacccugguaguccacgccguaa
acgaugagugcuaaguguuaggggguuuccgccccuuagugcugcagcua
acgcauuaagcacuccgccuggggaguacgaccgcaagguugaaacucaa
aggaauugacgggggcccgcacaagcgguggagcaugugguuuaauucga
agcaacgcgaagaaccuuaccaggucuugacauccuuugaccacucugga
gacagagcuuucccgggacaaagugacagguggugcaugguugucgucag
cucgugucgugagauguuggguuaagucccgcaacgagcgcaacccuuga
uuuuaguugccagcauuuaguugggcacucuaaagugacugccggugcaa
gccggaggaagguggggaugacgucaaaucaucaugccccuuaugaccug
ggcuacacacgugcuacaauggaugguacaaagggucgcgaagccgcgag
guggagccaaucccauaaaaccauucucaguucggauuguaggcugcaac
ucgccuacaugaagccggaaucgcuaguaaucguggaucagcaugccacg
gugaauacguucccgggccuuguacacaccgcccgucacaccacgagagu
uuguaacacccgaagucgguaggguaaccggagccagccgccgaaggugg
gacagauaauuggggugaagucguaacaagguagccguaucggaaggugc
ggcuggaucaccuccu

.....<<<<..[.((((.>>>>.<<<<.<<<<<..<<<<<<<<.....<<
<.<<<..<<<..<<.<<<....>>>.>>>>>......<<........<<<
<<<<..<<...<<<<<<<<<.<<.....<<<<<<....>>>>>>......
>>.>.....<<<<<<<<<<....>>>>>>>>>>.....<<<<<<....>>
>>>>>>>>>>>>..>>>>>>>>>.<<<....<<<..<<<<<<<<......
.>>>>>>>>>>>......>>>..<<<<<<<<....>>>>...>>>>.>>.
<<<<<.<.........>>>>>>.<<<<....>>>>...>>>>>>......
...<<<....<<<<....>>>>..>>>..>>.>>>>>>..<<<<......
<<<<....>>>>.....>>>>...<<<<<<<.......<.<<<<<<<...
.....>>>>>>>.>........>>>>>>...>..<<<<<(((...<<<<<
.....<<.)))>>.......>>>>>>>>>>..>>>>>>>>>.........
.<<<((.....<<<<...<<<.<<<<<<<.<<<<<<<<<.......<<<<
<<.....>>>>>>.....>>>>>>>..>>>>>>>>>...<<<<<<<<...
<<<<<<<....<<<<<<<<<..<<<......>>>.....>>>>>>>>>..
.........<<....>>.>>>>>>>..>>>>>.>>>...>>>...>>>>.
...<<<<<<...<<...<<<<.<.....>.>>>>...>>>>>>>>.....
.....<<<<<<..<<<<<<<<<<<<<....>>>>>>>>>>>>>...<<..
))>>.....>>>>>>.>>>.<<<......<<<<....>>>>....>>>..
)))).]<<<<<.<<<<<<<.<<.<<<<<<..<<<<<<<<<<......<<.
.......>>..........<<<<<<<......<<<<<<<....<<<<<..
..>>>>>....<<<>>>.>>>>>.>>.<<<.<<<..<<<<<<.......<
<<<<<<<<....>>>..<<<<......>>>>..>>>>>>.....<<<<.<
<<<<<<..<<<..<<......>>>>>...>>>>>>>.....<<<<<....
>>>>>........>>>>.........>>>...>>>>>>>>>...>>>>>>
>...>>.>>>>>>>>.....<<<<<<<.....<<<..<<...<<<....>
>>...>>....>>>.....>>>>>>>......<....<<<<<<<......
..>>>>>>>....>.....>>>>>>....<<<<<<<.........>>>>>
>>......>>...>>>>>>>>>>.>>....<..<<.<.<<<<.<<<..<<
<<<<..<<<<....<.<<<<..<<<..<<>>.>>>.>>>>.>...>>>>.
.>>>>>>..>>>.>>>>..>.>>...>.....<<<<<<<<<....>>>>>
>>>>............

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8uu7 Mechanistic insights into the alternative ribosome recycling by HflXr.
• Resolution: 3.2 Å
• Binding residue (original residue number in PDB): A2 R3 P7 W9 K10 R13 R14 R28 R29 Y31 G34 Q35 H36 Y47 Q55 E65 R66 Q67 K77 R105 T106 R108 A109 R111 N115 H116 V126 I128 P129 Y131 K144 S149 E196 R200
• Binding residue (residue number reindexed from 1): A1 R2 P6 W8 K9 R12 R13 R27 R28 Y30 G33 Q34 H35 Y46 Q54 E64 R65 Q66 K76 R104 T105 R107 A108 R110 N114 H115 V125 I127 P128 Y130 K143 S148 E195 R199

Gene Ontology

--> -->

UnboundLocalError

Python 3.6.8: /usr/bin/python3 Fri Nov 15 22:56:34 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 = '8uu7', asym_id = 'd', bs = 'BS01', title = 'Mechanistic insights into the alternative ribosome recycling by HflXr.'

 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='8uu7', asym_id='d', bs='BS01', title='Mechanistic insights into the alternative ribosome recycling by HflXr.')

   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 = '0003723,0003735,0006412,0015935,0019843', uniprot = '', pdbid = '8uu7', asym_id = 'd'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003723,0003735,0006412,0015935,0019843', uniprot='', pdbid='8uu7', asym_id='d')

    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>