Structure of PDB 6xiq Chain AT Binding Site BS01

Receptor Information

>6xiq Chain AT (length=53) Species: 4932 (Saccharomyces cerevisiae)

ENVWFSHPRRYGKGSRQCRVCSSHTGLIRKYGLNICRQCFREKANDIGFN
KFR

Ligand information

>6xiq Chain 2 (length=1743)

uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaauuuauacagugaaacugcgaauggcuca
uuaaaucaguuaucguuuauuugauaguuccuuuacuacaugguauaacu
gugguaauucuagagcuaauacaugcuuaaaaucucgacccuuuggaaga
gauguauuuauuagauaaaaaaucaaugucuucggacucuuugaugauuc
auaauaacuuuucgaaucgcauggccuugugcuggcgaugguucauucaa
auuucugcccuaucaacuuucgaugguaggauaguggccuaccaugguuu
caacggguaacggggaauaaggguucgauuccggagagggagccugagaa
acggcuaccacauccaaggaaggcagcaggcgcgcaaauuacccaauccu
aauucagggagguagugacaauaaauaacgauacagggcccauucggguc
uuguaauuggaaugaguacaauguaaauaccuuaacgaggaacaauugga
gggcaagucuggugccagcagccgcgguaauuccagcuccaauagcguau
auuaaaguuguugcaguuaaaaagcucguaguugaacuuugggcccgguu
ggccggucggauuuccaacggggccuuuccuucuggcuaaccuugagucc
uuguggcucuuggcgaaccaggacuuuuacuuugaaaaaauuagaguguu
caaagcaggcguauugcucgaauauauuagcauggaauaauagaauagga
cguuugguucuauuuuguugguuucuaggaccaucguaaugauuaauagg
gacggucgggggcaucaguauucaauugucagaggugaaauucuuggauu
uauugaagacuaacuacugcgaaagcauuugccaaggacguuuucauuaa
ucaagaacgaaaguuaggggaucgaagaugaucagauaccgucguagucu
uaaccauaaacuaugccgacuagggaucgggugguguuuaugacccacuc
ggcaccuuacgagaaaucaaagucuuuggguucuggggggaguauggucg
caaggcugaaacuuaaaggaauugacggaagggcaccaccaggaguggag
ccugcggcuuaauuugacucaacacggggaaacucaccagguccagacac
auuuugugggugguggugcauggccguucuuaguugguggagugauuugu
cugcuuaauugcgauaacgaacgagaccuuaaccuacuaaauaguggugc
uagcauuugcugguuauccacuucuuagagggacuaucgguuucaagccg
auggaaguuugaggcaauaacaggucugugaugcccuuagacguucuggg
ccgcacgcgcgcuacacugacggagccagcgagucuaaccuuggccgaga
ggucuugguaaucuugugaaacuccgucgugcuggggauagagcauugua
auuauugcucuucaacgaggaauuccuaguaagcgcaagucaucagcuug
cguugauuacgucccugcccuuuguacacaccgcccgucgcuaguaccga
uugaauggcuuagugaggccucaggaucugcuuagagaagggggcaacuc
caucucagagcggagaauuuggacaaacuuggucauuuagaggaacuaaa
agucguaacaagguuuccguaggugaaccugcggaaggaucau

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6xiq Structural impact of K63 ubiquitin on yeast translocating ribosomes under oxidative stress.
• Resolution: 4.2 Å
• Binding residue (original residue number in PDB): W7 F8 S9 H10 R13 Y14 G15 K16 G17 R19 C24 H27 T28 G29 R32 K33 Y34 R40 Q41 C42 R44 E45 K54 R56
• Binding residue (residue number reindexed from 1): W4 F5 S6 H7 R10 Y11 G12 K13 G14 R16 C21 H24 T25 G26 R29 K30 Y31 R37 Q38 C39 R41 E42 K51 R53

Gene Ontology

--> -->

UnboundLocalError

Python 3.6.8: /usr/bin/python3 Mon Apr 7 16:32:22 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 = '6xiq', asym_id = 'AT', bs = 'BS01', title = 'Structural impact of K63 ubiquitin on yeast translocating ribosomes under oxidative stress.'

 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='6xiq', asym_id='AT', bs='BS01', title='Structural impact of K63 ubiquitin on yeast translocating ribosomes under oxidative stress.')

   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 = '0003735,0005840,0006412,0008270', uniprot = '', pdbid = '6xiq', asym_id = 'AT'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005840,0006412,0008270', uniprot='', pdbid='6xiq', asym_id='AT')

    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>