Structure of PDB 6xiq Chain L1 Binding Site BS01

Receptor Information
>6xiq Chain L1 (length=204) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VKELLKYSNETKKRNFLETVELQVGLKNYDPQRDKRFSGSLKLPNCPRPN
MSICIFGDAFDVDRAKSCGVDAMSVDDLKKLNKNKKLIKKLSKKYNAFIA
SEVLIKQVPRLLGPQLSKAGKFPTPVSHNDDLYGKVTDVRSTIKFQLKKV
LCLAVAVGNVEMEEDVLVNQILMSVNFFVSLLKKNWQNVGSLVVKSSMGP
AFRL
Ligand information
>6xiq Chain 1 (length=3223) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaugguguuuugua
uuucacuggccagcaucaguuuugguggcaggauaaauccauaggaaugu
agcuugccucgguaaguauuauagccugugggaauacugccagcugggac
ugaggacugcgacguaagucaaggaugcuggcauaaugguuauaugccgc
ccgucuugaaacacggaccaaggagucuaacgucuaugcgaguguuuggg
uguaaaacccauacgcguaaugaaagugaacguagguuggggccucgcaa
gaggugcacaaucgaccgauccugaugucuucggauggauuugaguaaga
gcauagcuguugggacccgaaagauggugaacuaugccugaauaggguga
agccagaggaaacucugguggaggcucguagcgguucugacgugcaaauc
gaucgucgaauuuggguauaggggcgaaagacuaaucgaaccaucuagua
gcugguuccugccgaaguuucccucaggauagcagaagcucguaucaguu
uuaugagguaaagcgaaugauuagagguuccggggucgaaaugaccuuga
ccuauucucaaacuuuaaauauguaagaaguccuuguuacuuaauugaac
guggacauuugaaugaagagcuuuuagugggccauuuuugguaagcagaa
cuggcgaugcgggaugaaccgaacguagaguuaaggugccggaauacacg
cucaucagacaccacaaaagguguuaguucaucuagacagccggacggug
gccauggaagucggaauccgcuaaggaguguguaacaacucaccggccga
augaacuagcccugaaaauggauggcgcucaagcguguuaccuauacucu
accgucaggguugauaugaugcccugacgaguaggcaggcguggagguca
gugacgaagccuagaccguaaggucgggucgaacggccucuagugcagau
cuuggugguaguagcaaauauucaaaugagaacuuugaagacugaagugg
ggaaagguuccacgucaacagcaguuggacguggguuagucgauccuaag
agauggggaagcuccguuucaaaggccugauuuuaugcaggccaccaucg
aaagggaauccgguuaagauuccggaaccuggauauggauucuucacggu
aacguaacugaauguggagacgucggcgcgagcccugggaggaguuaucu
uuucuucuuaacagcuuaucaccccggaauugguuuauccggagaugggg
ucuuauggcuggaagaggccagcaccuuugcuggcuccggugcgcuugug
acggcccgugaaaauccacaggaaggaauaguuuucaugccaggucguac
ugauaaccgcagcaggucuccaaggugaacagccucuaguugauagaaua
auguagauaagggaagucggcaaaauagauccguaacuucgggauaagga
uuggcucuaagggucggguacgaucaacuuagaacugguacggacaaggg
gaaucugacugucuaauuaaaacauagcauugcgauggucagaaagugau
guugacgcaaugugauuucugcccagugcucugaaugucaaagugaagaa
auucaaccaagcgcggguaaacggcgggaguaacuaugacucucuuaagg
uagccaaaugccucgucaucuaauuagugacgcgcaugaauggauuaacg
agauucccacugucccuaucuacuaucuagcgaaaccacagccaagggaa
cgggcuuggcagaaucagcggggaaagaagacccuguugagcuugacucu
aguuugacauugugaagagacauagaggguguagaauaagugggagcuuc
ggcgccagugaaauaccacuaccuuuauaguuucuuuacuuauucaauga
agcggagcuggaauucauuuuccacguucuagcauucaaggucccauucg
gggcugauccggguugaagacauugucagguggggaguuuggcuggggcg
gcacaucuguuaaacgauaacgcagauguccuaaggggggcucauggaga
acagaaaucuccaguagaacaaaaggguaaaagcccccuugauuuugauu
uucagugugaauacaaaccaugaaaguguggccuaucgauccuuuagucc
cucggaauuugaggcuagaggugccagaaaaguuaccacagggauaacug
gcuuguggcagucaagcguucauagcgacauugcuuuuugauucuucgau
gucggcucuuccuaucauaccgaagcagaauucgguaagcguuggauugu
ucacccacuaauagggaacgugagcuggguuuagaccgucgugagacagg
uuaguuuuacccuacugaugaauguuaccgcaauaguaauugaacuuagu
acgagaggaacaguucauucggauaauugguuuuugcggcugucugauca
ggcauugccgcgaagcuaccauccgcuggauuauggcugaacgccucuaa
gucagaauccaugcuagaacgcggugauuucuuugcuccacacaauauag
auggauacgaauaaggcguccuuguggcgucgcugaaccauagcaggcua
gcaacggugcacuuggcggaaaggccuugggugcuugcuggcgaauugca
augucauuuugcguggggauaaaucauuuguauacgacuuagauguacaa
cgggguauuguaagcaguagaguagccuuguuguuacgaucugcugagau
uaagccuuuguugucugauuugu
.........................<.<<<.....<......>......>
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>>..........<<.......>>.....>>>>>>>>...>>>........
>>>>>>>>>>>........<..<..............>..>.....(.<<
<...<.<<<>>>.)..>>>>..............................
...<......>................<<......>>.............
......................<<<<<.<<.<<.................
........<<<<<<<........<<<<<<<<.....<<<<<<<<<.....
.<<<<<.<..>.>>>>>.......>>>>>>>.>.>.>>>>>.>>>.....
..........<<<....>>>.....>>>>>>>.....>>>.>.>>>>>..
<<.<........>.>>.<<<<<...........<<<<<<...<.....<<
<.....>>>.....>....................<<<<..<<<<<....
>>>>>...>>>>.......<.....<<....>>.....>...........
>>>>>>..........<<....<<<.<........<<<<<<<........
.<<<<<<<....>>>>>>>...........<<<..<<.<<........>>
>>.>>>....>>>>>>>.....<<.......>>.......>.>>>.....
...>>.............<<.<....>>>....<<<.<<<<...<<<...
<<<<.............<<...<.<<<<<...<<<<<.....>>>>>.>>
>>>.>...>>............>>>>...<<<<.<.<..<......>>..
>.>>>>.......>>>.>>>>>>>.......<<<<<.<<<.....>>>>>
.>>>.....<<<......>>>...<<...<<...<<.(((......<<<<
<.....<<..........<<<.<<<<<<<<<..........<<..<<...
.<<.........>>....>>.......................>>.....
.>>>>>>>>>>>>..........))).>>...>>>>>...>>...>>...
>>.<<<<<<<<.........>>>>>>>>................<<<<..
<<..............<....>..........>>.>>>>...........
>>>>>.<<.....<<......<<<<<.......>>>>>.<<<.<.....<
....<<....<<<<<.............>>>>>.......<<..<<...<
<....<.<....>.>.........<<<..<<...>>...>>>.....>>.
...>>.....<<..........>>....<<<<.<<<<<.......<<<..
..>>>.....[[<<<<<<...<<<<...<<<<<..<<<<<<<<<..(((.
.>>>>>>....<<<<<....<<<<<<.....<<.....>>.....>>>>>
>.....>>>>>......<<<<<<......>>>>>>.>>>....>>>>>..
.>>>>.........>>>>>>............>..>>>>>>>>..>>..>
>.....<<......>>..>....<<<.....>>>..>.>>>..<<<<...
<.<<<<<<<.<<<..............<<<<......<..>.......>>
>><<.<<<<..<<<<<....>>>>>....>>>>.>>............<<
<<<<<<<...<<.........>>...<<<<<<<....<<<<.....>>>>
......>>>>>>>...<<..<<<..<<<<<.............<<<<...
.>>>>..........>>>..>>>>><<<<<.........>>>>>......
..............<<.............>>...........>>....>>
.>>>>>>>....>>>.>>>>>>>>.>>>>>>....>>....<<<<<....
....>>>>>....{{.....{{..........<<<<.{{{{....<<<<.
....<........<.<<<....................<<..<.......
...............>..>>............>>>>.......<<<....
..<<<.....<.........>.............]]...<<<<<<....>
>>>>>...>>>...>>>..........>......>>>>...<<.......
>>..<<<<<<...........>>>>>>..<<...<<<<<<<...<<<<<<
.......>>>>>>.....<....(((.>....>>>>>>>...<<.....<
........>.....>>..<<<....>>>.>>))).......((.<<<...
....>>>.>.....>>>.))............}}..}}>>>>........
......<<<<.....<<.......>>.....>>>>...............
....<<...<<<<......<.<<.......>>..>...............
............>>>>.......>>............<<<....>>>...
...........}}....}}....<<<<<<<<...<.<.<.<<<<<.....
............>>>>>.><<<<<...........<<<<.<<<<.)))..
>>>>...>>>>.........>>>>>..<<<...<<<<<...........>
>>>>...>>>..>.>.....>>>>>>>>.......<<<<<<.<<<.<...
..<<..........<<<<<<.....>>>>>>......>>.......<<<<
<<.........<..<<<......>>>..>.......>>>>>>........
......>>>.>.>>>>>>.<<<<<.........................<
<<<<........<<<<<....<<<..........>>>...>>>>>.....
....>>>..>>......>>>>>.
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6xiq Structural impact of K63 ubiquitin on yeast translocating ribosomes under oxidative stress.
Resolution4.2 Å
Binding residue
(original residue number in PDB)		N27 L34 Q35 G37 I65 K98 L99 I100 K101 K102 Q119 P121 R122 P126 L128 T154 K156 K160 C164 M210 P212
Binding residue
(residue number reindexed from 1)		N15 L22 Q23 G25 I53 K86 L87 I88 K89 K90 Q107 P109 R110 P114 L116 T142 K144 K148 C152 M198 P200
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
--> -->
 
 
UnboundLocalError		Python 3.6.8: /usr/bin/python3
Mon Nov 25 07:14:20 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 = '6xiq', asym_id = 'L1', 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='L1', 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 = '0003723,0003735,0006412,0015934', uniprot = '', pdbid = '6xiq', asym_id = 'L1'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003723,0003735,0006412,0015934', uniprot='', pdbid='6xiq', asym_id='L1')
    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>