Structure of PDB 4ujd Chain Ak Binding Site BS01

Receptor Information

>4ujd Chain Ak (length=69) Species: 9986 (Oryctolagus cuniculus)

PRKIEEIKDFLLTARRKDAKSVKIKKNKDNVKFKVRCSRYLYTLVITDKE
KAEKLKQSLPPGLAVKELK

Ligand information

>4ujd Chain A2 (length=3616)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggaaaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccgcggggcgcgggacaugug
gcguacggaagacccgcuccccggcgccgcucguggggggcccaaguccu
ucugaucgaggcccagcccguggacggugugaggccgguagcggccggcg
cgcgcccgggucuucccggagucggguugcuugggaaugcagcccaaagc
gggugguaaacuccaucuaaggcuaaauaccggcacgagaccgauaguca
acaaguaccguaagggaaaguugaaaagaacuuugaagagagaguucaag
agggcgugaaaccguuaagagguaaacgggugggguccgcgcaguccgcc
cggaggauucaacccggcggcggguccggccgugucggcggcccggcgga
ucuuucccgcgcgggggaccgucccccggaccggcgaccggccgccgccg
ggcgcauuuccaggcggugcgccgcgaccggcuccgggacggcugggaag
gcccggcggggaagguggcucgggggcccccgaguguuacagcccccccg
gcagcagcacucgccgaaucccggggccgagggagcgagacccgucgccg
cgcucuccccccucccggccccccggggggggccgggccaccccucccac
ggcgcgaccgcucucccaccccuccucccgggucggggggcggggcggac
uguccccagugcgccccgggcgggucgcgccgucgggcccgggggagguu
cucucggggccacgcgcgcgucccccgggggacggcggagcgagcgcacg
gggucggcggcgacgucggcuacccacccgacccgucuugaaacacggac
caaggagucuaacacgugcgcgagucgggggcucgcacgaaagccgccgu
ggcgcaaugaaggugaaggccggcgcgcucgccggccgaggugggauccc
gaggccucuccaguccgccgaggggcaccaccggcccgucucgcccgccg
cgccggggagguggagcacgagcgcacguguuaggacccgaaagauggug
aacuaugccugggcagggcgaagccagaggaaacucugguggagguccgu
agcgguccugacgugcaaaucggucguccgaccuggguauaggggcgaaa
gacuaaucgaaccaucuaguagcugguucccuccgaaguuucccucagga
uagcuggcgcuccaguuuuauccgguaaagcgaaugauuagaggucuugg
ggccgaaacgaucucaaccuauucucaaacuuuaaauggguaagaagccc
ggcucgcuggcguggagccgggguggaaugcgagugccuagugggccacu
uuugguaagcagaacuggcgcugcgggaugaaccgaacgccggguuaagg
cgcccgaugccgacgcucaucagaccccagaaaagguguugguugauaua
gacagcacugccgaaucaacuagcccugaaaauggauggcgcuggagcgu
cgggcccauacccggccgucgccggcgccgcgacgaguaggagggccgcu
gcggugagccuugaagccuagggcgcgggcccggguggaggccgccgcag
gugcagaucuuggugguaguagcaaauauucaaacgagaacuuugaaggc
cgaaguggagaaggguuccaugugaacagcaguugaacaugggucagucg
guccugagagaugggcgagcgccguuccgaagggacgggcgauggccucc
guugcccucggccgaucgaaagggagucggguucagauccccgaauccgg
aguggcggagaugggcgccgcgaggcguccagugcgguaacgcgaccgau
cccggagaagccggcgggagccccggggagaguucucuuuucuuugugaa
gggcagggcgcccuggaauggguucgccccgagagaggggcccgugccuu
ggaaagcgucgcgguuccggcggcguccggugagcucucgcuggcccuug
aaaauccgggggagaggguguaaaucucgcgccgggccguacccauaucc
gcagcaggucuccaaggugaacagccucuggcauguuggaacaauguagg
uaagggaagucggcaagccggauccguaacuucgggauaaggauuggcuc
uaagggcugggugcagccgacuuagaacuggugcggaccaggggaauccg
acuguuuaauuaaaacaaagcaucgcgaaggcccgcggcggguguugacg
cgaugugauuucugcccagugcucugaaugucaaagugaagaaauucaau
gaagcgcggguaaacggcgggaguaacuaugacucucuuaagguagccaa
augccucgucaucuaauuagugacgcgcaugaauggaugaacgagauucc
cacugucccuaccuacuauccagcgaaaccacagccaagggaacgggcuu
ggcggaaucagcggggaaagaagacccuguugagcuugacucuagucugg
cacggugaagagacaugagagguguagaauaagugggaggcccgggccgc
cggugaaauaccacuacucugaucguuuuuucacugacccggugaggcgg
gggggcgagcccgaggggcucucgcuucuggcgccaagcgcccgcccggc
cgggcgcgacccgcuccggggacagugccagguggggaguuugacugggg
cgguacaccugucaaacgguaacgcagguguccuaaggcgagcucaggga
ggacagaaaccucccguggagcagaagggcaaaagcucgcuugaucuuga
uuuucaguacgaauacagaccgugaaagcggggccucacgauccuucuga
ccuuuuggguuuuaagcaggaggugucagaaaaguuaccacagggauaac
uggcuuguggcggccaagcguucauagcgacgucgcuuuuugauccuucg
augucggcucuuccuaucauugugaagcagaauucgccaagcguuggauu
guucacccacuaauagggaacgugagcuggguuuagaccgucgugagaca
gguuaguuuuacccuacugaugauguguuguugccaugguaauccugcuc
aguacgagaggaaccgcagguucagacauuugguguaugugcuuggcuga
ggagccaauggggcgaagcuaccaucugugggauuaugacugaacgccuc
uaagucagaaucccgcccaggcgaacgauacggcagcgccgcggagccuc
gguuggccucggauagccggucccccgccuguccccgccggcgccgcgcg
ccgggaccgggguccggugcggagugcccuucguccugggaaacggggcg
cggccggaaaggcggccgcccccucgcccgucacgcaccgcacguucgug
gggaaccuggcgcuaaaccauucguagacgaccugcuucugggucggggu
uucguacguagcagagcagcucccucgcugcgaucuauugaaagucagcc
cucgacacaaggguuu

.........................<<<<<<.....<<....>>......
>>>>>.>.........<<....>>..<<<<<<.....<<.....>>....
>>>>>>..[[[..<.......<..<<....<.....>....>>..>....
...>..<<<<<<<<.......<<.<<<.<<<.......<<<<.....<<<
<......>>>>.....((......<<<.....))>>>.....>>>>>>>>
>>>>....>>>>>>>>.......<<<<<<<........>>>>>>>.....
(((((..<<<<<<)))))..]]]...........................
.......<<....>>................<.......>..........
..........................<<<<<<<<..<<<......<<<<<
.<<<<.........<<<<<<<......<<<<..<<<<.<<<.<<<<.<<<
<.<<<<<<<<>>>>>>>>..>>>>.>>>>.>>>.>>>>.>>>>>>>>>>>
.......>>>>.>>>>>..<<<<<.<<..<<<<<<<.<..<<<.<.....
....<<.<<<.....<<.<<<<<<<..>>>>>>>...>>....>>>.>>.
..........>.>>>.....>>>>>>>>..............<<.<<<..
<<<<.....<<....<<<<<<<<<..>>>>>>>>>...<.<<<<<.<<<<
<<<<<<<<<<.<........<<<.<.<<..>>..>>>>...<<<<<<.<<
<......>>>.>>>>>>.>.>.>>>>>>>>>>>.>>....>>>>>.>...
......>>......<<<.<<<<<<<..>>>>>>>>>>.>>>>.>>>..>>
...>>..>>>>>....>>>...>>>>>>>>..<<<<........>>>><<
<<<<....<<<<<<<<<<<<<..<<<...<<<<........>>>>.....
>>>...<<....>>...<<<<<<<<....>>>>>>>>..<<<<<..<<<<
..<<<...........>>>..>>>>..>>>>>.<<<<<<<<<.<<<....
....>>>>>>>>>>.>>....>>>>>>>>>>>>>..<<.<...<<<<<<.
....<<<<<<<<<..<<<....<<<<<<<....>>>>>>>.....>>>..
.<<<..<<.<<........>>>>.>>>....>>>>>>>>>...<<.....
..>>......>>>>>>......>.>>..<<<<<<......<<<....>>>
..<<.<<<<<<.<<.<<<<<<<<....<<<....<<<....<<<..<<<<
.<.........>.>>>>>>>....>>>..>.>>....>>>>>>....<<<
<<<<<.........>>>>>>>>....>>>>..>>>>>>..>>..<<<<.<
<<<<.....>>>>>.>>>>....<<<......>>>...<<<<<<<...<<
<(((.......<<<<<......<..........<<<.<<<<<<<<<....
....<<...>>....>>>>>>>>>>>>..........))).>....>>>>
>..>>>...>>>>>>><<<<<<.<...>.>>>>>>....>>>>>>...<<
<<<<<..<<......<<<<.<<<<....>>>>>>>>....>>.>>>>>>>
........>>>>>><<.....<<.....<<<<<<.......>>>>>>.<<
<.....<<<<<.<<...<<<<<<...<<.....>>.>>>>>>....((<<
<<<<...<<....<<<....>>>..........<<.<<<<<<<<<...>>
>>>>>>>>>......>>....>>...<<<<<........>>>>>))<<<<
..<<.......<<<<<<<<....>>>>>>>>..<<<....>>>......<
<<<<<<...<<<<<<<<<<<<<<<<<<<<<<<..{{{..>>>>>>.....
<<<<..<<<.<<<<.....<<<.....>>>.....>>>>>>>...>>>>.
.....<<<<<<<.......>>>>>>>>>>>.>.>>>>>>>>>>>>.....
....>>>>>>>................>>..>>>>>>>>..>>.....<<
......>>>>>>>.<<<<.....>>>>..>>>....<<<<.....<<<<<
<<.<<...............<<<<<...............>>>>><<.<<
<<<<<<<<......>>>>..>>>>>>.>>............<<<<<<<<<
..<<<.........>>>..<<<<<<<....<<<<.....>>>>......>
>>>>>>...<<..<<<..<<<<<<....<<<.....<<<<....>>>>..
...>>>.>>>>..>>>>>.<<<<.........>>>>.........<....
.......<<<<<.......>>>>>.....>.....>>....>>.>>>>>>
>.....>>.>>>>>>>..>>>>>>....>>....<<<<<........>>>
>>....[[[[[..{{{.{{......[[[[.{.[[[[..<<<<<.<<<<<<
<<<.<<<<<.<<<<...<<<<..........<<<<<..<<<<..>>>>..
..........>>>>>.>>>>....>>>>.>>>>>...<<<<<......<<
<.....<<<.<.....>.>>>................<<<<<<<......
>>>>>>>..>>>...>>>>>....>>>>>>>>>..>>>>>....<<....
.>>...<<<<<<...........>>>>>>..<<...<<<<<<<...<<<<
<<.......>>>>>>.....<<.[.(((>>....>>>>>>>...<<<..<
<<<.......>>>>..>>>.<<<....>>>.>>)))]......((((((.
.(((..>>>>>>.)))))))))..........]]]]...}]]]]......
.<<.<...<<<<<<...<<.......>>...>>>>>>....>.>.>....
...<<<<<.<<<<<<..<.<.<<<<<......>>>>>...>.>.<<<...
......>>>.....>>>>>..>...>>>.>>....<<<<<<<....>>>.
>>>>....}}..}}}.]]]]].....<<<<<<....<<<....<<<<<..
...............>>>>>..<<<<....<<<<....<<.<<<<<<.}}
}..>>>>..>>.>>...>>>>...>>>>.<<<<...<<<<<.........
..>>>>>...>>>>..>>>....>>>>>>.....<<<<<<<.<<..<<<.
<...<<<.........<<<<.<<<....<<.....<<<<<<..>>>.>>>
..>>.....>>>.>>>>........>>>...<<<..<<<.....<<<<.<
<<<<<<......>>>>>>>>>>>....>>>..>>>.............>.
>>>..>>>>>>>>>.<<<<.....................<.<<<<<<<.
<<.....<<<<....<<<<<......>>>>>...>>>>....>>....>>
>>.>>>.>..>>.>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4ujd Structure of the Mammalian 80S Initiation Complex with Eif5B on Hcv Ires
• Resolution: 8.9 Å
• Binding residue (original residue number in PDB): P2 K4 D19 K26 N28 K33 K35 R37 C38 S39 Y41 L42 Y43 T44 L69 K70
• Binding residue (residue number reindexed from 1): P1 K3 D18 K25 N27 K32 K34 R36 C37 S38 Y40 L41 Y42 T43 L68 K69

Gene Ontology

--> -->

UnboundLocalError

Python 3.6.8: /usr/bin/python3 Fri Mar 7 06:16:15 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 = '4ujd', asym_id = 'Ak', bs = 'BS01', title = 'Structure of the Mammalian 80S Initiation Complex with Eif5B on Hcv Ires'

 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='4ujd', asym_id='Ak', bs='BS01', title='Structure of the Mammalian 80S Initiation Complex with Eif5B on Hcv Ires')

   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', uniprot = '', pdbid = '4ujd', asym_id = 'Ak'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005840,0006412', uniprot='', pdbid='4ujd', asym_id='Ak')

    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>