Structure of PDB 6zj3 Chain L4 Binding Site BS04

Receptor Information

>6zj3 Chain L4 (length=97) Species: 3039 (Euglena gracilis)

VQYPKTRKTFCKGEPCKKHQTHKVVQYKVGKASVVAQGKRRYDMKQKGFG
GQTKPVFHKKAKTTKKITLKLQCTSCKLIKQIKIKRCKHFELADRKG

Ligand information

>6zj3 Chain LI (length=573)

ggugcgagccugcagugaaauaccacuaccuucaccguuguuuuacucau
cgaguugcaagagagcgguggccaugcuuuccccgauucaugcaccaagu
cugcagcagcuguuguggacgacucacgugucacaguccgaucagucucg
aaacaucgaucaguuggggaguuuggcuggggcggcacgccuuuuacaac
acaacgaaggcguccugaagcauugcucaggcagaacagaaaucucccag
ggaggagaaggccaaaggugcugcugaugcugcgacucucaguacgaguc
cgaaacgugcaaucguggccuaacgauccuuuggucaagugugcgaauuc
uggauaucgaagccagaggugucagaaaaauuaccacagggauaacuggc
uuguggcugccaagcguucaaagcgacgucgcuuuuugauccuucgaugu
cggcucuuccuagcuucccacccgcagccgaguggaagaguuggauuguu
cacccaccaacagggaacgugagcuggguuuagaccgucgugagacaggu
ugguuuuacccuccugccacaga

.................................................<
<<<<......<<<..<<<.<<.........>>>>>.............<<
<<<<<<<<..>>>>>>>>>>..>>>...<......>..........>>>>
>........................<<<.....>>>..<<<<<<......
.....>>>>>>..<<....<<<.<<<...<<.<<<.......>>>.>>..
...<<...(((>>....>>>.>>>.........<<<<<.......>>>>>
.....<<......>>.>>))).......<<<<<<<............<<<
........>>>>>>>>>>.............................<<.
<...<<<.<<...<<.......>>...>>.>>>....>.>.>.......<
<<<<.<<<<<<..<<<<<.<<.<......>.>>>>..>>>.<<<......
...>>>.....>>>>>..>...>>>.>>....<<<<<<<....>>>.>>>
>......................

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6zj3 Cryo-EM structure of the highly atypical cytoplasmic ribosome of Euglena gracilis.
• Resolution: 3.15 Å
• Binding residue (original residue number in PDB): V2 Q3 Y4 P5 R8 K9 F11 K13 K18 K19 H20 Y28 G31 A33 S34 V36 A37 Q38 G39 R41 Q53 P56 V57 F58 H59 K61 A62 K63 T65 K66 K67 T69 I80 Q82 I83 K84 K86 R87 C88 K89 R96
• Binding residue (residue number reindexed from 1): V1 Q2 Y3 P4 R7 K8 F10 K12 K17 K18 H19 Y27 G30 A32 S33 V35 A36 Q37 G38 R40 Q52 P55 V56 F57 H58 K60 A61 K62 T64 K65 K66 T68 I79 Q81 I82 K83 K85 R86 C87 K88 R95

Gene Ontology

--> -->

UnboundLocalError

Python 3.6.8: /usr/bin/python3 Sun Apr 6 22:35:52 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 = '6zj3', asym_id = 'L4', bs = 'BS04', title = 'Cryo-EM structure of the highly atypical cytoplasmic ribosome of Euglena gracilis.'

 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='6zj3', asym_id='L4', bs='BS04', title='Cryo-EM structure of the highly atypical cytoplasmic ribosome of Euglena gracilis.')

   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 = '6zj3', asym_id = 'L4'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005840,0006412', uniprot='', pdbid='6zj3', asym_id='L4')

    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>