Structure of PDB 6zj3 Chain LP Binding Site BS05

Receptor Information

>6zj3 Chain LP (length=249) Species: 3039 (Euglena gracilis)

GKPVRGQRKGAGSIYITHGHKRQGQARLRPLDYGERKGFIRGVVKEIVHD
SGRGAPLAKVQFRHPYKFKKVTHLMVACEGMYVGQYIYCGKKAQLAIGNV
LPLSKMPEGTIVCNLEAKVADRSRLAKASGAYAIVISHNPDTGKSRVKLP
SGQKKTVSSQCRAMIGLIAGGGRIEKPVLKAGNNYYRFKVKRNCWPRVRG
VAMSPVDHPHGGGNHQHIGFPCTVSRNAPPGQKVGLIAARRTGRLRGGV

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): G2 Y34 R37 G39 F40 V44 R64 H65 Y67 F69 G85 Y87 Y89 A94 Q95 A121 G214 N215 H216 Q217 H218 G220 F221 G232 Q233
• Binding residue (residue number reindexed from 1): G1 Y33 R36 G38 F39 V43 R63 H64 Y66 F68 G84 Y86 Y88 A93 Q94 A120 G213 N214 H215 Q216 H217 G219 F220 G231 Q232

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Sun Apr 6 22:24:54 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 = 'LP', bs = 'BS05', 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='LP', bs='BS05', 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 = '0003723,0003735,0005840,0006412,0015934', uniprot = '', pdbid = '6zj3', asym_id = 'LP'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003723,0003735,0005840,0006412,0015934', uniprot='', pdbid='6zj3', asym_id='LP')

    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>