Structure of PDB 6zj3 Chain SD Binding Site BS01

Receptor Information
>6zj3 Chain SD (length=177) Species: 3039 (Euglena gracilis) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VRKYRNFSKVYSTPRRPFDKERLDKELKLCGEYGLRCKKEVWRVGAVLTK
MRSAARQLLTLEEGHLRRQIEGAALLRRCQKYGLLDESKLKLDYVLSLTV
PDFLERRLQTIVFKLGLAKSIHHARVLIAQRHIRVGKQICTSPSFLVRMD
SEKHIDFAPQSPLGGGPPGRVKRKKLA
Ligand information
>6zj3 Chain S1 (length=2024) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
aaucugguugauccugccagcagucauaugcuuuguucaagggcuaagcc
augcacgucucagcgcaaacggagugacaguggaucugugaauggcuccu
uacaucagcagucaucuacgugauagagugugcucgguccaccugcaagg
accccauuggacauccaccaaaaccuuguggcuaauacacguucgaccca
gucagccaugcaacacucggcaucaccggugguggcggauguaugcccag
cugauacgaagaccagcggccgcaaggccaguguugguugacucaggcug
gcccuggccgcagugcugguggauuucgugcaugcgcaugccccacuuga
ucgcaagagcuucugaccuaucagcuugacugugguguaucggaccacag
uggccuugacggguaacggagaaucaggguucgauuccggagagggagcc
ugagagacggcuaccacuaccaaggugggcagcaggcacgcaaauugccc
caugcaaagacagucugugaggcagcgacgaacaguagcaaccccgucgg
ccuugccgauggggcuuggaauggacgcuauccaaagacagccgugagua
ucaaccggagggcaagucuggugccagcagcugcgguaauuccagcuccg
agggcguauacuaacauugcugcuguuaaaacacuuguagucugccuacg
ggcugcaggucugcuggguggccgguuuguuguuucucuggccagcugug
uugggcugcaacggcugguacgucccugcgcccaccgauggugaggcucc
ugccaaaagucugccaaagcgguuuaugccucccgcacuggcaacggaca
ccaacaggggacccagcagcuggguucugguccaccaccggagcccaccg
ucugacacccuggaaaacucagugugcucaaagcauccccgcgacggcug
aauguccauccauggaaugucaaggcaucgaccaaguguggcauuggagu
ugugcuggccuuggggcccacucuggacaaccugguggugugcacccauc
gaucguaagugaugggacuguucggggugaaagauacgggagcgccagag
gugaaauucuuagaucgcugccagauccacugcagcgaaggcguucugca
agugcacguccgucgaucaagaaugagaguucggggagcaaagaugauca
gacaccgucguaguccggccacuguaaacgaugccggccaggccuuggca
gagcaagaauccuagacucugucagggccaacgagaaauccacagccugu
ggguucaggggggaguacugucgcaaggcugaaacuuaaaggaauugacg
gaauggcaccacaaggcguggaguaugcggcuuaauuugacucaacgcgg
ggaauguuaccaggucaggacgcaacugggauugacagauugagagcucu
uucuugaucuuguggacgguggugcauggccgcuccugauugguggagug
auuugucugguugauuccgauaacgagugagacaucugccucccacuagc
cugaggcucgcuagggggcugcugcaugcucccgagagccuccaguucag
cuucucugaggugcuguguccgccacaaagggcaugcaugcuagagccaa
cagcaggucugugaugcucccagauguccugggccgcacgcgcacuacau
ugucacagugaaggugucgacaugcccacgugggcccuggccugaagagg
cugggaaauccugcaagccugugacguacuggggauagaugguugcaacu
gucugccuugaacguggaaugccuaguaugccugggucaucagcccagac
cgauugugucccugccauuuguacacaccgcccgucguugcuaccgaugg
uggcuggauagagucaucaggagguuguggagggcaucccagccgaaauu
ggacgauguccagccacuagaggaagcaaaagucguaacaagguugcugu
aggugaaccugcagcaggaucauu
...<<<<<...[[[[>>>>>.<<<.<<<<<<..<<<<<..<......<<<
.<<<..<<....<.....<<.........>>....>.>>......<<..<
....<<<<.<<<..<<<..<<<<<.......((..<<<<.....))...>
>>>....<<.....<<<<.<.....>.>>>>......>>...........
<<<.<<<<<....<<<.<<.......>>>>>>>>>>.>>>..<<..<<<<
<<......[[[.(((((<<<<....>>>>................>>>>>
><<..>>.....>>....<<<<.......<<<<<..>>>>>.>>>>...>
>>>>.>>>>>>.>>>><<<....<<<..<<<<<<<<.......>>>>>>>
>>>>......>>>...<<<<<<<<....>>>>...>>>>>>>.<<.<<<.
.........>>>.>>.<<<<<..>>>>>...>>>>>>.........<<<.
...<<<.........>>>..>>>..>...>>>>>....<<<.<<<<<<<<
<...>>>>>>>.>>.>>>......<<<<............>>.>>.....
.....<<<<((....<.<<<<.....<<..))>>.......>>>>>>>>>
...>>>>>>>>>..........<<<{{.....<.<<...<<<.<.....<
<<<.<<<<<.<<.........<<<...<<<<<<..<.<..<<<<..>>.>
>.>.>..>>>>>>..>>>.>.>..>>>>>>>>>...<<<<<<<..<<<<<
.<<.....<.....>.....>.>.......<<.......>>....<<<<.
.....<<<...<<..<<.>>.>>..>>>.>>>>......>>>>>.>>>>>
>>.<<<<<<.<<<<.....<<..<<.......>>..<<.......>>...
..>>....>>>>.>>..>>>>.......<<.<<<<<<<.<<<........
...))))).]]]...>>>>>>>.>>>......<<<<<<.<<..>>>>>>>
>..>>....>....<<<.<<<.<...<<<.<<<<..<<<.<<<<...<<<
......>>>......>>>>.>>.>.>>.......<<....>>.>>.>>>.
.>.>>>..>>>...>>>...>>.>...<<<<<<<...<<...<<<<.<..
...>.>>>>...>>>>>>..>>>.........<<<.<<..<<<<<<<<<<
<<<..<......>...>>>>>>>>>>>>>...<<..}}>>....>>....
.>>>.>>>.<<<.......<<<....>>>.....>>>..]]]]..<<<<<
.<<<<<<<..<<.<<<<<<..<<<.<<<<<<......<<........>>.
.........<<<<<.<....<<<<<.....<..<<.<<<........>>>
.>>.>....>>>>>...<<.<<<..<<.<<<<<<....<<<.<<<<<...
.>>>...<<<......>>>...>>.>>>......<<<<<<<<.....<<<
<<<<<<<<<....<<<<<<<<<.>>>.>>>>>>..>>>>>>.>>>....>
>>.....>>>>>...<<<<<<........>>>>>>.......>>>.....
.>>>.>>>.....>>>>>>>.....>.>>>>>...>>.>>>>.>>>....
.<<<<<<<.......<.......<<<<<..>>>>><<<<<<<<....>>>
>>>>>....>........>>>>>>>...........<<.<<<........
..>>>.>>..........>>>>>>.....<.<<<<<.......>>>>>.>
.......>>...>>>>>>>>>>.>>....<..<<.<.<<<<<.<<...<<
<<<<<<<<<<..<<<.......<<<<<.<<<.....>>>>>>>>......
.>>>..>>>>>>>>>>>>...>>.>>>>>..>.>>...>.....<<<<<<
<<<<..>>>>>>>>>>........
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6zj3 Cryo-EM structure of the highly atypical cytoplasmic ribosome of Euglena gracilis.
Resolution3.15 Å
Binding residue
(original residue number in PDB)		V2 R3 K4 Y5 R6 N7 F8 S9 K10 V11 T14 R16 R17 P18 F19 R37 C38 K39 K40 R44 R68 E72 A75 R78 R79 S121 H124 R126 V127 Q131 R132 H133 Q139 C141 T142 S143 S145 F146 L147 V148 R149 S152 P163 G170 R171 V172 K173 R174 K176
Binding residue
(residue number reindexed from 1)		V1 R2 K3 Y4 R5 N6 F7 S8 K9 V10 T13 R15 R16 P17 F18 R36 C37 K38 K39 R43 R67 E71 A74 R77 R78 S120 H123 R125 V126 Q130 R131 H132 Q138 C140 T141 S142 S144 F145 L146 V147 R148 S151 P162 G169 R170 V171 K172 R173 K175
Gene Ontology
--> -->
 
 
UnboundLocalError		Python 3.6.8: /usr/bin/python3
Sun Apr 6 22:34:56 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 = 'SD', bs = 'BS01', 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='SD', bs='BS01', 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 = '0003723,0003735,0006412,0015935,0019843', uniprot = '', pdbid = '6zj3', asym_id = 'SD'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003723,0003735,0006412,0015935,0019843', uniprot='', pdbid='6zj3', asym_id='SD')
    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>