Structure of PDB 8cmj Chain 5 Binding Site BS01

Receptor Information
>8cmj Chain 5 (length=49) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
FSHPRRYGKGSRQCRVCSSHTGLIRKYGLNICRQCFREKANDIGFNKFR
Ligand information
>8cmj Chain c (length=1608) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uaucugguugauccugccaguagucauaugcuugucucaaagauuaagcc
augcaugucuaaguauaagcaauacagugaaacugcgaauggcucauuaa
aucaguuaucguuuauuugauaguucccuacaugguauaacugugguaau
ucuagagcuaauacaugcuuaaaaucucagauguauuuauuagauugaug
auucauaauaacuuuucgaaucgcauggccuugugcuggcgaugguucau
ucaaauuucugcccuaucaacuuucgaugguaggauaguggccuaccaug
guuucaacggguaacggggaauaaggguucgauuccggagagggagccug
agaaacggcuaccacauccaaggaaggcagcaggcgcgcaaauuacccaa
uccuaauucagggagguagugacaauaaauaacgauacauguaauuggaa
ugaguacaauguaaauaccuuaacgaggaacaauuggagggcaagucugg
ugccagcagccgcgguaauuccagcuccaauagcguauauuaaaguuguu
gcaguuaaaaagcucguaguugaacuuugggcccgguugcaacggggccu
uucuuuuacuuugaaaaaauuagaguguucaaagcaggcguauugcucga
auauauuagcauggaauaauagaauaggacguuuaucguaaugauuaaua
gggacggucgggggcaucaguauucaauugucagaggugaaauucuugga
uuuauugaagacuaacuacugcgaaagcauuugccaaggacguuuucauu
aaucaagaacgaaaguuaggggaucgaagaugaucagauaccgucguagu
cuuaaccauaaacuaugccgacuagggaucgggugguguuuuuuuaauga
cccacucggcaccuuacgagaaaucaaagucuuuggguucuggggggagu
auggucgcaaggcugaaacuuaaaggaauugacggaagggcaccaccagg
aguggagccugcggcuuaauuugacucaacacggggaaacucaccagguc
cagacacaauaaggauugacagauugagagcucuuucuugauuuuguggg
ugguggugcauggccguucuuaguugguggagugauuugucugcuuaauu
gcgauaacgaacgagaccuuaaccuacuaaauaguggugcuagcauuugc
ugguuauccacuucuuagagggacuaucgguuucaagccgauggaaguuu
gaggcaauaacaggucugugaugcccuuagacguucugggccgcacgcgc
gcuacacugacggagccagcgagucuaaccuuggccgagaggucuuggua
aucuugugaaacuccgucgugcuggggauagagcauuguaauuauugcuc
uucaacgaggaauuccuaguaagcgcaagucaucagcuugcguugauuac
gucccugcccuuuguacacaccgcccgucgcuaguaccgauugaauggcu
uagugaggccucaggaucugcuagcggagaauuuggacaaacuuggucau
uuagaggaacuaaaagucguaacaagguuuccguaggugaaccugcggaa
ggaucauu
...<<<<<.[.((((>>>>><<<<.<<<<<<...<.<...<......<<<
.<<<..<<....<<....<<......>>...>>.>>......<<..<...
..<<<..<<..<<....<<<............<<......<<........
.....>>......>>........<<<<.>>>><.<.<<<<..........
.......>>>>.>...>...<<<<..<<<.....>>>.>>>>....>>>.
..>>>>..>>>.<<<....<<<....<<<<<<<<.......>>>>>>>>>
>>......>>>...<<<.<<<<....>>>>....>>>>>>.<<.<<<...
.......>>>.>>.<.<<....>>.>...>>>>>>.........<<<...
.<<<.....>>>..>>>..>....>.>.....<<<.<....>..>>.>..
...<<.................>>.........<<<<<((....<.<<<<
.....<<..))>>.......>>>>>>>>>>..>>>>>>>>>>........
.<<<((.....<.<<...<<<.<<.....<<<<<.<<<..>>>.>>>>>.
......<<<<.<<.......<<...<.......>..<<<.....>>>...
.>>......>>.>>..>>..........<<.......>>.....>>....
<<<<<<.<<...<<<<..<<..<<<<<<.....<<<......>>>.....
...>>>>>>..>>.......<<....>>...>>>>..>>.>>>.>>>...
>>>...>>.>....<<<<<<<...<...<<<<.........>>>>...>>
>>>>>>..........<<<.<<.<<<..<<<<<<<<.<<<........>>
>>>>>>>>>..>>>...<<..))>>...>>.....>>>.>>>.<<<....
..<<<......>>>....>>>..)))).]<<<<<.<<<<<<<..<<.<<<
<<<..<<<..<<<........<<........>>..........<<<<<.<
.................<...<<........>>...>.............
.<<.<<<..<<.<<<<<<....<<<.<<<<<....>>>...<<<......
>>>...>>.>>>....<<<...<<..<<<<..<<..<.....<<....>>
.......>..>>..>>>>.>>....<<<<<<.....>>>>>>........
.>>>....>>>.>>>.....>>>>>>>.....>.>>>>>......>>>..
>>>.....<<<<<<<......<<.....<<..<<........>>..>>..
..>>.......>>>>>>>......<.....<<<<............>>>>
.....>.....>>>>>>....<<<<...<.......>...>>>>......
>>...>>>>>>>>>>.>>....<..<<.<..<<<<.<<....<<<<<<<<
.<<<..<.<<..<...<<<......>>>...>..>>.>..>>>.>>>>>>
>>...>>.>>>>...>.>>...>.....<<<<<<<<<<..>>>>>>>>>>
........
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8cmj Cryo-EM analysis of eukaryotic ribosome translocation intermediates
Resolution3.79 Å
Binding residue
(original residue number in PDB)		F8 S9 H10 P11 R12 R13 Y14 K16 R19 H27 T28 K33 C39 R40 Q41 C42 R44 E45 F55 R56
Binding residue
(residue number reindexed from 1)		F1 S2 H3 P4 R5 R6 Y7 K9 R12 H20 T21 K26 C32 R33 Q34 C35 R37 E38 F48 R49
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
--> -->
 
 
UnboundLocalError		Python 3.6.8: /usr/bin/python3
Fri Nov 15 23:28:38 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 = '8cmj', asym_id = '5', bs = 'BS01', title = 'Cryo-EM analysis of eukaryotic ribosome translocation intermediates'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='8cmj', asym_id='5', bs='BS01', title='Cryo-EM analysis of eukaryotic ribosome translocation intermediates')
   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 = '0003735,0005840,0006412,0008270', uniprot = '', pdbid = '8cmj', asym_id = '5'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005840,0006412,0008270', uniprot='', pdbid='8cmj', asym_id='5')
    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>