Structure of PDB 6rm3 Chain SEE Binding Site BS01

Receptor Information
>6rm3 Chain SEE (length=56) Species: 6039 (Vairimorpha necatrix) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
QINIKKAGKVKNQTPKVAKQEKQRAKTGRCANRRKYEARLEMGYFECNGK
MKLNLK
Ligand information
>6rm3 Chain S60 (length=1231) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
accagguugauucugccugacguagacgcuauucccuaagauuaacccau
gcauguuuuugauauggaaaaauggacugcucaguaauacucacuuuauu
uaauguauuaaaguauaacugcguuaaaguguagcauaagacuauacagu
aagagugagaccuaucagcuaguuguuaagguaauggcuuaacaaggcaa
ugacggguaacgguauuacuuuguaauauuccggagaaggagccugagag
acggcuacuaagucuaaggauugcagcaggggcgaaacuugaccuaugga
uuuuaucugaggcaguuaugggaaguaauauauuguuucauauuguaaaa
guauaugaggugauuaauuggagggcaaaucaagugccagcagccgcggu
aauacuuguuccaagaguguguaugaugauugaugcaguuaaaaaguccg
uaguuuauauuuaagaagcaauaugagguguacuguauaguugggagaga
gaugaaaugugacgacccugacuggacgaacagaagcgaaagcuguacac
uuguauguauuuuuugaacaaggacguaagcuggaggagcgaagaugauu
agauaccauuguaguuccagcaguaaacuaugccgacgaugugauaugau
auuaauuguauuagaugauagaaauuugaguuuuuuggcucuggggauag
uaugaucgcaagauugaaaauuaaagaaauugacggaagaauaccacaag
gaguggauugugcggcuuaauuugacucaacgcgagguaacuuaccaaua
uuuuauuauucagagaagauuaaucugagaaugauaauaguggugcaugg
ccguuuucaauggaugcugugaaguugauuaauuucaacaagacgugaga
cccuuuuauuaauagacagacacaaucaguguaggaaggaaaggauuaaa
acagguccguuaugcccucagacauuuugggcugcacgcgcaauacaaua
gauauauaaucuuuaugggauaauauuuuguaagagauauuugaacuugg
aauugcuaguaaauuuuauuaaauaaguagaauugaaugugucccuguuc
uuuguacacaccgcccgucgcuaucuaagaugauauguguugugaaauua
gugaaaacuacuugaacaauauguauuagaucugauaugucguaacaugg
uugcuguuggagaaccauuagcaggaucaua
..<<<<<.[.((((>>>>>.<<<<.<<<<..<<<<<.<<......<<<.<
<<..<<<.<<........>>>>>......<<........<<<<<<<..<<
...<<<<<....<<....<<<<<<....>>>>>>......>>.>>>>>..
>>>>>>>>>.<<<....<<<...<<<<<<<.......>>>>>>>.>>>..
....>>>...<<<.<<<<<...>>>>>...>>>.>>.<<.<<<.......
...>>>.>>..<<<....>>>....>>>>>>......<<.<.<....<<<
.....>>>..>.>>>>>..>>>>>..<<<..>>>....<<<<<.......
..>>>>>..........<<<<<((......<<<<.....<<..))>>...
....>>>>.>>>>>..>>>>.>>>>..........<<<((.....<<<<.
..<<<........<<<<.<<...<..<<<<<<<<<..<<<<<<<<...<.
.........>......>>>>>>>.>.>>.......<<....>>.>>>>>>
>.>..>>..>>>>..>>.>..>>>>..<.<<<<<<...<<...<<<<...
......>>>>...>>>>>>>>..>.......<<<.<<.<<.<<<<<<<<<
....>>>>>>>>>.>>......)).....>>.....>>>.>>>.<<....
...<<<<....>>>>.....>>..)))).]<<<<<.<<<<<<<..<<.<<
..<<..<<<<<<<<<<......<<........>>..........<<<<.<
<.<<<<<<<<<.....<<<<..>>>>..>>>>>>>>>.<<.<<<..<<.<
<<<<<....<<<...<<<....>>><<<......>>>......>>>....
.<<<<<<<<..>>>>....<<<<.....>>>>........>>>>.....>
>>.>>>.....>>>>>>>.....>>.>>>>...>>.>>>>>>>>.....<
<<<.....>>>>....<....<<<<<<<......>>>>>>>....>....
.>>..>>....<<<<<<<<.......>>>>>>>>......>>...>>>>>
>>>>>.>>.......<<.<..<<<<......<<<<<<<<<<<<..<<.<<
<<....>>>>.>>..>>>>>>>>>>>>......>>>>.>.>>........
..<<<<.<<<....>>>.>>>>.........
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6rm3 Evolutionary compaction and adaptation visualized by the structure of the dormant microsporidian ribosome.
Resolution3.4 Å
Binding residue
(original residue number in PDB)		K9 K12 V13 K14 Q16 Q26 R27 K29 T30 R32 C33 R36 R42 K55 N57
Binding residue
(residue number reindexed from 1)		K6 K9 V10 K11 Q13 Q23 R24 K26 T27 R29 C30 R33 R39 K52 N54
Gene Ontology
--> -->
 
 
UnboundLocalError		Python 3.6.8: /usr/bin/python3
Fri Nov 15 19:50:39 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 = '6rm3', asym_id = 'SEE', bs = 'BS01', title = 'Evolutionary compaction and adaptation visualize...structure of the dormant microsporidian ribosome.'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='6rm3', asym_id='SEE', bs='BS01', title='Evolutionary compaction and adaptation visualize...structure of the dormant microsporidian ribosome.')
   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 = '6rm3', asym_id = 'SEE'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005840,0006412', uniprot='', pdbid='6rm3', asym_id='SEE')
    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>