Structure of PDB 6v3a Chain 0 Binding Site BS01

Receptor Information
>6v3a Chain 0 (length=51) Species: 1144670 (Acinetobacter sp. CIP 51.11) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MRDKIRLVSSAGTGYFYTTTKNKRTMPEKMEIKKFDPKIRQHVIFKEAKI
K
Ligand information
>6v3a Chain AN1 (length=2892) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
agucaaguaauuaagugcaugugguggaugccuuggcagucagaggcgau
gaaagacgugauagccugcgaaaagcuccggggaggcggcaaauauccuu
ugauccggagaugucugaaugggggaacccaccuacuuuaagguagguau
ugcaacaugaauacauaguguugcaaggcgaacgaggggaagugaaacau
cucaguacccuuaggaaaagaaaucaauugagauucccucaguagcggcg
agcgaacggggaucagcccauuaaguuauguguguuuuaguggaacgcuc
ugggaagugcgaacguagagggugauauucccguacacgaaagggcacac
auaaugaugacgaguagggcgaggcacgugaaaccuugucugaauauggg
gggaccauccuccaaggcuaaauacuccugacugaccgauagugaaccag
uaccgugagggaaaggcgaaaagaaccccugugaggggagugaaauagau
ccugaaaccgcaugcauacaagcagugggagcaccuucguggugugacug
cguaccuuuuguauaaugggucagcgacuuauauucaguagcgagguuaa
ccguauaggggagccguagagaaaucgagucuuaauagggcguuuaguug
cuggguauagacccgaaaccaggcgaucuauccaugagcagguugaaggu
uggguaacacuaacuggaggaccgaacccacugucguugaaaagccaggg
gaugacuuguggauaggggugaaaggcuaaucaagccuggugauagcugg
uucuccccgaaagcuauuuagguagcgccucggacgaauaccauaggggg
uagagcacuguuucggcuagggggucaucccgacuuaccaaaccgaugca
aacuccgaauaccuaugaguacuauccgggagacagacugcgggugcuaa
cguccguagucaagaggaaaacaauccagaccgccagcuaaggccccaaa
aucauaguuaagugggaaacgaugugggaaggcauagacagcuaggaggu
uggcuuagaagcagccacccuuuaaagaaagcguaauagcucacuagucg
agucggccugcgcggaagauguaacggggcuaaaacuaugugccgaagcu
gcggauguauacuuuguauacgugguaggggagcguucuguaagccgaug
aagguguguugagaagcaugcuggagguaucagaagugcgaaugcugacg
ugaguaacgacaaaacgggugaaaaacccguucgccgaaagaccaagggu
uccaguccaacguuaaucggggcugggugagucgaccccuaaggcgaggc
cgaaaggcguagucgaugggaaaaugguuaauauuccauuacuucugugu
aaugcgaugagaggacggagaaggcuaaaucagccuggcguugguugucc
aggugaaaggauguaggcauguaucuuaggcaaauccgggguacucuaug
cugagaucugauagcaagcuguacuuguacagcgaagugguugaugccau
gcuuccaggaaaagucucuaagcuucaguuacacaggaaucguacccgaa
accgacacagguggucaggucgaguagaccaaggcgcuugagagaacucu
gcugaaggaacuaggcaaaaugguaccguaacuucgggagaagguacgcu
guuguuggugauggaacucgcuuccugagcugacgacagccgcagaaacc
aggccgcugcaacuguuuauuaaaaacauagcacucugcaaacacgaaag
uggacguauagggugugaugccugcccggugcuggaagguuaauugaugg
gguuagcguaagcgaagcucuugaucgaagccccaguaaacggcggccgu
aacuauaacgguccuaagguagcgaaauuccuugucggguaaguuccgac
cugcacgaauggcauaaugauggcggcgcugucuccagcagaggcucagu
gaaaucgaaaucgcugugaagaugcaguguacccgcggcuagacggaaag
accccgugaaccuuuacugcagcuugacacugaacuuugaccuuacuugu
guaggauaggugggaggcuuugaagcuggaacgcuaguuccaguggagcc
guccuugaaauaccacccugguaauguugagguucuaacucugucccgug
auccgggacgaggaccgugucugguggguaguuugacuggggcggucucc
uccuaaagaguaacggaggaguacgaaggugcgcucagcguggucggaaa
ucacgcguagaguauaaaggcaaaagcgcgcuuaacugcgagacccacaa
gucgagcagguacgaaaguaggucuuagugauccggugguucuguaugga
agggccaucgcucaacggauaaaagguacucuggggauaacaggcugaua
ccgcccaagaguucauaucgacggcgguguuuggcaccucgaugucggcu
caucucauccuggggcugaagcaggucccaaggguauggcuguucgccau
uuaaagagguacgcgagcuggguuuagaacgucgugagacaguucggucc
cuaucuaccgugggcgcuggaaauuugagaggaucugcuccuaguacgag
aggaccagaguggacgaaccucugguguaccgguugugacgccagucgca
ucgccggguagcuauguucggaagggauaaccgcugaaagcaucuaagcg
ggaagccuaccucaagauaagauuucccuaggacuuuauguccucuaaag
agccguucgagacuaggacguugauagguuggauguggaagcauagugau
augugaagcugaccaauacuaauugcucgugaggcuugacua
<<<<<<<<......<<<<<<<<<<<....<<<.<<<<<<<<<<<<<<...
...<<<<<<....(((.>>>.....<<<<<<<..<<.)))......>>..
...>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<
<<<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<<....>
>......>>>>>.>.........<<....>>...<<<<<.....<<....
.>>....>>>>>...<<<......<<<<<<<<<<<<<<.<<<...<<<.<
......>.>>>((......<<<.....))>>>...>>>...>>>>>>>>>
>>>>>...........<<<<<<<<.........>>>>>>>>......<<<
<<..((((>>>>>..>>>......>>.>>>>>>>.>>>............
..<<....>>....>>.........<<<<.....>>>>............
.>....>>>>>>>>>>>.......<<<<..<<<<<.....>>>>>..>>>
>...<.<........>.>.<<<<<<....<<<<<<<<<<<<<..<<<...
<<.....>>...>>>...<<....>>..<<<<.....>>>>.....>>>>
>>>>>>>>>..<<.<..<<<<<<<.....<<<<<<<<<..<<<....<<<
<<<......>>>>>>.....>>>...<<<.<<<.<........>.>>>>>
>....>>>>>>>>>...<<<.....>>>......>>>>>>...>..>.>>
..<<<<<<....<<<<<....>>>>>.<<<<<<<....<<<<<<<<<...
..<<<...<<<.<<<<...<<.<<<.......>>>..>>...>>>>.>>>
..>>.>.....>>>>>>.>>>...>>>>>>.>...<<<<<<<<<<.....
.>>>>>>>>>>....<<<......>>>...<<<<.<<<...<<<(((...
..<<<<<<...........<<.<<<<<<..<.........<<<<...<..
...<.........>......>........<<........>>...>>>>..
...>..>>>>>>>>...........)))......>>>>>>.>>>...>>>
>>>><<<<<<<.....>>>>>>>....>>>>>><.<<<<<...<<<....
..<<<<<<<<....>>>>>>>>...>>>..>>>>>..>.....>>>>>><
......<<.....<<<<<<.......>>>>>><<<<....<<<<<.<<..
.<<<<<<...<<.....>>.>>>>>>....((<<<.<<<...<<<...<<
<....>>>...>>>...>>>..<<<<<........>>>>>))<<<<<<<<
<<<<<...<<<<....<<<<..<<<..<<<<<<<<<<<...[[[[...>>
>>>>....<<<<...<<<<<.<<<<<..<<.....>>.>>>>>....>>>
>>...>>>>...........<......>.........>>>>>...>>>..
.>>>>.........>>>>...>>....>>>>>>>>>>>.>>>..>>....
.<<......>>>>>>>.<<<<.....>>>>..>>>>..<<<<....<<<<
<<<<.<<...............<<<<<.....<..>......>>>>><<<
<<<<<<<<<...<<<<.....>>>>...>>>>>>>>>>>>..........
..<<<<<<<<<..<<<.........>>>..<<<<<<<.....<<<....>
>>.......>>>>>>>.<<<<<.<<<..<<<<<<<..<<<........<<
<<<<.<<....>>..>>>>>>........>>>>>>>>..>>>>><<<<<.
........>>>>>........<...........<<<<<<.....>>>>>>
.....>....>>>>>..>>.>>>>>>>.....>>.>>>>>>>>.>>>>>>
.....>.....<<<<<........>>>>>..<<<<<<<.<<<<.<<....
..<<<<.<<<<<<..<<<<..<<<.<<<<<.<<<<<<<<<<.<<<<<...
.........<<.....<........<................>.....>.
..............>>...>>>>>.>>>>>>>>>>...<<<.<<<<<<..
...>>>>>>>>>....>>>>>.>>>...>>>>..<<<<.....>>>><<<
<<<...........>>>>>>..<<...<<<<<<<...<<<<<<.......
>>>>>>.....<<.[.(((>>....>>>>>>>...<<<<..<<<......
>>>..>>>>.<<<....>>>.>>)))]......<<<<<<<.<<..)))).
.>>>>>>>>>.............>>>>..>>>>>>.......<<<<.<.<
<<<<<...<<.......>>...>>>>>>...>>>>.>.......<<<<<.
<<<<<<..<<<<<<<<<......>>>>>>..>>>.<<<<<.....>>>>>
.....>>>>>..>...>>>.>>....<<<<<<<....>>>.>>>>....>
>..>>>>>>>>>>>....<<<<<<<...<<<<..<<<<<<..........
.......>>>>>>.<<<<<...<<<<...<<<<<<<<<<<]]]]>>>>>>
..>>>>>...>>>>.>>>>>...<<<....<<<<<...........>>>>
>....>>>.>>>>.......>>>>>>>..<<<<<.....>>>>><....<
<<<<<<<<.......>>>>>....<<<<<<<<..<<....<<<<<....>
>>>>...>>...>>>>>.>>>...>>>>..>..>>>>>>>>.
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6v3a Cryo-electron Microscopy Structure of the Acinetobacter baumannii 70S Ribosome and Implications for New Antibiotic Development.
Resolution2.82 Å
Binding residue
(original residue number in PDB)		M1 R2 T20 M30 K33 F35 R40 H42
Binding residue
(residue number reindexed from 1)		M1 R2 T20 M30 K33 F35 R40 H42
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
--> -->
 
 
UnboundLocalError		Python 3.6.8: /usr/bin/python3
Sun Apr 6 12:43:24 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 = '6v3a', asym_id = '0', bs = 'BS01', title = 'Cryo-electron Microscopy Structure of the Acinet... and Implications for New Antibiotic Development.'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='6v3a', asym_id='0', bs='BS01', title='Cryo-electron Microscopy Structure of the Acinet... and Implications for New Antibiotic Development.')
   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 = '6v3a', asym_id = '0'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005840,0006412', uniprot='', pdbid='6v3a', asym_id='0')
    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>