Structure of PDB 6ywe Chain b Binding Site BS01

Receptor Information
>6ywe Chain b (length=161) Species: 5141 (Neurospora crassa) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ATVKQHVQLALSLPPRLRTFLARYPPASILPAGADPETHKTPYQEESPNP
FMPTKHPITGKWHNPKYSLRRQAELVKLAQEHGVEELLPFTRKLNEEKLR
KRVELGLRVKGTGVGEKVKGHKHERTLVAKMEKRREAMLAMPDLIREWKK
VGKRNWTKFPK
Ligand information
>6ywe Chain A (length=2837) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
guaauggauauaaagcuuauguuuauauauauauauaaguauauaaagag
acuacuaccaauagcuacacuauguauuaaggagaguauaacuuaauuua
uguuuaugauagagguuaucaacauaugaacucuuagagaaauuacuuaa
uaaacgaagugaauugaaauaucuuauuaacuucaggaaaagaaaucaaa
cgagauucuaugauuagugugaacgaaaauagagcagccuauuaaaauaa
guaaaauggcuuuaaagcuguuugaauauuguggggaaccuuccucaaag
gcuaaauauaauacaugaguuacagagaaaaguaccgugagggaaagcuu
ugaaauaguaguuuuauaagcagcucaagcaauaagaaagcgagagcgua
ccuuuugcauaaugggucaccaaguuaauuuuagaugcgagcgaauuaga
ugugcauaguuaaaccgaucauuaaaauaaugaauagugucuaaaguuag
acccgaagccuggugaucuuacuauagucaggacuauaaagguccgaacg
gguuaucguugcaaagauauccgaagaacuaugguaagcgagugaaagac
aacacugacuaggauagcugguuuucugcgaaaccuauaauaguaggcaa
uuuaaguaacaucuuaguagguacagaacuuaaucucagacaagauguag
auuuucauaccuagguaugaaaugcauuuuuuuuuguauacaucggggga
ucgugaagauuuuaucggugaguauguagacucggaaugacaaagaugaa
ucuugaauaaucagacauagaaugauaagguuguaugucaaaagggaaac
agcccagaacaagaguuaagguuccaaaauuauuauuaagugaaauaaag
aaaguuuuuauauaagucgacaagaagaugggcuuggaagcagccauaau
uuaaagaucucguaacagagcacuuguuaaaucuuaaaagcaucgaaaau
uuaacggaucuaaauaauauaccgaaaccuuguccauauguaacauuagu
aauaauauuaauguuauuugaugggguagcagaacguugagugaaucuua
gauuuuuuuuuuauaacuaaauauagaugauaacucaagugagaauggug
acaugaguaacaaaaaagaguuuaagguaccuaaaagguaucuuagaguc
ucgccuaaagcuuauggcuacgucaaguaacggccucuaaguuuauaauc
ugaagauuaugacgaugagaaaacuuugguaccaacauuuaaaagugaaa
auugugcaggaaggauaaaccguaccuagaaucugaaacaaguaagcuag
uagagaauacgaaggcgugaaugagauaacaaucauaaaggaacucggca
aacuaacuaccguaacuuagggauaaggagagcucauuagucucgaacga
guaaaaaggaagaagcauggaauauuguuguacgacuguuuaauuaaaac
aaagcacuuugcaaaaagacgauaagucuaaguauugagugugauuucug
cccgaugccggcugguuaacgaauuuucuaaauugaaaaaaaauuugguu
ucagaggaacccccgguuaauggcggccuuagcgugaggguccuaaggua
gcgaaaugccuuggccguuaaaugcggucuugcaugaaugauguaacgau
acaacagcugucucuaugauugacucagugaaauuggaauaacugugcag
auacaguuuaccucuaguuagacgagaagacccuaugcagcuuuacuguu
acuaauuauugaauacgauucugaaaauuuccaguguaaaagguaaucga
uaagauauaauugaaacaccuuuauuuuucuaucguauuauuaaaccuua
aauuaaggaacaauuguuagaagacaguuuaugcggggcacaggccccau
aaagaguaaaugggugugucuaaaauguuugcaauuuuuuauaguauaua
ucaaaucaucuuuaugcuauucauagaccuuggguacaguauaaaaauua
uauauguauuaauuuacauauauuuuuucuaagaaauuagguaagauuuu
guuuauagagaaauuagauguaaaaaaaaaaucuuaugagggcggauccg
cuucuaauauuuuuuuguaguuauuauuauaauaauaaucauguuuauua
cuuaaaaagcuuaauggcuuaaucuugccuuacuguuugauuaacaacaa
aucuuacagucgcguaagcggggcauaggaucacaagauacaaaaaggaa
agaucuuggauuuuuggaaaagcuacgcuagggauaacaggcuaauuugc
gcaagaguguacaaaaugagugcgcgguuuggcaccucggcuugacuaau
ccucauggaugcagaaacuauguaggguacgacuguucgucgauuaaaaa
guuacaugagcuggguuaaauacgucgugagacaguaugguuucuaucuu
cuagagggaauuagaauauaauaaggauuaaccuuuguacgaaaggaaca
ugggguacuauuguuaacaguuuuauuaaccucugguuuaccuguuguuu
augugccuuagggauguuaccgucacuugaguaaauacaauagcauaagc
auggcaggaaagcuaaguuagucaaaaauaagugcugaaagcauauaggc
acgaaauuuaccuuaagauauuucuuaaauauacguaagaaaauauuacg
uuaauaggcuuaguuuguaauaaucuagagauuuuaaggaacuaaguacu
aauuuuauaaaaaacugaaugauuaauauaucuuaca
<<<<..<<<<<<.......<<<<<<<<<..>>>>...<<<.......<<<
<<<<<<<......<<.....<<<<<<<<..<<<<<<.....>>.....<<
<<<<................>>>>>>....>>>>..<<....>>......
....<<<<<<.....<......>......>>>>>.>.........<<...
.>>..<<<<<<.....<<....>>....>>>>>>..<<............
...<<<<<<<<....>>>>>>>>........<<<<<..[[[[>>>>>...
>>.......>>>>>>>>.................<<....>>....>>..
.....>>>>>>>>>>.......<<<<..<<.........>>..>>>>...
<.<........>.>.<<<<<<....<<<<<<<<<<<<<..<<<.......
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<..<<<<........>>>>.>>>....>>>>>>>>>.....<<.....>>
.......>>>>>>.>..>.>>..<<<<<<....<<<<<....>>>>>..<
<<<<<<...<<<<<<.<<.....<<<...<..<<<<<<.<<<<<<<<..<
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.>>>>>>>.....<<<<<<.<<<......>>>.>>>>>>....<<<....
..>>>...<<<<<.<<...<<<(((.....<<<<<<.....<<......<
<..<<<<<<<........<<<<<<.<....<<<<.......>>>>....>
........<<<......>>>..>>>>>>......>>>>>>>.>>......
.....)))>>...>>>>>>.>>>...>>>>>>><<<<..<<<<<<<<<<<
<....>>>>>>>>>>>>...>>>>....>>>>>>..<<<<<<..<<<...
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>><......<<.....<<<.<<<<<<<<<<<.....>>>>>>>>>>>.>>
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......<<.<<....<<..>>.....>>>>..<<<.<<...<<<<..>>>
>....>>.>.>>.............<<<<<<<<<..<<<.........>>
>..<<<<<<.......<<<<.....>>>>.......>>>>>>....<<.<
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.....>....>>>>>>>..>>>>>.<<<<........>>>>.........
<...........<<<<<<.....>>>>>>.....>....>>.....>>.>
>>>>>>..>..>>.>>>>>>>>.>>>>>>.....>.....<<<<<.....
...>>>>>..<<<<<<<..<<<.<<......<<<<.<<<<<<..<<<<<.
.<<<<<.<<..<<<<<<<<...<<<<<...........<<<<<<.<<<..
...>>>...........>>>>>>..>>>>>.>>>>>>>>......<<<<.
....>>>>....>>.>>>>>...>>>>>...<<.......>>.<<<<<<.
..........>>>>.>>..<<.....<.......<<<..<<<<...>>>>
..>>>.>..........<<<<<<.......>>>>>>.............<
<<<<<<<<......>>>>>>>>>................<<<<<<<....
.<<<<.........>>>>.<<<<..<<<<.<<.<<<.<<.<<<<<..>>>
>>>>>>>.>>..>>>>...<<<<<<<<<..>>>>>>>>>........>>>
>......<<<.[.(((>>>...>>>>>>>...<<<<..<<<.........
>>>..>>>>.<<<....>>>.>>)))]......<<<<<<.<...]]]]..
.>>>>>>>............>>>>..>>>>>>.......<<<<.<...<<
<<<...<<.......>>...>>>>>....>>>>.>..<<<<.<<<<<...
<<<<<<<<.........>>>>>..>>>..<<<<.....>>>>.......>
>>>..>...>>>.>.....<<<<<<<....>>>.>>>>....>>..>>>.
>>>>>>>.....<<<<<<...<<<<<...<<<<<...............>
.>>......<<<<<..>>>>>>>.<<<<<<...<<<<...<<<<<<<<<<
<<<<.<<<..>>>...<<<<...)))))..>>>>........>>>>>>>>
>..>>>>>...>>>>.>>>>>>..<<<.<..<<<<<...........>>>
>>...>>>>.>>>>>...>>>.>>>....<<<.<<<<<.......>>>>>
....<<<<<<<<<<<<.....<<<<<..>>>>>....>>>.>>>>>>.>>
>.....>>>....>>>>>>>>.....>>>>>>>>>>.
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6ywe Analysis of translating mitoribosome reveals functional characteristics of translation in mitochondria of fungi.
Resolution2.99 Å
Binding residue
(original residue number in PDB)		R17 Y44 P54 I59 W63 H64 N65 S69 L70 R71 R72 A74 E75 K78 R93 K94 K102 R103 R109 V110 K111 G112 V119 K120 G121 H122 K123 H124 R126 V129 A130 K131 R155
Binding residue
(residue number reindexed from 1)		R16 Y43 P53 I58 W62 H63 N64 S68 L69 R70 R71 A73 E74 K77 R92 K93 K101 R102 R108 V109 K110 G111 V118 K119 G120 H121 K122 H123 R125 V128 A129 K130 R154
Gene Ontology
--> -->
 
 
UnboundLocalError		Python 3.6.8: /usr/bin/python3
Mon Nov 18 03:42:09 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 = '6ywe', asym_id = 'b', bs = 'BS01', title = 'Analysis of translating mitoribosome reveals fun...eristics of translation in mitochondria of fungi.'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='6ywe', asym_id='b', bs='BS01', title='Analysis of translating mitoribosome reveals fun...eristics of translation in mitochondria of fungi.')
   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 = '0003735,0005762', uniprot = '', pdbid = '6ywe', asym_id = 'b'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005762', uniprot='', pdbid='6ywe', asym_id='b')
    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>