Structure of PDB 8p09 Chain E Binding Site BS01

Receptor Information
>8p09 Chain E (length=226) Species: 9986 (Oryctolagus cuniculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GKAEDKEWLPVTKLGRLVKDVKIKSLEEIYLFSLPIKESEIIDFFLGAAL
KDEVLKIMPVQKQTRAAQRTRFKAFVAIGDYNGHVGLGVKCSKEVATAIR
GAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGSVLVHLIPAPRGT
GIVSAPVPKKLLLMAGIDDCYTSAWSCTATLGNFAKATFDAISKTYSYLT
PDLWKETVFTKSPYQEFTDHLVKTHT
Ligand information
>8p09 Chain 2 (length=1741) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcuacuuggauaacugugguaauuc
uagagcuaauacaugccgacggcgcugacucccuuugugugggaugcgug
cauuuaucagaucaaaaccaacccggucgcggcuuuggugacucuagaua
accucgggccgaucgcagcccuccguggcggcgacgacccauucgaacgu
cugcccuaucaacuuucgaugguagucgccgugccuaccauggugaccac
gggugacggggaaucaggguucgauuccggagagggagccugagaaacgg
cuaccacauccaaggaaggcagcaggcgcgcaaauuacccacucccgacc
cggggagguagugacgaaaaauaacaauacaggacucuuucgaggcccug
uaauuggaaugaguccacuuuaaauccuuuaacgaggauccauuggaggg
caagucuggucgcagcagccgcgguaauuccagcuccaauagcguauauu
aaaguugcugcaguuaaaaagcucguaguuggaucuuguggaggguuccc
cgccccuugccucucggcgccggcccgaagcguuuacuuugaaaaaauua
gaguguucaaagcaggcccgagccgccuggauaccgcagcuaggaauaau
ggaauaggaccgcgguucuauuuuguugguuuucggaacugaggccauga
uuaagagggacggccgggggcauucguauugcgccgcuagaggugaaauu
cuuggaccggcgcaagacggaccagagcgaaagcauuugccaagaauguu
uucauuaaucaagaacgaaagucggagguucgaagacgaucagauaccgu
cguaguuccgaccauaaacgaugccgacuggcgaugcggcggcguuauuc
ccaugacccgccgggcagcuuccgggaaaccaaagucuuuggguuccggg
gggaguaugguugcaaagcugaaacuuaaaggaauugacggaagggcacc
accaggaguggagccugcggcuuaauuugacucaacacgggaaaccucac
ccggcccggacacggacaggauugacagauugauagcucuuucucgauuc
ugugggugguggugcauggccguucuuaguugguggagcgauuugucugg
uuaauuccgauaacgaacgagacucuggcaugcuaacuaguuacgcgacc
cccgagcggucggcgucccccaacuucuuagagggacaaguggcguucag
ccacccgagauugagcaauaacaggucugugaugcccuuagaugucgggg
cugcacgcgcgcuacacugacuggcucagcgugugccuacccuacgccgg
caggcgcggguaacccguugaaccccauucgugauggggaucggggauug
caauuauuccccaugaacgaggaauucccaguaagugcgggucauaagcu
ugcguugauuaagucccugcccuuuguacacaccgcccgucgcuacuacc
gauuggaugguuuagugaggcccucggaucggcccgccggggucccuggc
ggagcgcugagaagacggucgaacuugacuaucuagaggaaguaaaaguc
guaacaagguuuccguaggugaaccugcggaaggaucauua
...<<<<<...[[[[>>>>>[[[.((((((.....{{.........[[[.
[[[..<<....<<....<<..........>>...>>.>>......{{...
.....[[[......{{....[[[........<<.....<<.<<<.....>
>>.>>......>>.........<<<...<<.<......>.>>...>>>.[
[..(((((.....<<<<<<<<<<<<....>>>....<......>..))))
)......]]...<<<<.<<<......>>>.>>>>....]]]...}}....
]]].<<<....<<<....<<<<<<<.........>>>>>>>>>>......
>>>...<<<.<<<<....>>>>....>>>.}}.<<.<<<..........>
>>.>>.<.<<....>>.>...]]]]]].........<<<....<<<<...
>>>>..>>>......}}.......<<<<<<.<<.<<<....>>>.>>..>
>>.>>>......<<..<...........>..>>.........<<<<<((.
...<.<<<<.....<<..))>>.......>>>>>>>>>>..)))))).]]
]............{{.......{{...[[[.[[....<<<<.<<<.>>>>
>>>.....<<.<......<<..>>....>>>..<<<<<<.<.......<<
...<.......>.<<<<.......>>>>...>>......>.>>>..>>>.
......[[....(((((((.....>>>>>>>>>.)))))))...]]....
]]....<<<<<<..<...<<<<..<<..<<<<<<<<...<<<......>>
>......>>>>>>>>..>>.......<<....>>...>>>>..>..>>>.
>>>...]]]...}}......<<<<<<<...<...<<<<.<.....>.>>>
>...>>>>>>>>..........<<<.<<.<<<..<.<<<<<<.<<<<<..
..>>>>>>>>>>>.>..>>>...<<..}}>>...>>.....>>>.....<
<<......<<<<....>>>>....>>>..]]]]..<<<<<.<<<<<<<..
<<..<<<<<..<<<.<<<<<<......<<........>>..........<
<<<<......<<<<<<.......<<.<<<........>>>.>>.....>>
>>>>...<<.<<<..<<.<<<<<<....<<<.<<<<......>>...<<<
......>>>...>>.>>>....<<<...<...<<<<..<<<<....<..<
..<<......>>>...>....>>>>..>>>>..>.....<<<<<.....>
>>>>........>>>....>>>.>>>.....>>>>>>>......>>>>>.
..>>.>>>>.>>>.....<<.<<<........<.......<<<.<<<<..
..>>>>.>>>....>.........>>>.>>......<.....<<<<<...
.......>>>>>.....>.....>>>>>.....<<<<<<<<.......>>
>>>>>>......>>...>>>>>>>>>>.>>....<..<<.<..<<<<.<<
....<<<<<<<<.<<<..<<<<.<<...<<<<<.<<<<<<<<.>>>>>>>
>....>>>>>...>>.>>>>..>>>.>>>>>>>>...>>.>>>>...>.>
>...>.....<<<<<<<<<....>>>>>>>>>.........
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8p09 N 6 -methyladenosine in 5' UTR does not promote translation initiation.
Resolution3.3 Å
Binding residue
(original residue number in PDB)		M87 V89 Q90 K91 Q92 R94 R98 T162 R164 G166 S167 L169 H171 S183 A184 Y200 T201 W204 S205 T207 N212 K215
Binding residue
(residue number reindexed from 1)		M58 V60 Q61 K62 Q63 R65 R69 T133 R135 G137 S138 L140 H142 S154 A155 Y171 T172 W175 S176 T178 N183 K186
Gene Ontology
--> -->
 
 
UnboundLocalError		Python 3.6.8: /usr/bin/python3
Tue Dec 3 00:29:18 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 = '8p09', asym_id = 'E', bs = 'BS01', title = "N 6 -methyladenosine in 5' UTR does not promote translation initiation. "
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='8p09', asym_id='E', bs='BS01', title="N 6 -methyladenosine in 5' UTR does not promote translation initiation. ")
   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 = '0003723,0003735,0005840,0006412,0015935', uniprot = '', pdbid = '8p09', asym_id = 'E'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003723,0003735,0005840,0006412,0015935', uniprot='', pdbid='8p09', asym_id='E')
    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>