Structure of PDB 8g61 Chain LA Binding Site BS02

Receptor Information
>8g61 Chain LA (length=251) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GRVIRGQRKGAGSVFRAHVKHRKGAARLRAVDFAERHGYIKGIVKDIIHD
PGRGAPLAKVVFRDPYRFKKRTELFIAAEGIHTGQFVYCGKKAQLNIGNV
LPVGTMPEGTIVCCLEEKPGDRGKLARASGNYATVISHNPETKKTRVKLP
SGSKKVISSANRAVVGVVAGGGRIDKPILKAGRAYHKYKAKRNCWPRVRG
VAMNPVEHPFGGGNHQHIGKPSTIRRDAPAGRKVGLIAARRTGRLRGTKT
V
Ligand information
>8g61 Chain L5 (length=3657) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggagaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccgcggcggggcgcgggacau
guggcguacggaagacccgcuccccggcgccgcucguggggggcccaagu
ccuucugaucgaggcccagcccguggacggugugaggccgguagcggccc
ccggcgcgccgggcccgggucuucccggagucggguugcuugggaaugca
gcccaaagcgggugguaaacuccaucuaaggcuaaauaccggcacgagac
cgauagucaacaaguaccguaagggaaaguugaaaagaacuuugaagaga
gaguucaagagggcgugaaaccguuaagagguaaacgggugggguccgcg
caguccgcccggaggauucaacccggcggcggguccggccgugucggcgc
ggcggaucuuucccgcgggggaccgucccccgaccggcgaccggccgccg
ccgggcgcauuuccaccgcggcggugcgccgcgaccggcuccgggacggc
ugggaaggcccggcggggaagguggcucgggggccccgaguguuacagcc
cccccggcagcagcacucgccgaaucccggggccgagggagcgagacccg
ucgccgcgcucuccccccugggggggccgggccaccccucccacggcgcg
accgcucggggcggacuguccccagugcgccccgggcgggucgcgccguc
gggcccggggggccacgcgcgcgucccccgaagagggggacggcggagcg
agcgcacggggucggcggcgacgucggcuacccacccgacccgucuugaa
acacggaccaaggagucuaacacgugcgcgagucgggggcucgcacgaaa
gccgccguggcgcaaugaaggugaaggccggcgcgcucgccggccgaggu
gggaucccgaggccucuccaguccgccgagggcgcaccaccggcccgucu
cgcccgccgcgccggggagguggagcacgagcgcacguguuaggacccga
aagauggugaacuaugccugggcagggcgaagccagaggaaacucuggug
gagguccguagcgguccugacgugcaaaucggucguccgaccuggguaua
ggggcgaaagacuaaucgaaccaucuaguagcugguucccuccgaaguuu
cccucaggauagcuggcgcucucgcagacccgaacgcaguuuuauccggu
aaagcgaaugauuagaggucuuggggccgaaacgaucucaaccuauucuc
aaacuuuaaauggguaagaagcccggcucgcuggcguggagccgggcgug
gaaugcgagugccuagugggccacuuuugguaagcagaacuggcgcugcg
ggaugaaccgaacgccggguuaaggcgcccgaugccgacgcucaucagac
cccagaaaagguguugguugauauagacagcaggacgguggccauggaag
ucggaauccgcuaaggaguguguaacaacucaccugccgaaucaacuagc
ccugaaaauggauggcgcuggagcgucgggcccauacccggccgucgccg
gcagucgagaguggacgggagcggccccgcggacgcuacgccgcgacgag
uaggagggccgcugcggugagccuugaagccuagggcgcgggcccgggug
gagccgccgcaggugcagaucuuggugguaguagcaaauauucaaacgag
aacuuugaaggccgaaguggagaaggguuccaugugaacagcaguugaac
augggucagucgguccugagagaugggcgagcgccguuccgaagggacgg
gcgauggccuccguugcccucggccgaucgaaagggagucggguucagau
ccccgaauccggagcggagaugggcgccgcgaggcguccagugcgguaac
gcgaccgaucccggagaagccggcgggagccccggggagaguucucuuuu
cuuugugaagggcagggcgcccuggaauggguucgccccgagagaggggc
ccgugccuuggaaagcgucgcgguuccggcggcguccggugagcucucgc
uggcccuugaaaauccgggggagaggguguaaaucucgcgccgggccgua
cccauauccgcagcaggucuccaaggugaacagccucuggcauguuggaa
caauguagguaagggaagucggcaagccggauccguaacuucgggauaag
gauuggcucuaagggcugguagcagccgacuuagaacuggugcggaccag
gggaauccgacuguuuaauuaaaacaaagcaucgcgaaggcccgcggcgg
guguugacgcgaugugauuucugcccagugcucugaaugucaaagugaag
aaauucaaugaagcgcggguaaacggcgggaguaacuaugacucucuuaa
gguagccaaaugccucgucaucuaauuagugacgcgcaugaauggaugaa
cgagauucccacugucccuaccuacuauccagcgaaaccacagccaaggg
aacgggcuuggcggaaucagcggggaaagaagacccuguugagcuugacu
cuagucuggcacggugaagagacaugagagguguagaauaagugggaggc
ccgggccgccggugaaauaccacuacucugaucguuuuuucacugacccg
gugaggcgggggggcgagccccgaggggcucucgcuucuggcgccaagcg
cccggccgcgcgccggccgggcgcgacccgcuccggggacagugccaggu
ggggaguuugacuggggcgguacaccugucaaacgguaacgcaggugucc
uaaggcgagcucagggaggacagaaaccucccguggagcagaagggcaaa
agcucgcuugaucuugauuuucaguacgaauacagaccgugaaagcgggg
ccucacgauccuucugaccuuuuggguuuuaagcaggaggugucagaaaa
guuaccacagggauaacuggcuuguggcggccaagcguucauagcgacgu
cgcuuuuugauccuucgaugucggcucuuccuaucauugugaagcagaau
ucaccaagcguuggauuguucacccacuaauagggaacgugagcuggguu
uagaccgucgugagacagguuaguuuuacccuacugaugauguguuguug
ccaugguaauccugcucaguacgagaggaaccgcagguucagacauuugg
uguaugugcuuggcugaggagccaauggggcgaagcuaccaucuguggga
uuaugacugaacgccucuaagucagaaucccgcccaggcggaacgauacg
gcagcgccgcggagccucgguuggccucggauagccggucccccgccggg
guccggugcggagugcccuucguccugggaaacggggcgcggccggagag
gcggccgcccccucgcccgucacgcaccgcacguucguggggaaccuggc
gcuaaaccauucguagacgaccugcuucugggucgggguuucguacguag
cagagcagcucccucgcugcgaucuauugaaagucagcccucgacacaag
gguuugu
.........................<<<<<<.....<......>......
>>>>>.>.........<<....>>..<<<<<<.....<<.....>>....
>>>>>>..<<<..<<<<<...<<<<<<<<<<<...>>>>>>>.>>>>...
..>>>>>..<<<<<<<<<<...<<<<<<<<.<......<<<<<<<<....
<<<<......>>>>.....((......<<<.....))>>>...>.>>>>>
>>..>>>>>>>>>..>>>>>>>>>>.......<<<<<<<........>>>
>>>>.....<<<<<..((((((>>>>>..>>>..................
................<<....>>...............<<<<....>>>
>..................................<<<<<<<<..<<<.<
<...<<<<<<<<.<<<.....<<<<<<<<<<<..<<<<<<<.<<<<<...
<<<<<.<<<..<<<..>>>>>>>>>>>..>>>>>>>>>...>>>>>>>>>
>>>>>......>>>.>>>.>>>>>...<<<<<<<.<<<<<<<<<<<<<<<
...<<..<<<.<<.<<<<......<<<<<<<<.>>>>>>>>.......>>
>>>>.>>>........>>>>>>..>>>>>>>>>>>...............
.....<<<<<<.<<<<<<..>>>>>>.<<<<<<.<<<<.<<<<<<<<<<<
<<<<<<<<<<<<<.<<<<....>>>>.>>>>>>>>>>>.>>>>>>>>>>.
>>>...>>>>>>>>.>>..<<<<<<<<<<.....>>>>>>>>.>>....>
>>>>>......>>.>>>>>...>>>>>...>>>>>>>>..<<<<......
..>>>><<<<<<...<<<<<<<<<<<<<<..<<<...<<<<........>
>>>.....>>>...<<....>>...<<<<<<<<....>>>>>>>>..<<<
<<...<<<..<<<..((((.((((>>>..>>>....>>>>>.<<<<<<<<
<.<<<<......>>>>>>>>>>>.>>....>>>>>>>>>>>>>>.<<.<.
.<<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>>>>>>>.
....>>>...<<<..<<.<<........>>>>.>>>....>>>>>>>>>.
..<<.......>>......>>>>>>...>..>.>>..<<<<<<....<.<
<<....>>>.><<.<<<<<<<..............<<<.<<<<<<<<<..
.<<<....<<<..<.<<<..<<<<<<.<<...>>.>>>>>>>>>.>..>>
>..>.>>...>>>>>>>...<<<<<<<<<.<......>>>>>>>>>>...
.>>>>>>>>>>>>..>>..<<<<.<<<<<.....>>>>>.>>>>....<<
<......>>>...<<<<<<<...<<<(((.......<<<<<.....<<..
........<<<.<<<<<<<<<<.......<<<<<.<<<...<<.......
..>>...>>>.........<<......>>...>>>>>...>>>>>>>>>>
>>>..........))).>>...>>>>>..>>>...>>>>>>><<<<<<.<
<<..........)))).))))..................>>>>>>>>>..
..>>>>>>...<<<<<<<<.<<......<<<<.<<<<....>>>>>>>>.
..>>>>>>>>>>........>>>>>><<.....<<.....<<<<<<....
...>>>>>>.<<<.....<<<<<.<<...<<<<<<...<<.....>>.>>
>>>>....((<<<<<<...<<....<<<....>>>..........<<.<<
<<<<<.<....>>>>>>>>>>......>>....>>>..<<<<<.......
.>>>>>))<<<<.<<<<<..<<<<<<<<....>>>>>>>>..<<<....>
>>...<..<<<<<<<...<<<<<<<<<<<<.<<<<<<<<<<..[[[..>>
>>>>....<<<<<.<<<<.<<<<.....<<<.....>>>.....>>>>>>
>>..>>>>>.....<<<<<<<.......>>>>>>>>>>>...>>>>>>>>
>>>>.........>>>>>>>..>..........>>.>>>.>>>>.>>>..
>>.....<<......>>>>>>>.<<<<.....>>>>..>>>....<<<<.
....<<<<<<<.<<.........<.....<<<<<....<....>.....>
>>>><<.<<<<<<<<<<<....>>>>>..>>>>>>.>>............
<<<<<<<<<..<<<.........>>>..<<<<<<<....<<<<.....>>
>>......>>>>>>>...<<..<<<..<<<<<<....<<<.....<<<<.
...>>>>.....>>>.>>>>..>>>>><<<<<<.......>>>>>>....
....<...........<<<<<.......>>>>>.....>.....>>....
>>.>>>>>>>..>..>>.>>>>>>>..>>>>>>....>>....<<<<<..
......>>>>>....<<<<<..<<<.<<......<<<<.<<<<<<..<<<
<<.<<<<<<<<<.<<<<<<<<<<<<.<<<<..........<<<<<.....
...................>>>>>.>>>>.>>.>>>>>>>>>>...<<<<
<.....<<<<.....<<<<<......>>>>>................<<<
<<<<<<<<.....>>>>>>>>>>>..>>>>..>>>>>....>>>>>>>>>
..>>>>>...<<<.....>>>..<<<<<<...........>>>>>>..<<
...<<<<<<<...<<<<<<.......>>>>>>.....<<.[.(((>>...
.>>>>>>>...<<<..<<<<.......>>>>..>>><<<<....>>>>>>
)))].....<<<<<<<..<<<..)))))).>>>>>>>>>>.........>
>>>..>>>>>>.......<<.<.<.<<<<<<...<<.......>>...>>
>>>>...>>.>.>.......<<<<<.<<<<<<..<.<.<<<<<......>
>>>>...>.>.<<<.........>>>.....>>>>>..>...>>>.>>..
..<<<<<<<....>>>.>>>>....>>..>>>.>>>>>.....<<<<<<.
<..<<<..<.<<<<<.................>>>>>.><<<<....<<<
<....<<.<<<<<<<]]].>>>>>..>>.>>...>>>>...>>>><<<<<
...<<<<<...........>>>>>...>>>>>.>>>...>.>>>>>>...
..<<<<<<<.<<..<<<<....<<<........<<<<<.<<<<....>>>
>.>>>>>.......>>>...<<<..<<<<....<<<<.<<<<<<<.....
.>>>>>>>>>>>...>>>>..>>>..............>>>>..>>>>>>
>>><<<<<.<.............>....<<.<<<<<<<.<<.....<<<<
.<..<<<<<......>>>>>..>>>>>....>>....>>>>.>>>.>>..
>>>>>..
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB8g61 mRNA decoding in human is kinetically and structurally distinct from bacteria.
Resolution2.94 Å
Binding residue
(original residue number in PDB)
G2 R3 V4 G7 Q8 R9 K10 G11 S14 V15 R17 A18 H19 V20 K21 H22 R23 K24 G25 F34 R37 H38 Y40 I44 H50 P52 R54 R64 Y67 R68 F69 K70 K71 R72 G85 F87 Y89 K93 A94 Q95 E118 D122 R123 K125 L126 A127 R128 A129 S130 G131 N132 K145 L150 P151 S152 S154 R174 I175 K177 P178 I179 L180 K181 A182 G183 Y186 H187 K188 K190 K192 R193 N194 W196 P197 R198 V199 R200 G201 V202 A203 M204 N205 P206 V207 E208 G213 G214 N215 X216 Q217 H218 G220 K221 P222 S223 T224 I225 R226 R227 D228 P230 A231 G232 R233 K234 V235 G236 L237 I238 A239 A240 R241 R242 T243 G244 R245 L246
Binding residue
(residue number reindexed from 1)
G1 R2 V3 G6 Q7 R8 K9 G10 S13 V14 R16 A17 H18 V19 K20 H21 R22 K23 G24 F33 R36 H37 Y39 I43 H49 P51 R53 R63 Y66 R67 F68 K69 K70 R71 G84 F86 Y88 K92 A93 Q94 E117 D121 R122 K124 L125 A126 R127 A128 S129 G130 N131 K144 L149 P150 S151 S153 R173 I174 K176 P177 I178 L179 K180 A181 G182 Y185 H186 K187 K189 K191 R192 N193 W195 P196 R197 V198 R199 G200 V201 A202 M203 N204 P205 V206 E207 G212 G213 N214 X215 Q216 H217 G219 K220 P221 S222 T223 I224 R225 R226 D227 P229 A230 G231 R232 K233 V234 G235 L236 I237 A238 A239 R240 R241 T242 G243 R244 L245
Gene Ontology
--> -->
 
 
UnboundLocalError
Python 3.6.8: /usr/bin/python3
Fri Nov 15 15:34:29 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 = '8g61', asym_id = 'LA', bs = 'BS02', title = 'mRNA decoding in human is kinetically and structurally distinct from bacteria.'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='8g61', asym_id='LA', bs='BS02', title='mRNA decoding in human is kinetically and structurally distinct from bacteria.')
   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 = '0003723,0003735,0005840,0006412,0015934', uniprot = '', pdbid = '8g61', asym_id = 'LA'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003723,0003735,0005840,0006412,0015934', uniprot='', pdbid='8g61', asym_id='LA')
    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>