Structure of PDB 8evp Chain AC Binding Site BS01

Receptor Information
>8evp Chain AC (length=361) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SRPQVTVHSLTGEATANALPLPAVFSAPIRPDIVHTVFTSVNKNKRQAYA
VSEKAGHQTSAESWGTGRAVARIPRVGGGGTGRSGQGAFGNMCRGGRMFA
PTKTWRKWNVKVNHNEKRYATASAIAATAVASLVLARGHRVEKIPEIPLV
VSTDLESIQKTKEAVAALKAVGAHSDLLKVLKSKKLRAGKGKYRNRRWTQ
RRGPLVVYAEDNGIVKALRNVPGVETANVASLNLLQLAPGAHLGRFVIWT
EAAFTKLDQVWGSETVASSKVGYTLPSHIISTSDVTRIINSSEIQSAIRP
AGQATQKRTHVLKKNPLKNKQVLLRLNPYAKVFAAEKLGSKKAEKTGTKP
AAVFTETLKHD
Ligand information
>8evp Chain A1 (length=3198) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaggccagcaucag
uuuugguggcaggauaaauccauaggaauguagcuugccucgguaaguau
uauagccugugggaauacugccagcugggacugaggacugcgacguaagu
caaggaugcuggcauaaugguuauaugccgcccgucuugaaacacggacc
aaggagucuaacgucuaugcgaguguuuggguguaaaacccauacgcgua
augaaagugaacguagguuggggccucgcaagaggugcacaaucgaccga
uccugaugucuucggauggauuugaguaagagcauagcuguugggacccg
aaagauggugaacuaugccugaauagggugaagccagaggaaacucuggu
ggaggcucguagcgguucugacgugcaaaucgaucgucgaauuuggguau
aggggcgaaagacuaaucgaaccaucuaguagcugguuccugccgaaguu
ucccucaggauagcagaagcucguaucaguuuuaugagguaaagcgaaug
auuagagguuccggggucaccuugaccuauucucaaacuuuaaauaugua
agaaguccuuguuacuuaauugaacguggacauuugaaugaagagcuuuu
agugggccauuuuugguaagcagaacuggcgaugcgggaugaaccgaacg
uagaguuaaggugccggaauacacgcucaucagacaccacaaaagguguu
aguucaucuagacagccggacgguggccauggaagucggaauccgcuaag
gaguguguaacaacucaccggccgaaugaacuagcccugaaaauggaugg
cgcucaagcguguuaccuauacucuaccgucaggguugauaugaugcccu
gacgaguaggcaggcguggaggucagugacgaagccuagaccguaagguc
gggucgaacggccucuagugcagaucuuggugguaguagcaaauauucaa
augagaacuuugaagacugaaguggggaaagguuccacgucaacagcagu
uggacguggguuagucgauccuaagagauggggaagcuccguuucaaagg
ccugauuuuaugcaggccaccaucgaaagggaauccgguuaagauuccgg
aaccuggauauggauucuucacgguaacguaacugaauguggagacgucg
gcgcgagcccugggaggaguuaucuuuucuucuuaacagcuuaucacccc
ggaauugguuuauccggagauggggucuuauggcuggaagaggccagcac
cuuugcuggcuccggugcgcuugugacggcccgugaaaauccacaggaag
gaauaguuuucaugccaggucguacugauaaccgcagcaggucuccaagg
ugaacagccucuaguugauagaauaauguagauaagggaagucggcaaaa
uagauccguaacuucgggauaaggauuggcucuaagggucggguacgauc
aacuuagaacugguacggacaaggggaaucugacugucuaauuaaaacau
agcauugcgauggucagaaagugauguugacgcaaugugauuucugccca
gugcucugaaugucaaagugaagaaauucaaccaagcgcggguaaacggc
gggaguaacuaugacucucuuaagguagccaaaugccucgucaucuaauu
agugacgcgcaugaauggauuaacgagauucccacugucccuaucuacua
ucuagcgaaaccacagccaagggaacgggcuuggcagaaucagcggggaa
agaagacccuguugagcuugacucuaguuugacauugugaagagacauag
aggguguagaauaagugggagcuucggcgccagugaaauaccacuaccuu
uauaguuucuuuacuuauucaaugaagcggagcuggaauucauuuuccac
guucuagcauucaaggucccauucggggcugauccggguugaagacauug
ucagguggggaguuuggcuggggcggcacaucuguuaaacgauaacgcag
auguccuaaggggggcucauggagaacagaaaucuccaguagaacaaaag
gguaaaagcccccuugauuuugauuuucagugugaauacaaaccaugaaa
guguggccuaucgauccuuuagucccucggaauuugaggcuagaggugcc
agaaaaguuaccacagggauaacuggcuuguggcagucaagcguucauag
cgacauugcuuuuugauucuucgaugucggcucuuccuaucauaccgaag
cagaauucgguaagcguuggauuguucacccacuaauagggaacgugagc
uggguuuagaccgucgugagacagguuaguuuuacccuacugaugaaugu
uaccgcaauaguaauugaacuuaguacgagaggaacaguucauucggaua
auugguuuuugcggcugucugaucaggcauugccgcgaagcuaccauccg
cuggauuauggcugaacgccucuaagucagaauccaugcuagaacgcggu
gauuucuuugcuccacacaauauagauggauacgaauaaggcguccuugu
ggcgucgcugaaccauagcaggcuagcaacggugcacuuggcggaaaggc
cuugggugcuugcuggcgaauugcaaugucauuuugcguggggauaaauc
auuuguauacgacuuagauguacaacgggguauuguaagcaguagaguag
ccuuguuguuacgaucugcugagauuaagccuuuguugucugauuugu
........................<<<<<<.....<......>......>
>>>>.>.........<<....>>..<<<<<......<<.....>>.....
>>>>>..<<<...<.......<<.<<<<<<...>>>>>>.>>.......>
.....<<<<<<<.<<<<<<.<<..<<<<<<<<<<....<<<<......>>
>>.(.......<<<......)>>>..>.>>>>>>>>>....>>>>.....
>>>>>>>>>>>........<<<<<<<........>>>>>>>.....<<<<
<..((((((>>>>>..>>>...............................
...<<....>>...............<<<<....>>>>............
......................<<<<<.<<<<<......<<<<<<<.<<<
<<<<<<<<<<<<.....<<<<<<<<<....<.<<<<........>>>>>.
.....>>>>>>>.>.>.>>>>>.>>>>>>>>>>........<<<....>>
>.....>>>>>>>.....>>>>>.>>>>>..<<<<........>>>><<<
<<<....<<<<<<.<<<<<<..<<<...<<<<.....>>>>...>>>...
<<....>>.......<<<<<..<<<<<....>>>>>...>>>>>.<<<<<
<<<...<<....>>...>>>.>>>.>>....>>>>>>.>>>>>>..<<.<
..<<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>>>>>>>
.....>>>...<<<..<<.<<........>>>>.>>>....>>>>>>>>>
...<<.......>>......>>>>>>...>..>.>>..<<<<<<....<.
<<<....>>>.><<<<<<<<<<....<<.<<<<<<<.....<<<....<<
<....<<<<...............>>>>....>>>..>.>>.....>>>>
>...<<<<.<<<<.<......>>>>>.>>>>.....>>>>..>>>>>>>>
.>>..<<<<.<<<<<.....>>>>>.>>>>....<<<......>>>...<
<<<<<<..<<<<(((.....<<<<<<.....<<..........<<<.<<<
<<<<<<<.......<.<<<.......<<.........>>...........
....<<......>>...>>>.>...>>>>>>>>>>>>>..........))
).>>...>>>>>>.>>>>..>>>>>>><<<<<<<<<.........>>>>>
>>>>....>>>>>><.<<<<<<<<.<<......<<<<.<<<<....>>>>
>>>>...>>>>>>>>>>..>.....>>>>>><<.....<<.....<<<<<
<.......>>>>>><<<<.....<<<<<.<<...<<<<<<...<<.....
>>.>>>>>>....((<<<<<<...<<....<<<....>>>.........<
<<<..........>>>>.....>>....>>...<<<<<........>>>>
>))<<<<.<<<<<<......<<<....>>>.......<<<<<<...<<<<
.<<<<<<<.<<<<<<<<<<..[[[..>>>>>><...<<<<<....<<<<<
<....<<<.....>>>....>>>>>>.....>>>>>....><<<<<<<..
....>>>>>>>>>>>...>>>>>>>.>>>>.........>>>>>>.....
.......>>.>>>>>>>>>>>>..>>.....<<......>>>>>>>.<<<
<.....>>>>..>>>>..<<<<.....<<<<<<<.<<.............
..<<<<<....<....>.....>>>>><<.<<<<<<<<<<......>>>>
..>>>>>>.>>............<<<<<<<<<..<<<.........>>>.
.<<<<<<<....<<<<.....>>>>......>>>>>>>...<<..<<<..
<<<<<<....<<<.....<<<<....>>>>.....>>>.>>>>..>>>>>
<<<<<<.......>>>>>>........<...........<<<<<......
.>>>>>.....>.....>>....>>.>>>>>>>.....>>.>>>>>>>..
>>>>>>....>>....<<<<<........>>>>>....<<<<<..<<<.<
<......<<<<.<<<<<<..<<<<<.<<<<<<<<..<<<<<<<.<<.<<<
.<<<..........<<..........................>>..>>>>
>>..>>.>>>>>>>...<<<<<.....<<<<..<<<<<......>>>>>.
..............<<<<<<....>>>>>>..>>>>..>>>>>.....>>
>>>>>>..>>>>>...<<<.....>>>..<<<<<<...........>>>>
>>..<<...<<<<<<<...<<<<<<.......>>>>>>.....<<...((
(>>....>>>>>>>...<<<.<<<<<.......>>>>.>>>>.<<<....
>>>.>>)))......<<<<<<<..<<<<.))))))>>>>>>>>>>>....
.....>>>>..>>>>>>.......<<.<.<.<<<<<<...<<.......>
>...>>>>>>...>>.>.>.......<<<<<.<<<<<<..<.<<<<<<<.
.....>>>>>>>...>.<<<.........>>>.....>>>>>..>...>>
>.>>....<<<<<<<....>>>.>>>>....>>..>>>.>>>>>....<<
<<<<<<..<<<<...<<<<<<...............>>>>>>..<<<<<.
..<<<<<...<<<<<<<<<<]]].>>>>>..>>>>>..>>>>>..>>>>>
.<<<<...<<<<<...........>>>>>...>>>>.>>>>....>>>>>
>>>.......<<<<<<.<<<.<<....<<..........<<<<<<.....
>>>>>>......>>.......<<<<<<...<<<<<.<..<<<......>>
>..>.>>>>>.>>>>>>.............>>.>>>.>>>>>>..<<<<<
.<.............>.....<<<<<<<<<.<<<....<<<<.<..<<<<
<......>>>>>..>>>>>...>>>....>>>>.>>>>>..>>>>>..
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8evp Regulation of translation by ribosomal RNA pseudouridylation.
Resolution2.38 Å
Binding residue
(original residue number in PDB)		R31 I34 H36 T40 N43 K44 N45 K46 R47 Q48 Y50 V52 S53 E54 A56 H58 Q59 T60 S61 S64 T67 G68 A70 V71 A72 R73 I74 P75 R76 G80 G81 T82 R84 Q87 G88 N92 M93 C94 R95 G96 R98 M99 F100 A101 K104 W106 R107 K108 K112 V113 N114 H115 N116 E117 K118 R119 R138 G139 R141 K161 T162 K180 K183 S184 K186 L187 R188 A189 G190 K191 K193 Y194 R195 N196 R197 W199 R202 R203 Y209 K217 R220 N221 P223 T227 A228 A231 S232 N234 P240 G241 H243 K271 V272 N291 R300 A302 G303 Q304 A305 Q307 K308 R309 H311 V312 L313 K315 K319 N320 K321 Q322 R326 A331 K332 F334 A335 G340 S341 K342 K343 A344 T347 T349 P351 F355 L359
Binding residue
(residue number reindexed from 1)		R30 I33 H35 T39 N42 K43 N44 K45 R46 Q47 Y49 V51 S52 E53 A55 H57 Q58 T59 S60 S63 T66 G67 A69 V70 A71 R72 I73 P74 R75 G79 G80 T81 R83 Q86 G87 N91 M92 C93 R94 G95 R97 M98 F99 A100 K103 W105 R106 K107 K111 V112 N113 H114 N115 E116 K117 R118 R137 G138 R140 K160 T161 K179 K182 S183 K185 L186 R187 A188 G189 K190 K192 Y193 R194 N195 R196 W198 R201 R202 Y208 K216 R219 N220 P222 T226 A227 A230 S231 N233 P239 G240 H242 K270 V271 N290 R299 A301 G302 Q303 A304 Q306 K307 R308 H310 V311 L312 K314 K318 N319 K320 Q321 R325 A330 K331 F333 A334 G339 S340 K341 K342 A343 T346 T348 P350 F354 L358
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
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UnboundLocalError		Python 3.6.8: /usr/bin/python3
Sat Mar 1 14:41:37 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 = '8evp', asym_id = 'AC', bs = 'BS01', title = 'Regulation of translation by ribosomal RNA pseudouridylation.'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='8evp', asym_id='AC', bs='BS01', title='Regulation of translation by ribosomal RNA pseudouridylation.')
   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 = '8evp', asym_id = 'AC'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005840,0006412', uniprot='', pdbid='8evp', asym_id='AC')
    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>