Structure of PDB 7osm Chain uL2 Binding Site BS01

Receptor Information
>7osm Chain uL2 (length=252) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GRVIRNQRKGAGSIFTSHTRLRQGAAKLRTLDYAERHGYIRGIVKQIVHD
SGRGAPLAKVVFRDPYKYRLREEIFIANEGVHTGQFIYAGKKASLNVGNV
LPLGSVPEGTIVSNVEEKPGDRGALARASGNYVIIIGHNPDENKTRVRLP
SGAKKVISSDARGVIGVIAGGGRVDKPLLKAGRAFHKYRLKRNSWPKTRG
VAMNPVDHPHGGGNHQHIGKASTISRGAVSGQKAGLIAARRTGLLRGSQK
TQ
Ligand information
>7osm Chain 25S (length=3162) [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
cgugaaauuguugaaagggaagggcauuugaucacacugggccagcauca
guuuugguggcaggauaaauccauaggaauguagcuugccucgguaagua
uuauagccugugggaauacugccagcugggacugaggacugcgacguaag
ucaaggaugcuggcaaugguuauaugccgcccgucuugaaacacggacca
aggagucuaacgucuaugcgaguguuuggguguaaaacccauacgcguaa
ugaaagugaacguagguuggggccucgcaagaggugcacaaucgaccgau
ccugaugucuucggauggauuugaguaagagcauagcuguugggacccga
aagauggugaacuaugccugaauagggugaagccagaggaaacucuggug
gaggcucguagcgguucugacgugcaaaucgaucgucgaauuuggguaua
ggggcgaaagacuaaucgaaccaucuaguagcugguuccugccgaaguuu
cccucaggauagcagaagcucguaucaguuuuaugagguaaagcgaauga
uuagagguuccggggugaccuugaccuauucucaaacuuuaaauauguaa
gaaguccuuguuacuuaauugaacguggacauuugaaugaagagcuuuua
gugggccauuuuugguaagcagaacuggcgaugcgggaugaaccgaacgu
agaguuaaggugccggaauacacgcucaucagacaccacaaaagguguua
guucaucuagacagccggacgguggccauggaagucggaauccgcuaagg
aguguguaacaacucaccggccgaaugaacuagcccugaaaauggauggc
gcucaagcguguuaccuauacucuaccgucaggguugauaugaugcccug
acgaguaggcaggcguggaggucagugacgaagccuagaccguaaggucg
ggucgaacggccucuagugcagaucuuggugguaguagcaaauauucaaa
ugagaacuuugaagacugaaguggggaaagguuccacgucaacagcaguu
ggacguggguuagucgauccuaagagauggggaagcuccguuucaaaggc
cugauuuuaugcaggccaccaucgaaagggaauccgguuaagauuccgga
accuggauauggauucuucacgguaacguaacugaauguggagacgucgg
cgcgagcccugggaggaguuaucuuuucuucuuaacagcuuaucaccccg
gaauugguuuauccggagauggggucuuauggcuggaagaggccagcacc
uuugcuggcuccggugcgcuugugacggcccgugaaaauccacaggaagg
aauaguuuucaugccaggucguacugauaaccgcagcaggucuccaaggu
gaacagccucuaguugauagaauaauguagauaagggaagucggcaaaau
agauccguaacuucgggauaaggauuggcucuaagggucgaacgaucaac
uuagaacugguacggacaaggggaaucugacugucuaauuaaaacauagc
auugcgauggucagaaagugauguugacgcaaugugauuucugcccagug
cucugaaugucaaagugaagaaauucaaccaagcgcggguaaacggcggg
aguaacuaugacucucuuaagguagccaaaugccucgucaucuaauuagu
gacgcgcaugaauggauuaacgagauucccacugucccuaucuacuaucu
agcgaaaccacagccaagggaacgggcuuggcagaaucagcggggaaaga
agacccuguugagcuugacucuaguuugacauugugaagagacauagagg
guaguggaaauuaccucuauguuucuuuacuuauucaaugaagcggagcu
ggaauucauuuuccacguucuagcauucaaggucccauucggggcugauc
cggguugaagacauugucagguggggaguuuggcuggggcggcacaucug
uuaaacgauaacgcagauguccuaaggggggcucauggagaacagaaauc
uccaguagaacaaaaggguaaaagcccccuugauuuugauuuucagugug
aauacaaaccaugaaaguguggccuaucgauccuuuagucccucggaauu
ugaggcuagaggugccagaaaaguuaccacagggauaacuggcuuguggc
agucaagcguucauagcgacauugcuuuuugauucuucgaugucggcucu
uccuaucauaccgaagcagaauucgguaagcguuggauuguucacccacu
aauagggaacgugagcuggguuuagaccgucgugagacagguuaguuuua
cccuacugaugaauguuaccgcaauaguaauugaacuuaguacgagagga
acaguucauucggauaauugguuuuugcggcugucugaucaggcauugcc
gcgaagcuaccauccgcuggauuauggcugaacgccucuaagucagaauc
caugcuagaacgcggugauuucuuugcuccacacaauauagauggauacg
aauaaggcguccuuguggcgucgcugaaccauagcaggcuagcaacggug
cacuuggcggaaaggccuugggugcuugcuggcgaauugcaaugucauuu
ugcguggggauaaaucauuuguauacgacuuagauguacaacgggguauu
guaagcaguagaguagccuugguuacgaucugcugagauuaagccuuugu
ugucugauuugu
........................<<<<<<.....<......>......>
>>>>.>...{.....<<....>>...<<<<......<<.....>>.....
>>>>...[[[...........<<.<<<<<<...>>>>>>.>>........
.....<<<<<<<.<<<<<<<<<<<<<<<<<<<<.....<<<<......>>
>>.(.......<<<......)>>>....>>>>>>>>..>>>>>>>>....
>>>>>>>>>>>........<<<<<<<........>>>>>>>.....((((
(..<<<<<<)))))..]]]....}..........................
...<<....>>...............<<<<....>>>>............
......................<<<<<.<<<<<.......<<<<<<<<<<
<<<<<<<<<<<<<.....<<<<<<<<<....<.<<<<<<....>>>>>>>
......>>>>>>>.>.>.>>>>>.>>>>>>>>>>........<<<....>
>>....>>>>>>>>...>>>>>.>>>>>..<<<<........>>>><<<<
<<...<<<<<<<.<<<<<<..<<<...<<<<.....>>>>...>>>...<
<....>>.......<<<<<..<<<<<....>>>>>...>>>>>.<<<<<<
<<...<......>...>>>.>>>.>>....>>>>>>.>>>>>>>.<<.<.
.<<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>>>>>>>.
....>>>...<<<..<<.<<........>>>>.>>>....>>>>>>>>>.
..<<.......>>......>>>>>>...>..>.>>..<<<<<<....<.<
<<....>>>.><<<<<<<<<<...<<<.<<<<<<<.....<<<....<<<
....<<<.................>>>....>>>..>.>>.....>>>>>
...<<<<.<<<<.<......>>>>>.>>>>.....>>>>>.>>>>>>>>.
>>..<<<<.<<<<<.....>>>>>.>>>>....<<<......>>>...<<
<<<<<..<<<<(((.....<<<<<<.....<<..........<<<.<<<<
<<<<<<.......<<<<<.<<....<<.........>>....>>......
...<<......>>...>>>>>...>>>>>>>>>>>>>..........)))
.>>...>>>>>>.>>>>..>>>>>>><<<<<<<<<.........>>>>>>
>>>....>>>>>><.<<<<<<<..<<......<<<<.<<<<....>>>>>
>>>...>>.>>>>>>>..>.....>>>>>><<.....<<.....<<<<<<
.......>>>>>><<<<.....<<<<<.<<...<<<<<<...<<.....>
>.>>>>>>....((<<<<<<...<<....<<<....>>>...........
.....................>>....>>...<<<<<........>>>>>
))<<<<..<<<<<<.....<<<....>>>.......<<<<<<...<<<<.
<<<<<<<.<<<<<<<<<<..{{{..>>>>>><...<<<<<....<<<<<<
....<<<.....>>>....>>>>>>.....>>>>>....><<<<<<<<..
..>>>>>>>>>>>>...>>>>>>>.>>>>.........>>>>>>......
....>>>..>>>.>>>>>>>>..>>.....<<......>>>>>>>.<<<<
.....>>>>..>>>>..<<<<.....<<<<<<<.<<..............
.<<<<<....<....>.....>>>>><<.<<<<<<<<<<....>>>>..>
>>>>>.>>............<<<<<<<<<..<<<.........>>>..<<
<<<<<....<<<<.....>>>>......>>>>>>>...<<..<<<..<<<
<<<....<<<....<<<<<....>>>>.>...>>>.>>>>..>>>>><<<
<<<.......>>>>>>........<...........<<<<<.......>>
>>>.....>.....>>....>>.>>>>>>>.....>>.>>>>>>>..>>>
>>>....>>....<<<<<........>>>>>....[[[[[..{{{.{{..
....[[[[.{{.[[[..<<<<<.<<<<<<<<..<<<<<<<<<<<<<<<<.
..............>>>>>>>>>>>>>>>>...<<<<<.....<<<<..<
<<<........>>>>...............<<<<<<....>>>>>>..>>
>>..>>>>>.....>>>>>>>>..>>>>>...<<<.....>>>..<<<<<
<...........>>>>>>..<<...<<<<<<<...<<<<<<.......>>
>>>>.....<<...(((>>....>>>>>>>...<<<.<<<<<.......>
>>>.>>>>.<<<....>>>.>>))).......((((((..((((.>>>>>
>))))))))))..........]]]...}}]]]].......<<.<.<.<<<
<<<...<<.......>>...>>>>>>...>>.>.>.......<<<<<.<<
<<<<..<.<<<<<<<......>>>>>>>...>.<<<.........>>>..
...>>>>>..>...>>>.>>....<<<<<<<....>>>.>>>>....}}.
.}}}.]]]]]....<<<<<<<<..<<<<.<.<<<<<<.............
..>>>>>>.><<<<<...<<<<....<<<<<<<<<<}}}.>>>>>..>>>
>>...>>>>..>>>>>.<<<<...<<<<<...........>>>>>...>>
>>.>>>>....>>>>>>>>.......<<<<<<.<<<.<<....<<.....
.....<<<<<<.....>>>>>>......>>.......<<<<<<...<<<<
<.<..<<<......>>>..>.>>>>>.>>>>>>.............>>.>
>>.>>>>>>..<<<<<.<.............>.....<<<<<<<<<.<<<
....<<<<....<<<<<....>>>>>...>>>>...>>>....>>>>.>>
>>>..>>>>>..
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB7osm Accuracy mechanism of eukaryotic ribosome translocation.
Resolution3.0 Å
Binding residue
(original residue number in PDB)		G2 R3 V4 R6 N7 Q8 R9 K10 G11 A12 S14 I15 T17 S18 H19 T20 R21 L22 R23 G25 A26 Y34 R37 H38 Y40 H50 S52 R54 R64 Y67 K68 Y69 R70 T84 G85 F87 Y89 K93 S95 E118 A125 L126 A127 R128 A129 S130 N132 L150 P151 S152 K156 G173 R174 V175 K177 P178 L179 L180 K181 A182 G183 F186 H187 K188 R190 L191 K192 R193 N194 W196 P197 K198 T199 R200 G201 V202 A203 M204 N205 P206 V207 D208 H211 G213 G214 N215 H216 Q217 H218 I219 G220 K221 A222 S223 T224 I225 S226 R227 V230 S231 Q233 K234 A235 G236 L237 I238 A239 A240 R241 R242 T243 G244 L245
Binding residue
(residue number reindexed from 1)		G1 R2 V3 R5 N6 Q7 R8 K9 G10 A11 S13 I14 T16 S17 H18 T19 R20 L21 R22 G24 A25 Y33 R36 H37 Y39 H49 S51 R53 R63 Y66 K67 Y68 R69 T83 G84 F86 Y88 K92 S94 E117 A124 L125 A126 R127 A128 S129 N131 L149 P150 S151 K155 G172 R173 V174 K176 P177 L178 L179 K180 A181 G182 F185 H186 K187 R189 L190 K191 R192 N193 W195 P196 K197 T198 R199 G200 V201 A202 M203 N204 P205 V206 D207 H210 G212 G213 N214 H215 Q216 H217 I218 G219 K220 A221 S222 T223 I224 S225 R226 V229 S230 Q232 K233 A234 G235 L236 I237 A238 A239 R240 R241 T242 G243 L244
Gene Ontology
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UnboundLocalError		Python 3.6.8: /usr/bin/python3
Thu Nov 28 11:48:51 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 = '7osm', asym_id = 'uL2', bs = 'BS01', title = 'Accuracy mechanism of eukaryotic ribosome translocation.'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='7osm', asym_id='uL2', bs='BS01', title='Accuracy mechanism of eukaryotic ribosome translocation.')
   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 = '7osm', asym_id = 'uL2'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005840,0006412', uniprot='', pdbid='7osm', asym_id='uL2')
    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>