Structure of PDB 5it7 Chain 1 Binding Site BS01

Receptor Information
>5it7 Chain 1 (length=827) Species: 1177187 (Saccharomyces cerevisiae P283) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TVDQMRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEA
RFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLID
SPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPV
VVINKVDRALLELQVSKEDLYQTFARTVESVNVIVSTYADEVLGDVQVYP
ARGTVAFGSGLHGWAFTIRQFATRYAKKFGVDKAKMMDRLWGDSFFNPKT
KKWTNKDTDAEGKPLERAFNMFILDPIFRLFTAIMNFKKDEIPVLLEKLE
IVLKGEEKDLEGKALLKVVMRKFLPAADALLEMIVLHLPSPVTAQAYRAE
QLYEGPADDANCIAIKNCDPKADLMLYVSKMVPTSDKGRFYAFGRVFAGT
VKSGQKVRIQGPNYVPGKKDDLFIKAIQRVVLMMGRFVEPIDDCPAGNII
GLVGIDQFLLKTGTLTTSETAHNMKVMKFSVSPVVQVAVEVKNANDLPKL
VEGLKRLSKSDPCVLTYMSESGEHIVAGTGELHLEICLQDLEHDHAGVPL
KISPPVVAYRETVESESSQTALSKSPNKHNRIYLKAEPIDEEVSLAIENG
IINPRDDFKARARIMADDYGWDVTDARKIWCFGPDGNGPNLVIDQTKAVQ
YLHEIKDSVVAAFQWATKEGPIFGEEMRSVRVNILDVTLHADAIHRGGGQ
IIPTMRRATYAGFLLADPKIQEPVFLVEIQCPEQAVGGIYSVLNKKRGQV
VSEEQRPGTPLFTVKAYLPVNESFGFTGELRQATGGQAFPQMVFDHWSTL
GSDPLDPTSKAGEIVLAARKRHGMKEE
Ligand information
>5it7 Chain 5 (length=3270) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uugaccucaaaucagguaggaauacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucuggcgucuucgacguccgaguuguaau
uugaagaaggcaacuuuguagcugguccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggaucccaguuauuugu
aaagugcuuucgacgagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaugggccagcauc
aguuuuagcgguuggauaaauccucgggaauguggcucugcuucgguaga
guguuauagcccgugggaauacagccagcugggacugaggauugcgacuu
uugucaaggaugcuggcguaaugguuaaaugccgcccgucuugaaacacg
gaccaaggagucuaacgucuaugcgaguguuuggguguaaaacccguacg
cguaaugaaagugaacguaggugagggcccgcaagggugcaucaucgacc
gauccugaugucuucggauggauuugaguaagagcauagcuguugggacc
cgaaagauggugaacuaugccugaauagggugaagccagaggaaacucug
guggaggcucguagcgguucugacgugcaaaucgaucgucgaauuugggu
auaggggcgaaagacuaaucgaaccaucuaguagcugguuccugccgaag
uuucccucaggauagcagaagcucguaucaguuuuaugagguaaagcgaa
ugauuagagguaccgggguugaaaugaccuugaccuauucucaaacuuua
aauauguaagaaguccuuguugcuuaauugaacguggacauuugaaugaa
gagcuuuuagugggccauuuuugguaagcagaacuggcgaugcgggauga
accgaacguggaguuaaggugccggaauacacgcucaucagacaccacaa
aagguguuaguucaucuagacagccggacgguggccauggaagucggaau
ccgcuaaggaguguguaacaacucaccggccgaaugaacuagcccugaaa
auggauggcgcucaagcguguuaccuauacuccaccgucaggguuaauau
gaugcccugacgaguaggcaggcguggaggucagugacgaagccuaggcu
guaaagcuggguagaacggccucuagugcagaucuuggugguaguagcaa
auauucaaaugagaacuuugaagacugaaguggggaaagguuccacguca
acagcaguuggacguggguuagucgauccuaagagauggggaagcuccgu
uucaaaggccuaauuuucuaggccaccaucgaaagggaauccgguuaaua
uuccggaaccuggauauggauucuucacgguaacguaacugaauguggag
acgucggcgcgagcccugggaggaguuaucuuuucuucuuaacagcuuau
caccccggaauugguuuauccggagagggggucuuauggcuggaagagcc
cagcccuugugcuggguccggugcgcccgcgacggcccuugaaaauccac
aggaaggaauaguuuucaugccaggucguacugauaaccgcagcaggucu
ccaaggugaacagccucuaguugauagaauaauguagauaagggaagucg
gcaaaauagauccguaacuucgggauaaggauuggcucuaaggaucgggc
gugagggccuuggucagacgcggcguuguagacggccuugguaggucucu
uguagaugcugcaauuaacgaucaacuuagaacugguacggacaagggga
aucugacugucuaauuaaaacauagcauugcgauggucagaaagugaugu
ugacgcaaugugauuucugcccagugcucugaaugucaaagugaagaaau
ucaaccaagcgcggguaaacggcgggaguaacuaugacucucuuaaggua
gccaaaugccucgucaucuaauuagugacgcgcaugaauggauuaacgag
auucccacugucccuaucuacuaucuagcgaaaccacagccaagggaacg
ggcuuggcagaaucagcggggaaagaagacccuguugagcuugacucuag
uuugacauugugaagagacauagaggguguagcauaagugggagcuucgg
cgccagugaaauaccacuaccuuuauaguuucuuuacuuauucaauuaag
cggagcuggaauucauuuuccacguucuagcauucaaaguccuauacggg
cugauccggguugaagacauugucagguggggaguuuggcuggggcggca
caucuguuaaacgauaacgcagauguccuaagggggacucauggagaaca
gaaaucuccaguagaacaaaaggguaaaaguccccuugauuuugauuuuc
agugugaauacaaaccaugaaaguguggccuaucgauccuuuagguccuc
ggaauuugaggcuagaggugccagaaaaguuaccacagggauaacuggcu
uguggcagucaagcguucauagcgacauugcuuuuugauucuucgauguc
ggcucuuccuaucauaccgaagcagaauucgguaagcguuggauuguuca
cccacuaauagggaacgugagcuggguuuagaccgucgugagacagguua
guuuuacccuacugaugaauguuaucgcaauaguaauugaacuuaguacg
agaggaacaguucauucggauaauugguuuuugcggcugucugaucaggc
auugccgcgaagcuaccauccgcuggauuauggcugaacgccucuaaguc
agaauccaugcuagaacgcgaugauuucuuugccuugcacaauauagaag
gauaagaauaaggcgucuuuuuggcgucgcugaaccauagcaggcuggca
acggugcucuuagcggaaaggcuuugggugcuugccggcgaauugcaaug
ucauuuugcgcaaggauaaaucauuuguauacgacuuaaauguacaacag
gguauuguaagcaguagaguagccuuguuguuacgaucugcugagauuaa
gccuucguugucugauuugu
........................<<<<<<.....<......>......>
>>>>.>...<.....<<....>>..<<<<<......<<.....>>.....
>>>>>..<<<..<........<<.<<<<<<...>>>>>>.>>........
>....<<<<<<<.<<<<.<<<<<<<<<<<<<<<<....<<<<......>>
>>.(.......<<<......)>>>..>.>>>>>>>>..>>>>>>>.....
>>>>>>>>>>>........<<<<<<<........>>>>>>>.....<<<<
<..((((((>>>>>..>>>....>..........................
...<<....>>...............<<<<....>>>>............
......................<<<<<<<<<<<<.......<<<<<<<.<
<<<<<<<<<<<<<<.....<<<<.<<<<......<<<<<<<....>>>>>
>>.......>>>>.>>.>.>.>>>>>.>>>>>>>>>>........<<<..
..>>>.....>>>>>>>....>>>>>>>>>>>>..<<<<........>>>
><<<<<<....<<<<<<.<<<<<<..<<<..<<<<<.....>>>>>..>>
>...<<....>>.......<<<<<..<<<<....>>>>...>>>>>.<<<
<<<<<...<<....>>...>>>.>>>.>>....>>>>>>.>>>>>>..<<
.<..<<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>>>>>
>>.....>>>...<<<<.<<.<<........>>>>>>>>....>>>>>>>
>>...<<.......>>......>>>>>>...>..>.>>..<<<<<<....
<.<<<....>>>.><<<<<<<<<<...<<<.<<.<<<<.....<<<....
<<<..<.<<<<..<<<<<<<.....>>>>>>>>>>>.>..>>>..>.>>.
....>>>>>...<<<<.<<<<.<......>>>>>.>>>>......>>>>.
>>>>>>>>.>>..<<<<.<<<<<.....>>>>>.>>>>....<<<.....
.>>>...<<<<<<<..<<<<(((.....<<<<<<......<.........
.<<<.<<<<<<<<<<.......<<<<<.<<<...<<.........>>...
>>>.........<<......>>...>>>>>...>>>>>>>>>>>>>....
......))).>....>>>>>>.>>>>..>>>>>>><<<<<<<<<......
...>>>>>>>>>....>>>>>>..<<<<<<<..<<......<<<<.<<<<
....>>>>>>>>...>>.>>>>>>>........>>>>>><<.....<<..
...<<<<<<.......>>>>>><<<<.....<<<<<.<<...<<<<<<..
.<<.....>>.>>>>>>....((<<<<<<...<<....<<<....>>>..
......<<<<<<......>>>>>>....>>....>>...<<<<<......
..>>>>>))<<<<.<<<<<<<...<.<<<....>>>.......<<<<<<.
..<<<<.<<<<.<<<<<<<<<<<<<..[[[..>>>>>><...<<<<<...
.<<<<<.....<<<.....>>>.....>>>>>.....>>>>>....><<<
<<<<......>>>>>>>>>>>.>.>>.>>>>.>>>>.........>>>>>
>.....>....>>>..>>>>>>>>>>>>..>>.....<<......>>>>>
>>.<<<<.....>>>>..>>>>..<<<<.....<<<<<<<.<<.......
........<<<<<...............>>>>><<.<<<<<<<<<<....
......<<<..<<<<....<<<<..>>>>....>>>>..>>>........
...................>>>>..>>>>>>.>>............<<<<
<<<<<..<<<.........>>>..<<<<<<<....<<<<.....>>>>..
....>>>>>>>.<.<<..<<<..<<<<<<....<<<....<<<<<....>
>>>.>...>>>.>>>>..>>>>>.<<<<<.......>>>>>.........
<...........<<<<<.......>>>>>.....>.....>>.>..>>.>
>>>>>>.....>>.>>>>>>>..>>>>>>....>>....<<<<<......
..>>>>>....<<<<<..<<<.<<......<<<<.<<<<<<..<<<<<.<
<<<<<<<....<<<<.<.....<<<<..........<<<<<..<<....>
>............>>>>>.>>>>.....>>>.>>......<<<<<.....
<<<<....<<<......>>>.................<<<<<.....>>>
>>..>>>>..>>>>>.....>>>>>>>>..>>>>>...<<<.....>>>.
.<<<<<<...........>>>>>>..<<...<<<<<<<...<<<<<<...
....>>>>>>.....<<[..(((>>....>>>>>>>...<<<.<<<<<..
.....>>>>.>>>>.<<<....>>>.>>))).]....<<<<<<<..<<<<
.))))))>>>>>>>>>>>.........>>>>..>>>>>>.......<<.<
...<<<<<<...<<.......>>...>>>>>>....>.>.>.......<<
<<<..<<<<<..<.<<<<<<<......>>>>>>>...>.<<<........
.>>>.....>>>>>......>>>.>>....<<<<<<<....>>>.>>>>.
...>>..>>>.>>>>>....<<<<<<<<..<<<<...<<<<<<.......
........>>>>>>..<<<<<...<<<<....<<<<<<<<<<]]].>>>>
>..>>>>>...>>>>..>>>>>.<<<<...<<<<<...........>>>>
>...>>>>.>>>>....>>>>>>>>.......<<<<<<.<<<.<<....<
<..........<<<<<<.....>>>>>>......>>.......<<<<<<.
..<<<<<<<..<<<......>>>..>>>>>>>.>>>>>>...........
..>>.>>>.>>>>>>..<<<<<.<.............>.....<<<<<<<
<<.<<<....<<<<.<..<<<<<......>>>>>..>>>>>...>>>...
.>>>>.>>>>>..>>>>>..
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB5it7 Structural characterization of ribosome recruitment and translocation by type IV IRES.
Resolution3.6 Å
Binding residue
(original residue number in PDB)
H27 V28 R66 H108 C136 V137 R162 G741 Y744 K749 V754 V755 E757 R785 Q786 G789 G790
Binding residue
(residue number reindexed from 1)
H23 V24 R62 H104 C132 V133 R158 G737 Y740 K745 V750 V751 E753 R781 Q782 G785 G786
Gene Ontology
--> -->
 
 
UnboundLocalError
Python 3.6.8: /usr/bin/python3
Thu Dec 12 13:06:16 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 = '5it7', asym_id = '1', bs = 'BS01', title = 'Structural characterization of ribosome recruitment and translocation by type IV IRES.'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='5it7', asym_id='1', bs='BS01', title='Structural characterization of ribosome recruitment and translocation by type IV IRES.')
   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 = '0003924,0005525', uniprot = '', pdbid = '5it7', asym_id = '1'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003924,0005525', uniprot='', pdbid='5it7', asym_id='1')
    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>