Structure of PDB 4v7l Chain DH Binding Site BS01

Receptor Information
>4v7l Chain DH (length=159) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PKGVSVEVAPGRVKVKGPKGELEVPVSPEMRVVVEEGVVRVERPSDERRH
KSLHGLTRTLIANAVKGVSEGYSKELLIKGIGYRARLVGRALELTVGFSH
PVVVEPPEGITFEVPEPTRVRVSGIDKQKVGQVAANIRAIRKPSAYHEKG
IYYAGEPVR
Ligand information
>4v7l Chain DA (length=2800) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
agaugguaagggcccacgguggaugccucggcacccgagccgaugaagga
cguggcuaccugcgauaagccagggggagccgguagcgggcguggauccc
uggauguccgaaugggggaacccggccggcgggaacgccggucaccgcgc
uugcgcggggggaaccuggggaacugaaacaucucaguacccagaggaga
ggaaagagaaaucgacucccugaguagcggcgagcgaaaggggaccagcc
uaaaccguccggcuuguccgggcggggucgggggcccucggccgaauccc
cagccuagccgaagcuguugggaagcagcgccagagagggugaaagcccc
guaggcgaaagguggggggauaggugaggguacccgaguaccccgugguu
cguggagccaugggggaaucugggcggaccaccgccuaaggcuaaguacu
ccgggugaccgauagcgcaccaguaccgugagggaaaggugaaaagaacc
ccgggaggggagugaaauagagccugaaaccgugggcuuacaagcaguca
cggccccaagggguuguggcgugccuauugaagcaugagccggcgacuca
cggucgugggcgagcuuaagccguugaggcggaggcguagggaaaccgag
uccgaacagggcgguccgcggccguggacccgaaaccgggcgagcuagcc
cuggccagggugaagcuggggugagacccaguggaggcccgaaccggugg
gggaugcaaaccccucggaugagcuggggcuaggagugaaaagcuaaccg
agcccggagauagcugguucuccccgaaaugacuuuagggucagccucag
gcgcugacuggggccuguagagcacugauagggcuagggggcccaccagc
cuaccaaacccugucaaacuccgaagggucccagguggagccugggagug
agggcgcgagcgauaacguccgcguccgagcgcgggaacaaccgagaccg
ccagcuaaggcccccaagucugggcuaagugguaaaggauguggcgccgc
gaagacagccagucgaguggcgccgcgccgaaaaugaucggggcuuaagc
ccagcgccgaagcugcgggucugggggaugaccccaggcgguaggggagc
guucccgaugccgaugaaggccgacccgcgagggcggcuggagguaaggg
aagugcgaaugccggcaugaguaacgauaaagagggugagaaucccucuc
gccguaagcccaaggguuccuacgcaauggucgucagcguaggguuaggc
gggaccuaaggugaagccgaaaggcguagccgaagggcagccgguuaaua
uuccggcccuucccgcaggugcgauggggggacgcucuaggcuaggggga
ccggagccauggacgagcccggccagaagcgcagggugggagguaggcaa
auccgccucccaacaagcucugcgugguggggaaaaccccccgaagccag
ggagccaagaaaagccucuaagcacaaccugcgggaacccguaccgcaaa
ccgacacaggugggcgggugcaagagcacucaggcgcgcgggagaacccu
cgccaaggaacucugcaaguuggccccguaacuucgggagaaggggugcu
cccuggggugaugagccccggggagccgcagugaacaggcucuggcgacu
guuuaccaaaaacacagcucucugcgaacucguaagaggagguauaggga
gcgacgcuugcccggugccggaaggucaaggggaggggugcaagccccga
accgaagccccggugaacggcggccguaacuauaacgguccuaagguagc
gaaauuccuugucggguaaguuccgaccugcacgaaaagcguaacgaccg
gagcgcugucucggcgagggacccggugaaauugaacuggccgugaagau
gcggccuacccguggcaggacgaaaagaccccguggagcuuuacugcagc
cugguguuggcucuuggucgcgccugcguaggauaggugggagccuguga
acccccgccuccgggugggggggaggcgccggugaaauaccacccuggcg
cggcugggggccuaacccucggauggggggacagcgcuuggcgggcaguu
ugacuggggcggucgccuccuaaaagguaacggaggcgcccaaagguccc
cucaggcgggacggaaauccgccggagagcgcaaggguagaagggggccu
gacugcgaggccugcaagccgagcaggggcgaaagccgggccuagugaac
cgguggucccguguggaagggccaucgaucaacggauaaaaguuaccccg
gggauaacaggcugaucucccccgagcguccacagcggcggggagguuug
gcaccucgaugucggcucgucgcauccuggggcugaagaaggucccaagg
guugggcuguucgcccauuaaagcggcacgcgagcuggguucagaacguc
gugagacaguucggucucuauccgccacgggcgcaggaggcuugaggggg
gcucuuccuaguacgagaggaccggaagggacgcaccucugguuucccag
cugucccuccaggggcauaagcuggguagccaugugcggaagggauaacc
gcugaaagcaucuaagcgggaagcccgccccaagaugaggccucccacgg
cgucaagccgguaaggacccgggaagaccacccgguggaugggccggggg
uguaagcgccgcgaggcguugagccgaccggucccaaucguccgaggucu
<<<......<<<<<<<<<<<.....<<..<<<<<<<<<<<<......<<<
<<<.[...((.>>>.....<<<<<<<..<<<))...].>>>.....>>>>
>>>...>>>....<<<....>>><<<<<<<<....>>>>>>>>.<<<<<<
..>>>>>>.>>....<<<<<.....<......>......>>>>>......
.....<<....>>...<<<<<.....<<.....>>....>>>>>...<<<
....<<<<<<<<.....>>>>>>>>.....<<<<<<<<...<<...<<<<
..<<<<.<<<...<<<<<......>>>>>((......<<<.....))>>>
...>>>...>>>>...>>>>..>>..>>>>>.>>>.....<<<<<<<<<.
......>>>>>>>>>......<<<<<..((((>>>>>..>>>......>>
.>>>>>>.>>...............<<....>>....>>.........<<
<<....>>>>..................>>>>>>>>>>>.......<<<<
<<<<<<<..>>>>>>>>>>>...<............>.<<<<<<....<<
<<<<<<<<<<...<<<...<<<.....>>>...>>>...<<....>>..<
<<<.....>>>>..>>>>>>>>>>>>..<<.<...<<<<<<.....<<<<
<<<<<..<<<....<<<<<<......>>>>>>.....>>>...<<<<.<<
<<........>>>>>>>>....>>>>>>>>>...<<<.....>>>.....
.>>>>>>.......>>>..<<<<<<....<<<<<....>>>>><<<<<<<
<<.....<<<<<<<<<...<<<...<<<.<<<<...<<<<<........>
>>.>>...>>>>.>>>..>>.>...>>>>>>>>>.....>>>>>>>.>>.
.<<<<<<<.<<......>>.>>>>>>>.....<<<......>>>...<<<
<.<<<...<<<(((.....<<<<<<...........<<..<<<<<<<<<.
.................>>>>>>>>>.>>..........)))......>>
>>>>.>>>...>>>>>>>.<<<<<<.......>>>>>>.....>>>>>><
.<<<<<...<<<......<<<<<.<<<....>>>>>>>>...>>>..>>>
>>..>.....>>>>>><......<<.....<<<<<<.......>>>>>><
<<<....<<<<<.<<...<<<<<<...<<.....>>.>>>>>>....((<
<<<.<<...<<<...<<<....>>>...>>>...>>...<<<<<......
..>>>>>))<<<<<<<<<<<<<...<<<<....<<<<<.<<<..<<<<<.
<<<<.<<..[[[....>>>>>><<<...<<<<<<<<<<<<<<<<.<<...
..>>>>>>>>>.....>>>>>>>>>..>>><.....>>>>>>...>>>..
>>>>>.........>>>.>..>>...>>>>>>>>>>>>>>>..>>.....
<<......>>>>>>>.<<<<<....>>>>>..>>>>..<<<<....<<<<
<<<<.<<.........<.....<<<<<.....<..>......>>>>><<<
<<<<<<<<<.....>>>>>>>>>>>>............<<<<<<<<<..<
<<.........>>>..<<<<<<<.....<<<....>>>.......>>>>>
>>.<<<<<.<<<..<<<<<<<..<<<...<<...<<<<<....>>>>>..
.>>...>>>>>>>>..>>>>><<<<<<.......>>>>>>........<.
..........<<<<<.......>>>>>.....>....>>>>>..>>.>>>
>>>>..>..>>.>>>>>>>>.>>>>>>.....>.....<<<<<.......
.>>>>>..<<<<<<<<.<<<.........<<<<.<<<<<<..<<<<<.<<
<.<<<<<.<<<<<<<<<<<<<<<<...........<<<<<..<<<.....
.<<<<<<<<....>>>>>>>>...>>>............>>>>>..>>>>
>>>>>>>>>>>>...<<<<<....>>>>>....>>>>>.>>>..>>>>>.
.<<<<.....>>>><<<<<<...........>>>>>>..<<...<<<<<<
<...<<<<<<.......>>>>>>.....<....(((.>....>>>>>>>.
..<<<<..<<<......>>>..>>>>.<<<....>>>.>>))).......
<<<<<<<.<<..))))..>>>>>>>>>.............>>>>..>>>>
>>.......<<<<.<.<<<<<<...<<.......>>...>>>>>>...>>
>>.>.......<<<<<.<.<<<<..<<<<<<<<<......>>>>>>>..>
>.<<<<<.....>>>>>.....>>>>...>...>>>.>>....<<<<<<<
....>>>.>>>>........>>>>>>>>>>>....<<<<<<<...<<<<.
.<<<<<<<...............>>>>>>>.<<<<<...<<<<...<<<<
<<<<<<<.]]]>>>>>>...>>>>>...>>>>.>>>>>...<<<....<<
<<.............>>>>....>>>.>>>>.......>>>>>>>...<<
.......>>.....<<<<<<<<<.......>>>>>....<<<<<<<<.<<
<....<<<<<....>>>>>...>>>..>>>>>.>>>...>>>>....>>>
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]
PDB4v7l The structures of the anti-tuberculosis antibiotics viomycin and capreomycin bound to the 70S ribosome.
Resolution3.0 Å
Binding residue
(original residue number in PDB)
R59 K62 S63 G66 L67 T70 N74 I92 G108 F109 S110 Q139 G142 Q143 A146 R152 K160
Binding residue
(residue number reindexed from 1)
R48 K51 S52 G55 L56 T59 N63 I81 G97 F98 S99 Q128 G131 Q132 A135 R141 K149
Gene Ontology
--> -->
 
 
UnboundLocalError
Python 3.6.8: /usr/bin/python3
Mon Mar 10 14:57:43 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 = '4v7l', asym_id = 'DH', bs = 'BS01', title = 'The structures of the anti-tuberculosis antibiot...omycin and capreomycin bound to the 70S ribosome.'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='4v7l', asym_id='DH', bs='BS01', title='The structures of the anti-tuberculosis antibiot...omycin and capreomycin bound to the 70S ribosome.')
   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 = '0003735,0005840,0006412,0019843', uniprot = '', pdbid = '4v7l', asym_id = 'DH'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005840,0006412,0019843', uniprot='', pdbid='4v7l', asym_id='DH')
    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>