Structure of PDB 4v4n Chain AR Binding Site BS01

Receptor Information
>4v4n Chain AR (length=95) Species: 2190 (Methanocaldococcus jannaschii) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
QKAHSFRRKTRKKLSKHPRRRGLPPLTRFLQEFEVGQRVHIVIEPSYHKG
MPDPRFHGRTGTVVGKRGEAYIVEIKDGSKVKTLFIHPVHLRPQK
Ligand information
>4v4n Chain A1 (length=2969) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
ggacgcuaagccgcccgguggauggcucggcucggggcgccgacgaaggg
cguggcaagcugcgauaagccccggcgaggcgcaggcagccgucgaaccg
gggauucccgaaugggaccucccgcggcuuaugccgcacuccgaggggga
acgcggggaauugaaacaucuuaguacccgcaggaaaagaaagcaaaagc
gaugccgugaguaggggcgaccgaaaacggcagagggcaaacugaacccc
gggccgacgagguucgggggaugugggguuguagggcccccguaugagac
ccucgcgggugaagccgaaguccgcuggaacgcggcgccggagaggguga
uagccccguaggcguaagcccgcagggucucgggggacccugaguaccgu
cgguuggauauccggcgggaagcugggaggcaucggcucccaacccuaaa
uacgucccgagaccgauagcgaacuaguaccgugagggaaagcugaaaag
caccccgggaggggggugaaaagagccugaaaccgggcggcgauaggagg
gugcggcccgaaaggaaugagccuccccgaaggaaaccgcggcgacgcgg
gaguacgaggggaggggaccgggguugcaccguccgucuugaaacacggg
gcagggaguucgcggccguggcgagguuaaggggguuaagccccguagcc
gcagggaaaccgacaugcccgcagccgggccggugaggggcggggugcga
aagcgcccggagucacggccgcgagacccgaaaccggucgaucuagcccg
gggcagggugaagucccucaaccgagggauggaggcccgcuaggggugcu
gaugugcaguucgcucccgugaccccgggcuaggggugaaaggccaaucg
aggccggagauagcugguucccgccgaaucaucccgcaggauggccuccc
cggagguaggcggugggguagagcacugauuggaggugcagggggcgaaa
gcccccggccuccugucaaacuccgaacccaccgccgccguagauggggg
gaguaggguggcgguguaagccguccaccgagaggggaacaacccagacc
gggguuaaggccccaaagugccggcuaaguguuacuccaaaggguguccc
gggccuuagacagcggggagguaggcuuagaagcagccauccuuuaaaga
gugcguaacagcucacccgucgagguccggggccccgaaaauggacgggg
cucaagccggccgccgagaccccggcgcacggagugaucggguaggcggg
cgugccgguggcguagaagccgggccguaagguccgguggagccgccggu
aucgcggauccugccgggaguagcagcguagucgggugagaaucccgacc
gccggaggggccaggguuccacggcaauggucgucagccguggguuaguc
gguccuaaccccgcccguaacucggcgcgggggaaagggaaacggguuua
uauucccguaccgcggggguaggugcggcaacgcaagcccggagggugac
gccucgggguaggcggaccggccgaugaggccggcuaagcguauaagccc
ggggagugccguaauggcgagaaccgggugaaagcgcgaauggccccccc
guuagggggguuccgccgaucccuggggcccgugaaaagcccuccgggaa
uuccgaucccccgcgaccguaccgagaaccgacacaggugccccugggug
agaagccuaaggcgugucgggggaaacccggccgagggaacucggcaaac
uggccccguaacuucgggagaaggggugccugcgggugcguaacccgcag
gucgcagugacuaggggggcccgacuguuuaauaaaaacacaggucccag
cuagcccgaaaggguuuguacuggggccgacgccugcccagugccgguau
gugaagcccggguacaaccgggugaagcaccgguaaacggcggggguaac
uauaacccucuuaagguagcgaaauuccuugucgguuaaaugccgaccug
caugaauggcguaacgagguccccgcuguccccggccggggcccggcgaa
accucugccuggcgcgcaugccagggacccccggugggaagcgaagaccc
cauggagcuuuacugcagccugccguugccacacggcggggggugcgcag
cguaggcgggaggcgucgaagcccggccuccgggucggguggagccgucc
augagacaccgcccacuccccgcuguguggcuaacccccgaaagggggga
cagcgguaggugggcaguuuggcuggggcggcacgccuccgaaaagguau
cggaggcgcccuaaggucggcucaggcgggucaggaauccgccguagagu
gcaagggcaaaagccggccugacuggacccguaacagaggcggguccagc
cccgaaaggguggccuagcgaaccccugugccuccccggugggggccagg
gaugacagaaaagcuacccuggggauaacagagucgucucgggcgagagc
ccauaucgaccccgaggcuugcuaccucgcugucggcucuucccauccug
gcccugcagcaggggccaaggguggggguguucacccauuaaaggggaac
gugagcuggguuuagaccgucgugagacaggucggaugcuaucuaccggg
gguguuggccgccugaggggaaggugccccuaguacgagaggaacagggu
gccgcggccucuggucuaccgguuguccucccgggcaucgccgggcagcu
acgccgcagccgauaaggccugaaagcaucuaaggccgaagcggcccccg
aaaauaggcggccguggacgagggcucggguagaagacccgguugauagg
gcggggauguaagcgggaagggucaaccgacccgcuuaguccgccgcccc
uaaucgcccgagguccugc
<<.......<<<<<<<<<<.....<<..<<<<<<<<<<<<<......<<<
<<<.((..((.>>>.....<<<<<<...<<<))..)).>>>......>>>
>>>...>>>....<<<...>>>.<<<<<....>>>>>.<<...>>.>>..
.<<<<<<.....<......>......>>>>>.>.........<<....>>
..<<<<<<.....<<.....>>....>>>>>>..<<<....<<...<<<<
<<<<<.....>>>>>>>>>.....>>..........<<<.<.......<<
<<<.<<<<<<...<<<.....<<<<......>>>>.((......<<<...
..))>>>...>>>....>>>>>>>>>>>...>>>>...........<<<<
<<<........>>>>>>>......<<<<<.((((((>>>>>..>>>....
..>>>>>>>>>.>>...............<<....>>....>>.......
..<<<<.....>>>>................>>>>>>>>>>........<
<<<<<<<<<....<<......<<<<<<<........<<<<<....>>>>>
........>>>>>>>...>>.>>>>>>>>>>..<<<<........>>>><
<<<<<....<<<<<<<<<<<<<..<<<....<<<<.....>>>>...>>>
...<<....>>....<<<<<...<<<<<.>>>>>...>>>>><<<<<<..
..>>>>>>...>>>>>>>>>>>>>..<<.<..<<<<<<<.....<<<<<<
<<<..<<<....<<<<<<<....>>>>>>>.....>>>....<<<<.<<.
<<........>>>>>>>>....>>>>>>>>>...<<<.....>>>.....
.>>>>>>...>..>.>>..<<<<<<....<<<<<....>>>>><<<<<<<
<<..<<<.<<<<<<<<<...<<<....<<.....<..<<..<<<<.....
..>>>>.>>.>....>>...>>.>...>>>>>>>>>>>>.....>>>>>>
>.>>.<<..<<<<<<....>>>>>>..>>....<<<......>>>...<<
<<<<<...<<<(((.....<<<<<<.....<<.........<<<.<<<<<
<<<<........<<<<<.<<...<<<<.......>>>>...>>.......
..<<......>>...>>>>>....>>>>>>>>>>>>..........)))>
>....>>>>>>.>>>...>>>>>>><<<<<...>>>..>>....>>>>>>
<.<<<<<<<<<<......<<<<<<<<....>>>>>>>>...>>>>>>>>>
>..>.....>>>>>><<.....<<......<<<<<<.......>>>>>><
<<<....<<<<..<<...<<<<<<...<<.....>>.>>>>>>....((<
<<<<<...<<<<<<<<<.....>>>.>>>>>>....>>>..<<<<<....
....>>>>>))<<<<<<<<.....<<<....>>>......<<<<<<<...
<<<<<<<<<...<..<.<<<<<<.....>>>>>><...<<<<....<<<<
<<.....<<<<...>>>>.....>>>>>>....>>>>....><.<<<<<<
....>>>>>>.>.>..>...>>>>>>>>>.........>>>>>>>.....
.......>>>>>>>>.>>>..>>.....<<......>>.>>>>..<<<<.
....>>>>..>>>>...<<<<.....<<<<<<<<.<<.............
..<<<<<...............>>>>><<<<<<<<<<.....>>>>>>>>
>>............<<<<<<<<<..<<<.........>>>..<<<<<<<.
...<<<<....>>>>......>>>>>>>.<<<<<.<<<..<<<<<<<..<
<<...<<<<<<......>>>>>>...>>>>>>>>..>>>>><<<<<<...
....>>>>>>........<...........<<<<<<.....>>>>>>...
..>....>>>>>..>>.>>>>>>>.....>>.>>>>>>>>.>>>>>>...
.>>....<<<<<........>>>>>..<<<<<<<<.<<<.<<......<<
<<.<<<<<<..<<<<<.<<<<<<<<<.<<<<<<<<<<<<<<<<<......
....<<<<<...<.......<<<<<<<<....>>>>>>>>....>.....
........>>>>>.>>>>>>>>>>>>>>>>>...<<<<<....>>>>>..
..>>>>>>>>>..>>>>>...<<<.....>>>..<<<<<<..........
.>>>>>>..<<...<<<<<<<...<<<<<<.......>>>>>>.....<<
...(((>>....>>>>>>>...<<<<<<<<<.........>>>>>>>>>.
<<<....>>>.>>))).......<<<<<.<<<<<.))))))>>>>>>>>>
>..........>>>>..>>>>>>.......<<<<.<.<<<<<<...<<..
.....>>...>>>>>>...>>>>.>.......<<<<<.<<<<<<..<<<<
<<<<<......>>>>>>>..>>..<<<.......>>>......>>>>>..
>...>>>.>>....<<<<<<<....>>>.>>>>....>>..>>>>>>>>>
>>....<<<<<<<<..<<<<..<<<<<<<.................>>>>
>>><<<<<....<<<...<<<<<<<<<<....>>>>>..>>>>>...>>>
..>>>>>..<<<....<<<<<...........>>>>>....>>>.>>>>>
......>>>>>>>........<<<<<<<<<.......>>>>>....<<<<
<<<<<<<<....<<<<<..<<.....>>..>>>>>...>>>>.>>>>>.>
>>...>>>>.....>>...
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB4v4n Structure of the SecY channel during initiation of protein translocation.
Resolution9.0 Å
Binding residue
(original residue number in PDB)
Q3 K4 A5 H6 S7 F8 R9 R10 K11 T12 R13 K14 K15 L16 H19 R23 G24 L25 R40 H42 V44 P47 S48 H50 K51 R57 H59 G60 R61 T62 R69 E71 S81 K82 K84 T85 F87 Q96 K97
Binding residue
(residue number reindexed from 1)
Q1 K2 A3 H4 S5 F6 R7 R8 K9 T10 R11 K12 K13 L14 H17 R21 G22 L23 R38 H40 V42 P45 S46 H48 K49 R55 H57 G58 R59 T60 R67 E69 S79 K80 K82 T83 F85 Q94 K95
Gene Ontology
--> -->
 
 
UnboundLocalError
Python 3.6.8: /usr/bin/python3
Fri Mar 7 08:56:59 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 = '4v4n', asym_id = 'AR', bs = 'BS01', title = 'Structure of the SecY channel during initiation of protein translocation.'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='4v4n', asym_id='AR', bs='BS01', title='Structure of the SecY channel during initiation of protein 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 = '4v4n', asym_id = 'AR'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005840,0006412', uniprot='', pdbid='4v4n', asym_id='AR')
    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>