Structure of PDB 5aj4 Chain Ba Binding Site BS01

Receptor Information
>5aj4 Chain Ba (length=393) Species: 9823 (Sus scrofa) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AYEWGVRSTRKPEPPPLDRVYEIPGLEPITYAGKMHFMPGLARPVFPPWD
PGWTHPKFRRLPPLHEHPLYKDQACYVFHQRCRLLEGVKQALWLTKTQLI
EGLPEKVLRLADDPRNHIENQDERVLNAISHARLWHSTEDIPKRETYCPV
IVDSLIQLCKSQILKHPSLARRICAQNNTLSATWNRESILLQVHGSSGAR
LNAKDPLPPVASQEEVEATKNHVLETFYPISPTMGLQECNVYDVNDDTGF
QEGYPYPCPHTLYFLESANLRPRRFQPDQLRAKMILFAFGSALAQARLLY
GNDSKVLEQPVVVQSVGTDGRLFQFLVLQLNTTDLASDEGVKNLAWVDSD
QLLYQHFWCLPVIKKKVVVEPVGPIGFQPETFRKFLALYLHGA
Ligand information
>5aj4 Chain BA (length=1515) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
accaaagcuagcucaacaacaaauacaaaaauacaccaaaauaaaauaaa
acauucaccuaacauuaaaguauaggagauagaaauuuuuauccugacgc
uauagagauaguaccguaagggaaagaugaaagaauaaaaguaaaaaaaa
gcaaagauuaccccuucuaccuuuugcauaaugguuuaaccagaaaaaau
cuaacaaagagaacuuuagcuagauaccccgaaaccagacgagcuaccca
ugagcaguuuaaaagaaccaacucaucuauguggcaaaauagugagaaga
cuuguagguagaggugaaaagccuaacgagccuggugauagcugguuguc
cgagaaagaauuuuaguucaaccuuaaaaauaccccaaaaacccuaaauu
ccaauguauuuuuaagagauagucuaaaaagguacagcuuuuuagaaacg
gauacaaccuugacuagagaguaaaucuuaauacuaccauaguaggccua
aaagcagccaucaauugagaaagcguuaaagcucaacaaauucaccaaca
uaaucccaaaaacuaauaacaaacuccuagcccaauaccggacuaaucua
uugaaacauagaagcaauaauguuaauaugaguaacaagaagccuuucuc
cucgcacacgcuuacaucaguaacuaauaauauacugauaauuaacaacc
aauaaaccaaaacaacacuaaaacguuuauuaauuacauuguuaacccaa
cacaggagugcaccaaggaaagauuaaaagaaguaaaaggaacucggcaa
acacaaaccccgccuguuuaccaaaaacaucaccucuagcauuacuagua
uuagaggcaaugccugcccagugacaaguuuaacggccgcgguacugacc
gugcaaagguagcauaaucacuuguucuccaaauaaggacuuguaugaau
ggccacacgaggguuuuacugucucuuacuuccaaucagugaaauuaacc
uucccgugaagaggcgggaauaaaaaaauaagacgagaagacccuaugga
gcuuuaauuaacuauuccaaaaguucuuaacauggacuagcaauuucggu
uggggugaccucggaguacaaaaaacccuccgagugauuuuaaucuagac
aaaccagucaaaauaaucacuuauugauccaaaauuuugaucaacggaac
aaguuacccuagggauaacagcgcaauccuguucuagaguuccuaucgac
aauaggguuuacgaccucgauguuggaucaggacacccaaauggugcagc
cgcuauuaaagguucguuuguucaacgauuaaaguccuacgugaucugag
uucagaccggagcaauccaggucgguuucuaucuauuauaaauuucuccc
aguacgaaaggacaagagaaaugggaccaaccucacaaacgcgucucaga
gauaauuaaugauuuaaucuuaaccuaauuaacucauaauaaauccagcc
cuagaacagggcaca
<<........<<<<.................................<..
....>.................<<.....>>..............>>.>>
.............<<....>>...................>>........
...<<<.......>>>...<.<........>.>..<<<<<........<<
<<<.<..<<....>>...>.>>>>>..<<.<..<<<<<.<.....<<<.<
<<<<..<<<......>>>...<<<<.<<<<........>>>>>>>>....
>>>>>.>>>...<<<.....>>>......>.>>>>...>..>.>>..<<<
<<.....<<<<....>>>>...<<<<<<<<<<<.....<<........>>
.....>>>>>>>>>>>......<<<<<<<<<......>>>>>>>>>...<
<......>>....<<<<.<<<..................<....<<<...
......>>>....>.......<<<......>>>.................
.......................>>>>>>>........>>>>>...<<<<
<......>>>>>.........>>>>>.<......<<..<<<<..>>>><<
<<.<<<<........<<<<<....<<....>>..>>>>>......<<<..
<<<<<<<.................>>>>>>>.......>>>.....<<..
....>>.>>>>....>>>>..<<<<....<<<<<<<.<<...........
....<<<<<<<<..<<<.........>>>...<<<<<<............
.>>>>>>...<<<<.<<<..<<<<<..>>>..>>>>><<<<<<....>>>
>>>........<...........<<<<<.......>>>>>.....>....
>>>.>..>>.>>>>>>......>>.>>>>>>>.>>>>.>>.....>..(.
.<<<<<.......)>>>>>.......<<<.<<<.<<......<<<<.<<<
<<<..<<<<..<<<.<<<<.<<<..>>>....>>>>.>>>.>>>>..<<<
<.....>>>><<<<<<...........>>>>>>.<<<<....<<...<<<
......>>>...>>.>>>>..........<<<<..>>>>...........
.>>>>..>>>>>>.......<<<..<.<<<<<<...<<.......>>...
>>>>>>...>.>>.>.......<<<<<.<<<<<<..<<.<<<<<<.....
.>>>>>>...>>.<<<<<.....>>>>>.....>>>>>..>...>>>.>>
....<<<<<<<....>>>.>>>>....>>..>>>>>>.<<.<<<<<<<..
...............>>>>>>><<<<<...............>>>>>.<<
<...<<<<.................>>>>...>>>.>>.........<<<
<.......>>>>...
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]
PDB5aj4 The complete structure of the 55S mammalian mitochondrial ribosome.
Resolution3.8 Å
Binding residue
(original residue number in PDB)		Y31 E32 W33 G34 V35 R36 S37 P44 F66 P68 P85 K86 F87 R88 R89 L90 H96 H108 Q109 R110 R112 I170 R173 H223 G264 Q266 L299 R300 R302 Q305 R350 Q384 H385 W387 C388 L389 K394
Binding residue
(residue number reindexed from 1)		Y2 E3 W4 G5 V6 R7 S8 P15 F37 P39 P56 K57 F58 R59 R60 L61 H67 H79 Q80 R81 R83 I141 R144 H194 G235 Q237 L270 R271 R273 Q276 R321 Q355 H356 W358 C359 L360 K365
Gene Ontology
--> -->
 
 
UnboundLocalError		Python 3.6.8: /usr/bin/python3
Thu Mar 13 10:36:28 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 = '5aj4', asym_id = 'Ba', bs = 'BS01', title = 'The complete structure of the 55S mammalian mitochondrial ribosome.'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='5aj4', asym_id='Ba', bs='BS01', title='The complete structure of the 55S mammalian mitochondrial 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 = '0003735,0005739,0005840,0006412', uniprot = '', pdbid = '5aj4', asym_id = 'Ba'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005739,0005840,0006412', uniprot='', pdbid='5aj4', asym_id='Ba')
    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>