Structure of PDB 6gaw Chain BP Binding Site BS01

Receptor Information

>6gaw Chain BP (length=288) Species: 9823 (Sus scrofa)

GPRALDLLRALPRVSLANLKPNPGSRKPERRPRGRRRGRKCGRGHKGERQ
RGTRPRLGFEGGQTPFYLRIPKYGFNEGHSFRHQYQPLSLNRLQYLIDLG
RVDPTQPIDLTQLVNGRGVTIQPSKRDYGVQLVEEGADTFKAKVNIEVQM
ASELAIAAIEKNGGVVTTAFYDPRSLEILCKPVPFFLRGQPIPKRMLPPE
ALVPYYTDAKNRGYLADPARFPEARLELARKYGYVLPDITKDELFKMLST
RKDPRQIFFGLAPGWVVNMADKKILKPTDENLLKYYSS

Ligand information

>6gaw Chain BA (length=1549)

accaaagcuagcucaacauacuaaacaaauacaaaaauacaccaaaauaa
aauaaaacauucaccuaacauuaaaguauaggagauagaaauuuuuaucc
ugacgcuauagagauaguaccguaagggaaagaugaaagaauaaaauaaa
aguaaaaaaaagcaaagauuaccccuucuaccuuuugcauaaugguuuaa
ccagaaaaaaucuaacaaagagaacuuuagcuagauaccccgaaaccaga
cgagcuacccaugagcaguuuaaaagaaccaacucaucuauguggcaaaa
uagugagaagacuuguagguagaggugaaaagccuaacgagccuggugau
agcugguuguccgagaaagaauuuuaguucaaccuuaaaaauaccccaaa
aacccuaaauuccaauguauuuuuaagagauagucuaaaaagguacagcu
uuuuagaaacggauacaaccuugacuagagaguaaaaucuuaauacuacc
auaguaggccuaaaagcagccaucaauugagaaagcguuaaagcucaaca
aauucaccaacauaaucccaaaaacuaauaacaaacuccuagcccaauac
cggacuaaucuauugaaacauagaagcaauaauguuaauaugaguaacaa
gaagccuuucuccucgcacacgcuuacaucaguaacuaauaauauacuga
uaauuaacaaccaauaaaccaaaacaacacuaaaacguuuauuaauuaca
uuguuaacccaacacaggagugcaccaaggaaagauuaaaagaaguaaaa
ggaacucggcaaacacaaaccccgccuguuuaccaaaaacaucaccucua
gcauuacuaguauuagaggcaaugccugcccagugacaccaguuuaacgg
ccgcgguauucugaccgugcaaagguagcauaaucacuuguucuccaaau
aaggacuuguaugaauggccacacgaggguuuuacugucucuuacuucca
aucagugaaauuaaccuucccgugaagaggcgggaauaaaaaaauaagac
gagaagacccuauggagcuuuaauuaacuauuccaaaaguuaaacaacua
acuuaacauggacuagcaauuucgguuggggugaccucggaguacaaaaa
acccuccgagugauuuuaaucuagacaaaccagucaaaauaaccauaaca
ucacuuauugauccaaaauuuugaucaacggaacaaguuacccuagggau
aacagcgcaauccuguucuagaguuccuaucgacaauaggguuuacgacc
ucgauguuggaucaggacacccaaauggugcaaccgcuauuaaagguucg
uuuguucaacgauuaaaguccuacgugaucugaguucagaccggagcaau
ccaggucgguuucuaucuauuauaaauuucucccaguacgaaaggacaag
agaaaugggaccaaccucacaaacgcgucucagagauaauuaaugauuua
aucuuaaccuaauuaacucauaauaaauccagcccuagaacagggcaca

<<.<......<<<<....................................
...<......>.................<<.....>>.............
.>>.>>.............<<....>>...................>...
.>>...........<<<.......>>>...<.<........>.>..<<<<
<........<<<<<.<..<<....>>...>.>>>>>..<<.<...<<<<.
<.....<<<.<<<<<..<<<......>>>...<<<..<<<<........>
>>>.>>>....>>>>>.>>>...<<<.....>>>......>.>>>>....
..>.>>..<<<<<.....<<<<....>>>>...<<<<<<<<<<<.....<
<........>>.....>>>>>>>>>>>......<<<<<<<<<......>>
>>>>>>>...<<......>>....<<<<.<<<..................
.<....<<<.........>>>....>.......<<<......>>>.....
...................................>>>>>>>........
>>>>>...<<<<<......>>>>>.........>>>>>.<......<<..
<<<<..>>>><<<<.<<<<........<<<<<....<<....>>..>>>>
>......<<<..<<<<<<<.................>>>>>>>.......
>>>.....<<......>>.>>>>....>>>>..<<<<....<<<<<<<.<
<...............<<<<<<<<..<<<.........>>>...<<<<<<
.............>>>>>>....<<<.<<<..<<<<<....>>>..>>>>
><<<<<<......>>>>>>........<...........<<<<<......
.>>>>>.....>....>>>....>>.>>>>>>......>>.>>>>>>>.>
>>>.>>.....>.....<<<<<........>>>>>.......<<<.<<<.
<<......<<<<.<<<<<<..<<<<..<<<.<<<<.<<<<<<......>>
>>>>....>>>>.>>>.>>>>..<<<<.....>>>><<<<<<........
...>>>>>>.<<<<....<<...<<<......>>>...>>.........>
>>>..........<<<....>>>............>>>>..>>>>>>...
....<<<..<.<<<<<<...<<.......>>...>>>>>>...>.>>.>.
......<<<<<..<<<<<..<<.<<<<<<......>>>>>>...>>.<<<
<<.....>>>>>.....>>>>>......>>>.>>....<<<<<<<....>
>>.>>>>....>>..>>>>>>.<<.<<<<<<<.................>
>>>>>><<<<<...............>>>>>.<<<...<<<<.<......
......>..>>>>...>>>.>>.........<<<<.......>>>>...

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6gaw Unique features of mammalian mitochondrial translation initiation revealed by cryo-EM.
• Resolution: 3.2 Å
• Binding residue (original residue number in PDB): L24 A25 L27 P29 N30 G32 S33 R34 K35 E37 R38 R39 P40 R41 G42 R43 R44 R45 G46 R47 K48 C49 G50 R51 G52 H53 K54 G55 E56 R57 Q58 R59 R62 R64 F67 G69 G70 Q71 T72 Y75 L76 R77 P79 K80 H87 R100 R109 T128 Q130 S132 K133
• Binding residue (residue number reindexed from 1): L16 A17 L19 P21 N22 G24 S25 R26 K27 E29 R30 R31 P32 R33 G34 R35 R36 R37 G38 R39 K40 C41 G42 R43 G44 H45 K46 G47 E48 R49 Q50 R51 R54 R56 F59 G61 G62 Q63 T64 Y67 L68 R69 P71 K72 H79 R92 R101 T120 Q122 S124 K125

Gene Ontology

--> -->

UnboundLocalError

Python 3.6.8: /usr/bin/python3 Fri Nov 15 13:24:26 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 = '6gaw', asym_id = 'BP', bs = 'BS01', title = 'Unique features of mammalian mitochondrial translation initiation revealed by cryo-EM.'

 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='6gaw', asym_id='BP', bs='BS01', title='Unique features of mammalian mitochondrial translation initiation revealed by cryo-EM.')

   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 = '0003735,0006412,0015934', uniprot = '', pdbid = '6gaw', asym_id = 'BP'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0006412,0015934', uniprot='', pdbid='6gaw', asym_id='BP')

    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>