Structure of PDB 8dgf Chain C

Receptor sequence

>8dgfC (length=1541) Species: 562 (Escherichia coli)

MVKPNWDNFKAKFSENPQGNFEWFCYLLFCQEFKMPAGIFRYKNQSGIET
NPITKDNEIIGWQSKFYDTKLSDNKADLIEMIEKSKKAYPGLSKIIFYTN
QEWGQGNSNDPKIKIEVDQKAYESGIEIVWRVASFFESPFVIVENEKIAK
HFFSLNESIFDLLEEKRKHTENVLYEIQTNIEFKDRSIEIDRRHCIELLH
ENLVQKKIVIVSGEGGVGKTAVIKKIYEAEKQYTPFYVFKASEFKKDSIN
ELFGAHGLDDFSNAHQDELRKVIVVDSAEKLLELTNIDPFKEFLTVLIKD
KWQVVFTTRNNYLADLNYAFIDIYKITPGNLVIKNLERGELIELSDNNGF
SLPQDVRLLELIKNPFYLSEYLRFYTGESIDYVSFKEKLWNKIIVKNKPS
REQCFLATAFQRASEGQFFVSPACDTGILDELVKDGIVGYEAAGYFITHD
IYEEWALEKKISVDYIRKANNNEFFEKIGESLPVRRSFRNWISERLLLDD
QSIKPFIAEIVCGEGISNFWKDELWVAVLLSDNSSIFFNYFKRYLLSSDQ
NLLKRLTFLLRLACKDVDYDLLKQLGVSNSDLLSIKYVLTKPKGTGWQSV
IQFIYENLDEIGIRNINFILPVIQEWNQRNKVGETTRLSSLIALKYYQWT
IDEDVYLSGRDNEKNILHTILHGAAMIKPEMEEVLVKVLKNRWKEHGTPY
FDLMTLILTDLDSYPVWASLPEYVLQLADLFWYRPLDIEDEFGLFRSHHD
YYPESPYQTPIYWLLQSQFKKTIDFILDFTNKTTICFAHSHFAKNEIEEV
DVFIEEGKFIKQYICNRLWCSYRGTQVSTYLLSSIHMALEKFFLENFKNA
DSKVLESWLLFLLRNTKSASISAVVTSIVLAFPEKTFNVAKVLFQTKDFF
RFDMNRMVLDRTHKSSLINSLHEEDRIKACDDVHRNTYLENLALHYQIFR
SENVTEKDAIERQQVLWDIFDKYYNQLPDEAQETEADKTWRLCLARMDRR
KMKITTKEKDEGIEISFNPEIDPKLKQYSEEAIKKNSEHMKYVTLKLWAS
YKREKDERYKNYGMYEDNPQIALQETKEIIKKLNEEGGEDFRLLNGNIPA
DVCSVLLLDYFNQLNNEEREYCKDIVLAYSKLPLKEGYNYQVQDGTTSAI
SALPVIYHNYPMERETIKTILLLTLFNDHSIGMAGGRYSVFPSMVIHKLW
LDYFDDMQSLLFGFLILKPKYVILSRKIIHESYRQIKKININKVFLNNYK
HCISNVIDNKISIDDLGSMDKVDLHILNTAFQLIPVDTVNIEHKKLVSLI
VKRFSTSLLSSVREDRVDYALRQSFLERFAYFTLHAPVSDIPDYIKPFLD
GFNGSEPISELFKKFILVEDRLNTYAKFWKVWDLFFDKVVTLCKDGDRYW
YVDKIIKSYLFAESPWKENSNGWHTFKDSNSQFFCDVSRTMGHCPSTLYS
LAKSLNNIASCYLNQGITWLSEILSVNKKLWEKKLENDTVYYLECLVRRY
INNERERIRRTKQLKQEVLVILDFLVEKGSVVGYMSRENIL

3D structure

• PDB: 8dgf Prokaryotic innate immunity through pattern recognition of conserved viral proteins.
• Chain: C
• Resolution: 2.9 Å

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	ATP	C	I210 G236 G238 K239 T240 A241 R329	I190 G216 G218 K219 T220 A221 R309

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Wed Nov 27 22:29:00 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>()

   1443                 pubmed=display_regular_ligand(pdbid,asym_id,lig3,ligIdx,title)

   1444         else:

=> 1445             pubmed,uniprot=display_protein_receptor(pdbid,asym_id,title)

   1446     

   1447     uniprot_line=''

pubmed = '', uniprot = '', display_protein_receptor = <function display_protein_receptor>, pdbid = '8dgf', asym_id = 'C', title = 'Prokaryotic innate immunity through pattern recognition of conserved viral proteins.'

 /var/www/html/BioLiP/pdb.cgi in display_protein_receptor(pdbid='8dgf', asym_id='C', title='Prokaryotic innate immunity through pattern recognition of conserved viral proteins.')

    839 

    840     if go:

=>  841         display_go(go,uniprot,pdbid,asym_id)

    842     return pubmed,uniprot

    843 

global display_go = <function display_go>, go = '0016887', uniprot = '', pdbid = '8dgf', asym_id = 'C'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0016887', uniprot='', pdbid='8dgf', asym_id='C')

    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>