Structure of PDB 5kkg Chain A

Receptor sequence

>5kkgA (length=449) Species: 32630 (synthetic construct)

HMEDIKKISIFLAYNVNVDAIKYLKEEDIQKLIEEFGEEEIIEKIEEYPR
KIKEPLDFVARLIHAIKTGKPAAVPLDNEELNKWFDSLFKYDEERMGGQV
GIIANLLAILDLKKVIAYSPLLSKKQAEMFNNDLLYPIVENGKLVLKKPI
EAYKDNDPIKINRIFEFKEGIKFKLGDEKIIAPQANRFIVASRPENLARI
EIKEDLKKYLPEIGEMVDCAILSGYQGIKEKYSDGKTAEYYFKRAKEDIK
LLKKKDIKVHLEFASIQNIKIRKKVVDYILPNVDSVGMDETEIANILNIL
GYEELSEKILKDSKIEDVIEGAKILLDKFNLEVVQVHTIYYILFISKKDN
PLSKEELKKTLEFATILAATKAKLGDIKNIEDLKVGLKVPHNKYGELLKE
IVEKLKKKEDYKIVLIPSRFVENPKSTVGLGDTISTGAFVSYVSLLKKK

3D structure

• PDB: 5kkg Reconstructed ancestral enzymes reveal that negative selection drove the evolution of substrate specificity in ADP-dependent kinases.
• Chain: A
• Resolution: 2.608 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	AMP	A	D288 H336 T337 F422 V423 L432 G433 I436	D289 H337 T338 F420 V421 L430 G431 I434

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Wed Dec 18 20:30:00 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 = '5kkg', asym_id = 'A', title = 'Reconstructed ancestral enzymes reveal that nega... substrate specificity in ADP-dependent kinases. '

 /var/www/html/BioLiP/pdb.cgi in display_protein_receptor(pdbid='5kkg', asym_id='A', title='Reconstructed ancestral enzymes reveal that nega... substrate specificity in ADP-dependent kinases. ')

    839 

    840     if go:

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

    842     return pubmed,uniprot

    843 

global display_go = <function display_go>, go = '0000287,0005737,0005975,0006000,0006096,0008443,0016773', uniprot = '', pdbid = '5kkg', asym_id = 'A'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0000287,0005737,0005975,0006000,0006096,0008443,0016773', uniprot='', pdbid='5kkg', asym_id='A')

    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>