Structure of PDB 6s6y Chain P Binding Site BS01

Receptor Information
>6s6y Chain P (length=308) Species: 419610 (Methylorubrum extorquens PA1) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SDFTLNGIKVEDTFAEAFDVAGTAIIVTNDTPKWAMIAATVMTGFATSVI
GCGAEAGIDAELSPDETPDGRPGVRILLFGFEPNGLKDQLLKRVGQCILT
CPGTACFAGVEGPTKIKLGGAIRYFGDGFAVAKRLPDHEGKMRRYWRIPV
MDGEFLCEDSVRAVDGAVGGGNLLFLGRKHADTLIVAEIAVEAAKAIPGA
ILPFPGGIVRSGSKVGGRTKGMMASTNDAYCPTLKGRAGSALPPECGVVL
EIVIDALTSAAVAESMRAALHAATEIGAQHGLVAVTAGNYGGNLGRHHYH
LRDLLEKP
Ligand information
Ligand IDDGL
InChIInChI=1S/C5H9NO4/c6-3(5(9)10)1-2-4(7)8/h3H,1-2,6H2,(H,7,8)(H,9,10)/t3-/m1/s1
InChIKeyWHUUTDBJXJRKMK-GSVOUGTGSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.0C(CC(=O)O)[C@H](C(=O)O)N
ACDLabs 12.01O=C(O)C(N)CCC(=O)O
OpenEye OEToolkits 1.7.0C(CC(=O)O)C(C(=O)O)N
CACTVS 3.370N[C@H](CCC(O)=O)C(O)=O
CACTVS 3.370N[CH](CCC(O)=O)C(O)=O
FormulaC5 H9 N O4
NameD-GLUTAMIC ACID
ChEMBLCHEMBL76232
DrugBankDB02517
ZINCZINC000000895124
PDB chain6s6y Chain P Residue 403 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6s6y Methylofuran is a prosthetic group of the formyltransferase/hydrolase complex and shuttles one-carbon units between two active sites.
Resolution3.1 Å
Binding residue
(original residue number in PDB)		R124 W147
Binding residue
(residue number reindexed from 1)		R123 W146
Annotation score1
Gene Ontology
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UnboundLocalError		Python 3.6.8: /usr/bin/python3
Fri Nov 15 16:37:35 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 = '6s6y', asym_id = 'P', bs = 'BS01', title = 'Methylofuran is a prosthetic group of the formyl...ttles one-carbon units between two active sites. '
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='6s6y', asym_id='P', bs='BS01', title='Methylofuran is a prosthetic group of the formyl...ttles one-carbon units between two active sites. ')
   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 = '0006730,0016740,0030270', uniprot = '', pdbid = '6s6y', asym_id = 'P'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0006730,0016740,0030270', uniprot='', pdbid='6s6y', asym_id='P')
    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>