Structure of PDB 3qpb Chain Q Binding Site BS01

Receptor Information

>3qpb Chain Q (length=248) Species: 301450 (Streptococcus pyogenes serotype M6)

GLQYHLQIRPGDVGRYVIMPGDPKRCAKIAEHFDNAVLVADSREYVTYTG
TLNGEKVSVTSTGIGGPSASIAMEELKLCGADTFIRVGTCGGIELDVKGG
DIVIATGAIRMEGTSKEYAPIEFPAVADLEVTNALVNAAKKLGYTSHAGV
VQCKDAFYGQHEPERMPVSYELLNKWEAWKRLGTKASEMESAALFVAASH
LGVRCGSDFLVVGNQERNALGMDNPMAHDTEAAIQVAVEALRTLIEND

Ligand information

• Ligand ID: R1P
• InChI: InChI=1S/C5H11O8P/c6-1-2-3(7)4(8)5(12-2)13-14(9,10)11/h2-8H,1H2,(H2,9,10,11)/t2-,3-,4-,5-/m1/s1
• InChIKey: YXJDFQJKERBOBM-TXICZTDVSA-N
• SMILES:
  OpenEye OEToolkits 1.5.0: C([C@@H]1[C@H]([C@H]([C@H](O1)OP(=O)(O)O)O)O)O
  OpenEye OEToolkits 1.5.0: C(C1C(C(C(O1)OP(=O)(O)O)O)O)O
  CACTVS 3.341: OC[C@H]1O[C@H](O[P](O)(O)=O)[C@H](O)[C@@H]1O
  CACTVS 3.341: OC[CH]1O[CH](O[P](O)(O)=O)[CH](O)[CH]1O
  ACDLabs 10.04: O=P(OC1OC(C(O)C1O)CO)(O)O
• Formula: C5 H11 O8 P
• Name: 1-O-phosphono-alpha-D-ribofuranose;
  RIBOSE-1-PHOSPHATE;
  1-O-phosphono-alpha-D-ribose;
  1-O-phosphono-D-ribose;
  1-O-phosphono-ribose
• ChEMBL: CHEMBL603367
• DrugBank: DB03101
• ZINC: ZINC000004228268
• PDB chain: 3qpb Chain Q Residue 1254

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3qpb The Crystal Structure of Streptococcus pyogenes Uridine Phosphorylase Reveals a Distinct Subfamily of Nucleoside Phosphorylases.
• Resolution: 1.82 Å
• Binding residue (original residue number in PDB): G29 R33 R94 T97 F165 E196 M197 E198
• Binding residue (residue number reindexed from 1): G21 R25 R86 T89 F157 E188 M189 E190
• Annotation score: 5

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Thu Dec 12 07:40:58 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 = '3qpb', asym_id = 'Q', bs = 'BS01', title = 'The Crystal Structure of Streptococcus pyogenes ... Distinct Subfamily of Nucleoside Phosphorylases.'

 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='3qpb', asym_id='Q', bs='BS01', title='The Crystal Structure of Streptococcus pyogenes ... Distinct Subfamily of Nucleoside Phosphorylases.')

   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 = '0003824,0004850,0005737,0009116,0009166,0016763', uniprot = '', pdbid = '3qpb', asym_id = 'Q'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003824,0004850,0005737,0009116,0009166,0016763', uniprot='', pdbid='3qpb', asym_id='Q')

    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>