Structure of PDB 5aj4 Chain Ag Binding Site BS02

Receptor Information
>5aj4 Chain Ag (length=346) Species: 9823 (Sus scrofa) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PPPPPPPPPPPPPPPPPPSLQELKTVFPHGLPPRFAMQVKTFNEACLMVR
KPALELLHYLKNTNFAHPAVRYVLYGEKGTGKTLSLCHILHFCAKQNWLI
LHIPDAHIWVKNCRDLLQSNYNKQRFDQPLEASTWLKNFKTANEHFLSQI
KVQEKYVWNKRESTEKGRPLGEVVEQGIMRVRNATDAVGIVLKELKRQSS
LGIFHLLVAVDGVNALWGRTTLKREDKSPIAPEELALIHNLRKMVKNDWQ
GGAIVLTVSQTGSLFKPRNAYLPQELLGKEGFDALDPFIPILVSNYNPKE
FESCIQYYLENNWLQHEKAHTEEGKKELLFLSNRNPGQLERLCAYL
Ligand information
Ligand IDGDP
InChIInChI=1S/C10H15N5O11P2/c11-10-13-7-4(8(18)14-10)12-2-15(7)9-6(17)5(16)3(25-9)1-24-28(22,23)26-27(19,20)21/h2-3,5-6,9,16-17H,1H2,(H,22,23)(H2,19,20,21)(H3,11,13,14,18)/t3-,5-,6-,9-/m1/s1
InChIKeyQGWNDRXFNXRZMB-UUOKFMHZSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6c1nc2c(n1C3C(C(C(O3)COP(=O)(O)OP(=O)(O)O)O)O)N=C(NC2=O)N
CACTVS 3.385NC1=Nc2n(cnc2C(=O)N1)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O
CACTVS 3.385NC1=Nc2n(cnc2C(=O)N1)[CH]3O[CH](CO[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O
ACDLabs 12.01O=P(O)(O)OP(=O)(O)OCC3OC(n2cnc1c2N=C(N)NC1=O)C(O)C3O
OpenEye OEToolkits 1.7.6c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)OP(=O)(O)O)O)O)N=C(NC2=O)N
FormulaC10 H15 N5 O11 P2
NameGUANOSINE-5'-DIPHOSPHATE
ChEMBLCHEMBL384759
DrugBankDB04315
ZINCZINC000008215481
PDB chain5aj4 Chain Ag Residue 500 [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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PDB5aj4 The complete structure of the 55S mammalian mitochondrial ribosome.
Resolution3.8 Å
Binding residue
(original residue number in PDB)		R85 M99 K129 G130 G132 T134 L135 Y347
Binding residue
(residue number reindexed from 1)		R34 M48 K78 G79 G81 T83 L84 Y296
Annotation score4
Gene Ontology
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UnboundLocalError		Python 3.6.8: /usr/bin/python3
Thu Mar 13 11:33:13 2025

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 = '5aj4', asym_id = 'Ag', bs = 'BS02', title = 'The complete structure of the 55S mammalian mitochondrial ribosome.'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='5aj4', asym_id='Ag', bs='BS02', title='The complete structure of the 55S mammalian mitochondrial ribosome.')
   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 = '0005761,0006915,0015935', uniprot = '', pdbid = '5aj4', asym_id = 'Ag'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0005761,0006915,0015935', uniprot='', pdbid='5aj4', asym_id='Ag')
    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>