Structure of PDB 6i8r Chain A Binding Site BS01

Receptor Information
>6i8r Chain A (length=365) Species: 32630 (synthetic construct) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TKPHVNIGTIGHVDHGKTTLTAAITKVLAEKGITINTAHVEYETENRHYA
HVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGV
PYIVVFLNKCDMVDDEELLELVEMEVRELLSEYDFPGDDIPIIRGSALKA
LEGDEEWVEKIMELMDAVDSYIPEPERDIDKPFLMPIEDVFSITGRGTVV
TGRVERGIVKVGDEVEIVGLRDTRKTVVTGVEMFRKLLDEGQAGDNVGVL
LRGIKREDVERGQVLAKPGSIKPHTKFKAEVYVLTKEEGGRHTPFFNGYR
PQFYFRTTDVTGVITLPEGVEMVMPGDNVTMTVELIHPIAMEEGLRFAIR
EGGRTVGAGVVSEII
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 chain6i8r Chain A Residue 401 [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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PDB6i8r Crystal structure of an ancient sequence-reconstructed Elongation factor Tu (node 170)
Resolution2.0 Å
Binding residue
(original residue number in PDB)		D21 G23 K24 T25 T26 N135 K136 D138 M139 S173 L175
Binding residue
(residue number reindexed from 1)		D14 G16 K17 T18 T19 N108 K109 D111 M112 S146 L148
Annotation score4
Gene Ontology
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UnboundLocalError		Python 3.6.8: /usr/bin/python3
Sat Nov 16 16:35:17 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 = '6i8r', asym_id = 'A', bs = 'BS01', title = 'Crystal structure of an ancient sequence-reconstructed Elongation factor Tu (node 170)'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='6i8r', asym_id='A', bs='BS01', title='Crystal structure of an ancient sequence-reconstructed Elongation factor Tu (node 170)')
   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 = '0003746,0003924,0005525,0006414', uniprot = '', pdbid = '6i8r', asym_id = 'A'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003746,0003924,0005525,0006414', uniprot='', pdbid='6i8r', 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>