Structure of PDB 5j7z Chain A Binding Site BS03

Receptor Information

>5j7z Chain A (length=450) Species: 685727 (Prescottella equi 103S)

PATPITTLQADGTHLVDGYGRTVLLHGVNNVDKDAPYLPAGETLTPQDID
ILVRHGFNTVRLGTSFDALMPQRGQIDEAYLDRLTGVVDALTARGMHVLL
DNHQDGLSKAWGGNGFPEWAIESRPREWEPNPGFPLYYLMPSLNAGWDEV
WGNTHGALDHLGTALGALAERVEGKPGVMGIELLNEPWPGSRFLSCFPNG
CPDFDRTYQAAMQKLTDAVRAQNPTIPVYWEPNVTWNQMMPSNLFAPPVT
PALTTADVVFAPHDYCIPSQLAIYLGLPQALRGLCVPQQDLTWSNIDAIT
ERANVPTVITSFGDGDPTVLKNTLARADERFIGWQYWHFGAGNATDPFLG
EVGRQLVRTYPQATAGEPGRMIFDADNGDFAYRFTPRAATRPTEIFVSDL
HYPDGYAVQVDGGQVTSAPGARIVTVVADGSGPVTVKINRPGSAGAEVPD

Ligand information

• Ligand ID: 18C
• InChI: InChI=1S/C36H71NO3/c1-3-5-7-9-11-13-15-17-18-20-22-24-26-28-30-32-36(40)37-34(33-38)35(39)31-29-27-25-23-21-19-16-14-12-10-8-6-4-2/h29,31,34-35,38-39H,3-28,30,32-33H2,1-2H3,(H,37,40)/b31-29+/t34-,35+/m0/s1
• InChIKey: VODZWWMEJITOND-NXCSZAMKSA-N
• SMILES:
  CACTVS 3.341: CCCCCCCCCCCCCCCCCC(=O)N[C@@H](CO)[C@H](O)\C=C\CCCCCCCCCCCCC
  ACDLabs 10.04: O=C(NC(CO)C(O)/C=C/CCCCCCCCCCCCC)CCCCCCCCCCCCCCCCC
  OpenEye OEToolkits 1.5.0: CCCCCCCCCCCCCCCCCC(=O)NC(CO)C(C=CCCCCCCCCCCCCC)O
  OpenEye OEToolkits 1.5.0: CCCCCCCCCCCCCCCCCC(=O)N[C@@H](CO)[C@@H](\C=C\CCCCCCCCCCCCC)O
  CACTVS 3.341: CCCCCCCCCCCCCCCCCC(=O)N[CH](CO)[CH](O)C=CCCCCCCCCCCCCC
• Formula: C36 H71 N O3
• Name: N-((E,2S,3R)-1,3-DIHYDROXYOCTADEC-4-EN-2-YL)STEARAMIDE;
  C18-CERAMIDE;
  N-STEAROYL-D-ERYTHRO-SPHINGOSINE;
  (2S,3R,4E)-2-STEAROYLAMINOOCTADEC-4-ENE-1,3-DIOL;
  (2S,3R,4E)-2-STEAROYLAMINO-1,3-OCTADEC-4-ENEDIOL
• ZINC: ZINC000016051949
• PDB chain: 5j7z Chain A Residue 607

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5j7z Structural Insights into the Broad Substrate Specificity of a Novel Endoglycoceramidase I Belonging to a New Subfamily of GH5 Glycosidases.
• Resolution: 2.15 Å
• Binding residue (original residue number in PDB): P163 Y166 E214 V262 N265 Q266 Y293 Q298
• Binding residue (residue number reindexed from 1): P135 Y138 E186 V234 N237 Q238 Y265 Q270
• Annotation score: 1

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Thu Apr 10 16:07:15 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 = '5j7z', asym_id = 'A', bs = 'BS03', title = 'Structural Insights into the Broad Substrate Spe...elonging to a New Subfamily of GH5 Glycosidases. '

 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='5j7z', asym_id='A', bs='BS03', title='Structural Insights into the Broad Substrate Spe...elonging to a New Subfamily of GH5 Glycosidases. ')

   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 = '0000272,0004553', uniprot = '', pdbid = '5j7z', asym_id = 'A'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0000272,0004553', uniprot='', pdbid='5j7z', 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>