Structure of PDB 5k6o Chain A Binding Site BS01

Receptor Information

>5k6o Chain A (length=795) Species: 256318 (metagenome)

EKVILDWNEYIEAARSVVSEGCVLLENNGTLPLEKGAVVSIFGRIQTHYY
KSGTGSGGMVNVTHVVGVPEGLKLSEHVTVNEELENIYKEWEEENPFDEG
LGWGTEPWSQPEMELTDEIVSNASAKSDVAIVIIGRTAGEDKDFSDVAGA
YKLSETEEDMLRRVRKHFDKMVVLLNVGSLMDLNVISEINPDALMVIWQG
GMIGGLGTADVLTGKVNPSGKLTDTIAYEINDYPSTENFGDPVRDYYAED
IYVGYRYFETFEKSKVRYPFGYGISYTEFEHTVGEFTADINSRTFTASCT
VKNTGSVAGKDVAQFYVSAPQGKLGKPEKVLVAFKKTGILNPGKEEKITV
TVPFDRFASFDDTGVTGAESCFVLEAGEYTVYEGKNVRESYKEGSFTLEE
NIVTEKLSKALAPMESFKRMKASENSDGTLSVKYEDVPVSDVDEKKRRLD
NMPVEIPQDFTARYSLKDVLSGSVDMEKFIARLSDDDLACIVRGEGMGSS
LVTAGTAAAFGGVSEYLRKMDIPAVCCDDGPSGMRLDSGATAFSMPNGTM
LASTFNPDVIERMYGFTSLEMIYNKVECLLGPGMNIHRNPLNGRNFEYFS
EDPYLNGTIASAMLKGLHKYGSDGVAKHFCCNNQELGRQACDSVVSQRAL
REIYLKGFEIAVKEGGCKAFMTTYAQVNGMWTAGNYDLNTRILRDEWGFK
GIVMTDWWAQVNDRGGEPTKNNTAAMVRAQNDLYMVTANAAMNSANDNTL
SQLSEGKLNRAELQRCAMNICEYAMNTMAMKRLCRNDIKVEIAGR

Ligand information

• Ligand ID: GAL
• InChI: InChI=1S/C6H12O6/c7-1-2-3(8)4(9)5(10)6(11)12-2/h2-11H,1H2/t2-,3+,4+,5-,6-/m1/s1
• InChIKey: WQZGKKKJIJFFOK-FPRJBGLDSA-N
• SMILES:
  CACTVS 3.370: OC[C@H]1O[C@@H](O)[C@H](O)[C@@H](O)[C@H]1O
  OpenEye OEToolkits 1.7.2: C(C1C(C(C(C(O1)O)O)O)O)O
  CACTVS 3.370: OC[CH]1O[CH](O)[CH](O)[CH](O)[CH]1O
  ACDLabs 12.01: OC1C(O)C(OC(O)C1O)CO
  OpenEye OEToolkits 1.7.2: C([C@@H]1[C@@H]([C@@H]([C@H]([C@@H](O1)O)O)O)O)O
• Formula: C6 H12 O6
• Name: beta-D-galactopyranose;
  beta-D-galactose;
  D-galactose;
  galactose
• ChEMBL: CHEMBL300520
• ZINC: ZINC000002597049
• PDB chain: 5k6o Chain A Residue 1000

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5k6o Structural and Functional Characterization of a Ruminal beta-Glycosidase Defines a Novel Subfamily of Glycoside Hydrolase Family 3 with Permuted Domain Topology.
• Resolution: 2.29 Å
• Binding residue (original residue number in PDB): E143 D532 R597 K630 Y677 D709 W710
• Binding residue (residue number reindexed from 1): E140 D529 R594 K627 Y674 D706 W707
• Annotation score: 4

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Mon Nov 25 03:42:00 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 = '5k6o', asym_id = 'A', bs = 'BS01', title = 'Structural and Functional Characterization of a ...ydrolase Family 3 with Permuted Domain Topology. '

 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='5k6o', asym_id='A', bs='BS01', title='Structural and Functional Characterization of a ...ydrolase Family 3 with Permuted Domain Topology. ')

   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 = '0004553,0005975', uniprot = '', pdbid = '5k6o', asym_id = 'A'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0004553,0005975', uniprot='', pdbid='5k6o', 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>