Structure of PDB 4pmz Chain B Binding Site BS02

Receptor Information
>4pmz Chain B (length=303) Species: 190486 (Xanthomonas citri pv. citri str. 306) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
APLAATASKFLGCAYGAQQAPGFAQYWNKLTPENGGKWGSVEAVRDQMDW
STLDAAYRFAQANQMPFQMHVMVWGNQQPEWIKTLRPAEQRREIEQWFAA
VAQRYPDIALLEVVNEPLNDPPSKADTGGGNYLQALGGNGDSGWEWVLQS
FRLARRHFPHTKLMINDYSITSSAQATQKYLQIVRLLQRENLVDAIGVQE
HAFETTPEVAVSVHRDNLDALAATGLPIYITEFDLDGPTDAQQLADYKRV
FPVFWEHPAVHGITLWGFRPGLWRDKEAAYLIRADGTERPALTWLRDYVA
AHP
Ligand information
Ligand IDXYP
InChIInChI=1S/C5H10O5/c6-2-1-10-5(9)4(8)3(2)7/h2-9H,1H2/t2-,3+,4-,5-/m1/s1
InChIKeySRBFZHDQGSBBOR-KKQCNMDGSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0C1C(C(C(C(O1)O)O)O)O
CACTVS 3.341O[C@@H]1CO[C@@H](O)[C@H](O)[C@H]1O
OpenEye OEToolkits 1.5.0C1[C@H]([C@@H]([C@H]([C@@H](O1)O)O)O)O
CACTVS 3.341O[CH]1CO[CH](O)[CH](O)[CH]1O
ACDLabs 10.04OC1C(O)COC(O)C1O
FormulaC5 H10 O5
Namebeta-D-xylopyranose;
beta-D-xylose;
D-xylose;
xylose
ChEMBL
DrugBank
ZINCZINC000001529215
PDB chain4pmz Chain D Residue 2 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB4pmz Molecular mechanisms associated with xylan degradation by xanthomonas plant pathogens.
Resolution1.401 Å
Binding residue
(original residue number in PDB)		E55 N56 Q99 W295
Binding residue
(residue number reindexed from 1)		E33 N34 Q77 W273
Annotation score4
Gene Ontology
--> -->
 
 
UnboundLocalError		Python 3.6.8: /usr/bin/python3
Fri Nov 15 17:41:47 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 = '4pmz', asym_id = 'B', bs = 'BS02', title = 'Molecular mechanisms associated with xylan degradation by xanthomonas plant pathogens.'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='4pmz', asym_id='B', bs='BS02', title='Molecular mechanisms associated with xylan degradation by xanthomonas plant pathogens.')
   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 = '4pmz', asym_id = 'B'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0004553,0005975', uniprot='', pdbid='4pmz', asym_id='B')
    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>