Structure of PDB 6lm0 Chain C Binding Site BS01

Receptor Information
>6lm0 Chain C (length=242) Species: 1954171 (Calothrix sp. NIES-2098) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SGMTQFWLWVGFIGMVIGCIYFGMKASAMRRREGMEFPLESFFITLWAAA
LYLTMILGETVTPINGQTVFWGRYIDWVVTTPLLLMELGVIAGLRPKLIA
GVMGADIFMIVTGFIGAVEAPPYNYLWWLISTGSFLAILGSLLTEYSASA
KRRNGRINSLFQTLRNILIVLWICYPIVWILGAEGFHVISVGWETLCYSV
LDVCAKVGFGFVVVSAGNETLAQASNSDRIMETVHSYMQSEE
Ligand information
Ligand IDRET
InChIInChI=1S/C20H28O/c1-16(8-6-9-17(2)13-15-21)11-12-19-18(3)10-7-14-20(19,4)5/h6,8-9,11-13,15H,7,10,14H2,1-5H3/b9-6+,12-11+,16-8+,17-13+
InChIKeyNCYCYZXNIZJOKI-OVSJKPMPSA-N
SMILES
SoftwareSMILES
CACTVS 3.370CC(=C\C=O)/C=C/C=C(C)/C=C/C1=C(C)CCCC1(C)C
ACDLabs 12.01O=C\C=C(\C=C\C=C(\C=C\C1=C(C)CCCC1(C)C)C)C
OpenEye OEToolkits 1.7.0CC1=C(C(CCC1)(C)C)/C=C/C(=C/C=C/C(=C/C=O)/C)/C
OpenEye OEToolkits 1.7.0CC1=C(C(CCC1)(C)C)C=CC(=CC=CC(=CC=O)C)C
CACTVS 3.370CC(=CC=O)C=CC=C(C)C=CC1=C(C)CCCC1(C)C
FormulaC20 H28 O
NameRETINAL
ChEMBLCHEMBL81379
DrugBank
ZINCZINC000004228262
PDB chain6lm0 Chain C Residue 301 [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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PDB6lm0 A unique clade of light-driven proton-pumping rhodopsins evolved in the cyanobacterial lineage.
Resolution2.65 Å
Binding residue
(original residue number in PDB)		W75 T79 M107 W126 T130 F133 W170 Y173 P174 W177 D200 K204
Binding residue
(residue number reindexed from 1)		W77 T81 M109 W128 T132 F135 W172 Y175 P176 W179 D202 K206
Annotation score4
Gene Ontology
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UnboundLocalError		Python 3.6.8: /usr/bin/python3
Fri Nov 15 09:41:37 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 = '6lm0', asym_id = 'C', bs = 'BS01', title = 'A unique clade of light-driven proton-pumping rhodopsins evolved in the cyanobacterial lineage.'
 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='6lm0', asym_id='C', bs='BS01', title='A unique clade of light-driven proton-pumping rhodopsins evolved in the cyanobacterial lineage.')
   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 = '0005216,0006811,0016020', uniprot = '', pdbid = '6lm0', asym_id = 'C'
 /var/www/html/BioLiP/pdb.cgi in display_go(go='0005216,0006811,0016020', uniprot='', pdbid='6lm0', asym_id='C')
    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>