Structure of PDB 7o0x Chain M Binding Site BS08

Receptor Information

>7o0x Chain M (length=335) Species: 1379270 (Gemmatimonas phototrophica)

EYQNLFTRVQVRTVPEPGIPIDESTGTRYGTGTFSYLAGKFGDAQIGPIY
LGWAGVLSLIFGFIAIEIIGLNMWASVGWDPVEFIRQLPWLALEPPPPQY
GLRVPPLNQGGWYLMAGFFLTVSIILWWIRIYRRARALQMGSHLPWAFAS
AIFLYSTFFFQPLLVGSWSEMVPFGIFPHLDWTSAFSIRYGNLYYNPFHA
LSIAFLYGSAVLFAMHGATILAVARMGGEREIEQITDRGTAAERSMLFWR
WCMGFNATMESIHRWAWWFAVLTTFTGGIGILLTGTVVDNWYLWGVKHGL
VAPYPAQNQLTPEQQDLLRGRYQGTAPDSFPSYVV

Ligand information

• Ligand ID: MQ8
• InChI: InChI=1S/C51H72O2/c1-38(2)20-13-21-39(3)22-14-23-40(4)24-15-25-41(5)26-16-27-42(6)28-17-29-43(7)30-18-31-44(8)32-19-33-45(9)36-37-47-46(10)50(52)48-34-11-12-35-49(48)51(47)53/h11-12,20,22,24,26,28,30,32,34-36H,13-19,21,23,25,27,29,31,33,37H2,1-10H3/b39-22+,40-24+,41-26-,42-28+,43-30+,44-32+,45-36+
• InChIKey: LXKDFTDVRVLXFY-ACMRXAIVSA-N
• SMILES:
  CACTVS 3.341: CC(C)=CCCC(C)=CCCC(C)=CCCC(C)=CCCC(C)=CCCC(C)=CCCC(C)=CCCC(C)=CCC1=C(C)C(=O)c2ccccc2C1=O
  CACTVS 3.341: CC(C)=CCC/C(C)=C/CCC(/C)=C/CCC(\C)=C/CCC(/C)=C/CCC(/C)=C/CCC(/C)=C/CCC(/C)=C/CC1=C(C)C(=O)c2ccccc2C1=O
  OpenEye OEToolkits 1.5.0: CC1=C(C(=O)c2ccccc2C1=O)C\C=C(/C)\CC\C=C(/C)\CC\C=C(/C)\CC\C=C(/C)\CC\C=C(\C)/CCC=C(C)CC\C=C(/C)\CCC=C(C)C
  OpenEye OEToolkits 1.5.0: CC1=C(C(=O)c2ccccc2C1=O)CC=C(C)CCC=C(C)CCC=C(C)CCC=C(C)CCC=C(C)CCC=C(C)CCC=C(C)CCC=C(C)C
  ACDLabs 10.04: O=C2c1c(cccc1)C(=O)C(=C2C)C\C=C(/C)CC\C=C(/C)CC\C=C(/C)CC\C=C(/C)CC/C=C(/C)CC\C=C(/C)CC\C=C(/C)CC\C=C(/C)C
• Formula: C51 H72 O2
• Name: MENAQUINONE 8;
  2-METHYL-3-(3,7,11,15,19,23,27,31-OCTAMETHYL-DOTRIACONTA-2,6,10,14,18,22,26,30-OCTAENYL)-[1,4]NAPTHOQUINONE
• ZINC: ZINC000098209186
• PDB chain: 7o0x Chain M Residue 407

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7o0x 2.4- angstrom structure of the double-ring Gemmatimonas phototrophica photosystem.
• Resolution: 2.44 Å
• Binding residue (original residue number in PDB): M217 H218 T221 S247 W251 M255 F257 N258 A259 M261 I264 W267
• Binding residue (residue number reindexed from 1): M215 H216 T219 S245 W249 M253 F255 N256 A257 M259 I262 W265
• Annotation score: 4

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Sat Nov 16 07:25:48 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 = '7o0x', asym_id = 'M', bs = 'BS08', title = '2.4- angstrom structure of the double-ring Gemmatimonas phototrophica photosystem.'

 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='7o0x', asym_id='M', bs='BS08', title='2.4- angstrom structure of the double-ring Gemmatimonas phototrophica photosystem.')

   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 = '0009772,0019684,0030077,0045156', uniprot = '', pdbid = '7o0x', asym_id = 'M'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0009772,0019684,0030077,0045156', uniprot='', pdbid='7o0x', asym_id='M')

    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>