Structure of PDB 2r9r Chain B Binding Site BS02

Receptor Information

>2r9r Chain B (length=386) Species: 10116 (Rattus norvegicus)

SERVVINISGLRFETQLKTLAQFPETLLGDPKKRMRYFDPLRNEYFFDRN
RPSFDAILYYYQSGGRLRRPVNVPLDIFSEEIRFYELGEEAMEMFREDEG
YIKEEERPLPENEFQRQVWLLFEYPESSGPARIIAIVSVMVILISIVSFC
LETLPIFRDENEDMHGGGVTFHTYSQSTIGYQQSTSFTDPFFIVETLCII
WFSFEFLVRFFACPSKAGFFTNIMNIIDIVAIIPYYVTIFLTESNKSVLQ
FQNVRRVVQIFRIMRILRIFKLSRHSKGLQILGQTLKASMRELGLLIFFL
FIGVILFSSAVYFAEADERDSQFPSIPDAFWWAVVSMTTVGYGDMVPTTI
GGKIVGSLCAIAGVLTIALPVPVIVSNFNYFYHRET

Ligand information

• Ligand ID: PGW
• InChI: InChI=1S/C40H77O10P/c1-3-5-7-9-11-13-15-17-18-20-22-24-26-28-30-32-40(44)50-38(36-49-51(45,46)48-34-37(42)33-41)35-47-39(43)31-29-27-25-23-21-19-16-14-12-10-8-6-4-2/h17-18,37-38,41-42H,3-16,19-36H2,1-2H3,(H,45,46)/b18-17-/t37-,38+/m0/s1
• InChIKey: PAZGBAOHGQRCBP-HGWHEPCSSA-N
• SMILES:
  CACTVS 3.341: CCCCCCCCCCCCCCCC(=O)OC[CH](CO[P](O)(=O)OC[CH](O)CO)OC(=O)CCCCCCCC=CCCCCCCCC
  OpenEye OEToolkits 1.5.0: CCCCCCCCCCCCCCCC(=O)OC[C@H](CO[P@@](=O)(O)OC[C@H](CO)O)OC(=O)CCCCCCCC=CCCCCCCCC
  OpenEye OEToolkits 1.5.0: CCCCCCCCCCCCCCCC(=O)OCC(COP(=O)(O)OCC(CO)O)OC(=O)CCCCCCCC=CCCCCCCCC
  CACTVS 3.341: CCCCCCCCCCCCCCCC(=O)OC[C@H](CO[P@](O)(=O)OC[C@@H](O)CO)OC(=O)CCCCCCC\C=C/CCCCCCCC
  ACDLabs 10.04: O=C(OC(COP(=O)(OCC(O)CO)O)COC(=O)CCCCCCCCCCCCCCC)CCCCCCC\C=C/CCCCCCCC
• Formula: C40 H77 O10 P
• Name: (1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec-9-enoate;
  1-Palmitoyl-2-Oleoyl-sn-Glycero-3-[Phospho-(1-glycerol)];
  PHOSPHATIDYLGLYCEROL
• ZINC: ZINC000008552309
• PDB chain: 2r9r Chain B Residue 510

Receptor-Ligand Complex Structure

Structure summary

• PDB: 2r9r Atomic structure of a voltage-dependent K+ channel in a lipid membrane-like environment.
• Resolution: 2.4 Å
• Binding residue (original residue number in PDB): S307 K308 G309
• Binding residue (residue number reindexed from 1): S276 K277 G278
• Annotation score: 1

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Fri Nov 15 11:57:15 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 = '2r9r', asym_id = 'B', bs = 'BS02', title = 'Atomic structure of a voltage-dependent K+ channel in a lipid membrane-like environment.'

 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='2r9r', asym_id='B', bs='BS02', title='Atomic structure of a voltage-dependent K+ channel in a lipid membrane-like environment.')

   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 = '0005216,0005249,0006811,0006813,0008076,0016020,0051260,0055085', uniprot = '', pdbid = '2r9r', asym_id = 'B'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0005216,0005249,0006811,0006813,0008076,0016020,0051260,0055085', uniprot='', pdbid='2r9r', 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>