Structure of PDB 6d73 Chain D Binding Site BS01

Receptor Information

>6d73 Chain D (length=1256) Species: 7955 (Danio rerio)

LASWIKENIKKKEQWDKHRHVRETPTDAFGDISFGGLGQKTGKYVRVSSD
TSCENLYQLMTEQWKLRSPNLLISVTGGAKNFYIKTHLKDKFRRGLIKVA
QTTGAWILTGGTHAGVMKHVGMAVRDYTLSSGSMEGQIVVIGVAPWGVIH
NRSTLIHPEGRFPAYYSLDEQGQGRLSCLDINHTHFLLVDDGTQGHYGVE
IELRARLEKLISKLSLGGVTIPVVCVVLDGGPGTLNTIYNSMLNHTPCVV
LEGSGRLADVIAHVASVPVSKVTMALINRLLKRFFMQEYKNFTELQIIEW
TKKIQDILRMPHLLTVFRIDEDKNYDVDVAILQALLKASRSDEHAGRHCW
ERQLELAVAWNRVDIAESEIFTEESQWTSSDLHPAMFSALVGDKPEFVRL
LLENGVCVREFLEREETLCELYSHLPSCFFLRKLAKRVQEPLPGSRKVCL
SHVSEEVRHLLGSFTQPLYIASRYDTVWDPGRDLFLWAVVQNNRELAEIG
WEQCRDCIAAALAASKILRKLAQESGEDDSEEATEMLELANHYEKQAIGV
FSECHSWDAQRAQKLLIRISPSWGRSTCLWLALEAHDKSFIAHSGVQALL
TQIWCGELSVDNPHWKVLLCMIFFPLIYTGFLTFRRDEDIQRQAERTEQQ
KNCSSRLMSFLKSPQVKFYWNIASYFGFLWLFAVVLMIDFQTSPSWRELL
LYVWLTSLVCEEIRQLYHDGFRRKAKMYIKDLWNILDVLSIVLFIAGLIC
RLQASDTVFYIGKVILCIDFIIFCLRLMAIFSISRTLGPKIIIVRRMMLD
LFFFMFLLSIWVVAYGVAKQGILIENEERLNWIIRGAVYEPYITIFGNFP
TNIDNTLFDISSCSVNASDPLKPKCPMLNADNTPVFPEWLTIMMLCVYLL
FANILLLNLLIAIFNYTFQEVQDNTDTIWKFQRYELIKEYHSRPALPPPF
ILLSHLILFIRGVFLRHKNFRQELEQTEEEELLSWEAYMKDNYLASTRQD
ESQSVEHRIHDTAEKVGAMSELLEREQEMVAAAAAAAAAAAAAAAAAAAA
AAEEAPHMFARQLQYPDSTVRRFPVPEEKVSWEVNFSPYQPPVYNQQDKH
RNPGGRTGIRGKGALNTLGPNHILHPIFTRWRDAEHKVLEFLAVWEDAEK
RWALLGGPAQPDLAQVLERILGKKLKTLLKAGEEVYKGYVDDSRNTDNAW
VETSIITLHTPLMADLNHMVESSLSSHQPLQWREVSSDACRCSYQREALR
QIAHHH

Ligand information

• Ligand ID: CA
• InChI: InChI=1S/Ca/q+2
• InChIKey: BHPQYMZQTOCNFJ-UHFFFAOYSA-N
• SMILES:
  CACTVS 3.341: [Ca++]
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Ca+2]
• Formula: Ca
• Name: CALCIUM ION
• DrugBank: DB14577
• PDB chain: 6d73 Chain D Residue 1601

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6d73 Visualizing structural transitions of ligand-dependent gating of the TRPM2 channel.
• Resolution: 3.8 Å
• Binding residue (original residue number in PDB): E857 Q860 N883 D886
• Binding residue (residue number reindexed from 1): E712 Q715 N734 D737
• Annotation score: 4

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Mon Dec 2 10:41:57 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 = '6d73', asym_id = 'D', bs = 'BS01', title = 'Visualizing structural transitions of ligand-dependent gating of the TRPM2 channel.'

 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='6d73', asym_id='D', bs='BS01', title='Visualizing structural transitions of ligand-dependent gating of the TRPM2 channel.')

   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 = '0005216,0006811,0016020,0055085', uniprot = '', pdbid = '6d73', asym_id = 'D'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0005216,0006811,0016020,0055085', uniprot='', pdbid='6d73', asym_id='D')

    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>