Structure of PDB 6jiy Chain A Binding Site BS02

Receptor Information

>6jiy Chain A (length=3521) Species: 9823 (Sus scrofa)

QFLRTDDEVVLQCTATIHKEQQKLCLAAEGFGNRLCFLESTSNSKNVPPD
LSICTFVLEQSLSVRALQEMLANGHRTLLYGHAILLRHSYSGMYLCCLST
SRSSTDKLAFDVGLQEDTTGEACWWTIHPASKQRSEGEKVRVGDDLILVS
VSSERYLHLSYLHVDAAFQQTLWSVAPISSAQGYLIGGDVLRLLHGECLT
VPSGEHEQRRTVHYEGGAVSVHARSLWRLETLRVAWSGSHIRWGQPFRLR
HVTTGKYLSLMEDKSLLLMDKEKADVKSTAFTFRSSKEKLKEVDGMGTSE
IKYGDSVCFIQHIGTGLWLTYQSSIQRKAIMHHEGHMDDGLNLSRSQHEE
SRTARVIRSTVFLFNRFIRGLDALSKKAKASTVDLPIESVSLSLQDLIGY
FHPPDEHLEHEDKQNRLRALKNRQNLFQEEGMINLVLECIDRLHVYSSVA
GREAGESWKSILNSLYELLAALIRGNRKNCAQFSGSLDWLISRLERLEAS
SGILEVLHCVLVESPEALNIIKEGHIKSIISLLDKHGRNHKVLDVLCSLC
VCHGVAVRSNQHLICDNLLPGRDLLLQTRLVNHVSSMRPNIFLGKKWYYE
LMVDHTEPFVTAEATHLRVGWASTEGYSPYPGGGEEWGGNGVGDDLFSYG
FDGLHLWSGCIARTVSSPNQHLLRTDDVISCCLDLSAPSISFRINGQPVQ
GMFENFNIDGLFFPVVSFSAGIKVRFLLGEFKFLPPPGYAPCYEAVLPKE
KLKVEHSREYKQERTYTRDLLGPTVSAFTPIPVDTSQIVLPPHLERIREK
LAENIHELWVMNKIELGWQYGPVRDDNKRQHPCLVEFSKLPEQERNYNLQ
MSLETLKTLLALGCHVGISDEHAYQLTSGYKPAPMDLSFIKLTPSQEAMV
DKLAENAHNVWARDRIRQRRNPRLVPYALLDDRTKKSNKDSLREAVRTLL
GYGYNLEARFRIFRAEKTYAVKAGRWYFEFEAVTAGDMRVGWSRPGCQPD
QELGSDERAFAFDGFKAQRWHQGNEHYGRSWQAGDVVGCMVDMTEHTMMF
TLNGEILLDDSGSELAFKDFDVGDGFIPVCSLGVAQVGRMNFGKDVSTLK
YFTICGLQEGYEPFAVNTNRDITMWLSKRLPQFLQVPSSHEHIEVTRIDV
TQKSFGSQNSSTDIMFYRLSMPIECTYYYSVRIFPNVWVGWITSDFHQYD
TAFDLVTVTLGDEKGKVHESIKRSNYMVCANNGLEIGCVVGLLTFTANGK
DLSTYYQVEPSTKLFPAVFAQATSPNVFQFEAGLFKSEHKNPVPQCPPRL
HVQFLSHVLWSRMPNQFLKVDVSRISERQGWLVQCLEPLQFMSLHIPEEN
RSVDILELTEQEELLKFHYHTLRLYSAVCALGNHRVAHALCSHVDEPQLL
YAIENKYMPGLLRAGYYDLLIDIHLSSYATARLMMNNEFIVPMTEETKSI
TLFPDGLPGIGLSTSLRPRMQFSSPSFVSINNECYQYSPEFPLDILKAKT
IQMLTEAVQEGSLHARDPVGGTTEFLFVPLIKLFYTLLIMGIFHNEDLKH
ILQLIEPSGLLQMKLPEPVKLQMCLLLQYLCDCQVRHRIEAIVAFSDDFV
AKLQDNQRFRYNEVMQALNCPCPEEIRDQLLDFHEDLMTHCGIELDLTIR
GRLLSLVEKVTYTLQQLISETMVRWAQESVIEDPELVRAMFVLLHRQYDG
IGGLVRALPKTYTINGVSVEDTINLLASLGQIRSLLSVEEEKLMIRGLGD
IMNNKVFYQHPNLMRALGMHETVMEVMVNVLGPKMVANCCRFLCYFCRIS
RQNQKAMFDHLSYLLENSSVGLASPAMRGSTPLDVAAASVMDNNELALAL
REPDLEKVVRYLAGCGLPVEGERYLDFLRFAVFCNGESVEENANVVVRLL
IRRPEGLLAAMEEAIKIAEGNAIMTFYAALIDLLGRCAPEMHLIHAAKGE
AIRIRSILRSLIPLGDLVGVISIAFQFCPDHKAAMVLFLDRVYVQDFLLH
LLEVGFLPDLRAAASLTDMALALNRYLCTAVLPLLFAGTEHHASLIDSLL
HTVKGCSLTKAQRDSIEVCLLSRPSMMQHLLRRLVFDVPLLNKMPLKLLT
NHYERCWKYYCLPGGASEEELHLSRKLFWGIFDALYEQELFKLALPCLSA
VAGALPPNFNPQPVDTSNITIPEKLEYFINKYAEHSHDKWSMDKLANGWI
YGEIYSDSSKVQPLMKPYKLLSEKEKEIYRWPIKESLKTMLAWGWRIERT
REGDAAHGYSPRAIDMSNVTLSRDLHAMAEMMAENYHNIWAKKKKLELES
KGGGNHPLLVPYDTLTAKEKAKDREKAQDILKFLQINGYAVSRGYFLSAA
SRPLCSGGHASNKEKEMVFCKLGVLVRHRISLFGNDATLHILGQTLDART
VMKTGLESVKFLDNAAEDLEKTMENLKQGQFTTTVALLPMLSSLFEHIGQ
HQFLEDVQVSCYRILTSLYALGQRSALGECLAAFAGAAFLETHLDKHNIY
SKAVWHKLLSKQRKRAVVACFRMAPLYNLPRHRAVNLFLQGYEKSWIETE
EHYFEDKLIEDLAKPRVDPLHQLILLFSRTALTEKCKLEEDFLYMAYADI
MAKSCSFEEKEMEKQKLLYQQARLHDRGAAEMVLQTISASKGETGPMVAA
TLKLGIAILNGGNSTVQQKMLEYLKEKKDVGFFQSLAGLMQSCSVLDLNA
FERQNKAEGLGMVTEEGSGEKVLQDDEFTCDLFRFLQLLCEGHNSDFQNY
LRTQTGNNTTVNIIISTVDYLLRVQESISDFYWYYSGKDVIDEQGQRNFS
KAIQVAKQVFNTLTEYIQGPCTGNQQSLAHSRLWDAVVGFLHVFAHMQMK
LSQDSSQIELLKELMDLQKDMVVMLLSMLEGNVVNGTIGKQMVDMLVESS
NNVEMILKFFDMFLKLKDLTSSDTFKEYDPDGKGVISKRDFHKAMESHKH
YTQSETEFLLSCAETDENETLDYEEFVKRFHEPAKDIGFNVAVLLTNLSE
HMPNDTRLQTFLELAESVLNYFQPFLGRIEIMGSAKRIERVYFEISESSR
TQWEKPQVKESKRQFIFDVVNEGGEKEKMELFVNFCEDTIFEMQLAAQII
AYQQKLLNYFARNFYNMRMLALFVAFAINFILLFYKVVHYVLEESSGYME
PTLRILAILHTVISFFCIIGYYCLKVPLVIFKREKEVARKLEFDGLYITE
QPSEDDIKGQWDRLVINTQSFPNNYWDKFVKRKVMDKYGEFYGRDRISEL
LGSAVLNSIDVKYQMWKLGVVFTDNSFLYLAWYMTMSVLGHYNNFFFAAH
LLDIAMGFKTLRTILSSVTHNGKQLVLTVGLLAVVVYLYTVVAFNFFRKF
YNKSEDGDTPDMKCDDMLTCYMFHMYVGVRAGGGIGDEIEDPAGDEYEIY
RIIFDITFFFFVIVILLAIIQGLIIDAFGELRDQQEQVKEDMETKCFICG
IGNDYFDTVPHGFETHTLQEHNLANYLFFLMYLINKDETEHTGQESYVWK
MYQERCWEFFPAGDCFRKQYE

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: 6jiy Chain A Residue 6001

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6jiy Modulation of cardiac ryanodine receptor 2 by calmodulin.
• Resolution: 3.9 Å
• Binding residue (original residue number in PDB): E3849 E3923 T4932
• Binding residue (residue number reindexed from 1): E2741 E2815 T3489
• Annotation score: 5

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Fri Nov 22 17:39:19 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 = '6jiy', asym_id = 'A', bs = 'BS02', title = 'Modulation of cardiac ryanodine receptor 2 by calmodulin.'

 /var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='6jiy', asym_id='A', bs='BS02', title='Modulation of cardiac ryanodine receptor 2 by calmodulin.')

   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 = '0005216,0005219,0005262,0005509,0006811,0006816,0006874,0016020,0055085,0070588', uniprot = '', pdbid = '6jiy', asym_id = 'A'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0005216,0005219,0005262,0005509,0006811,0006816,0006874,0016020,0055085,0070588', uniprot='', pdbid='6jiy', asym_id='A')

    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>