Structure of PDB 6jrr Chain A

Receptor sequence

>6jrrA (length=3460) Species: 9823 (Sus scrofa)

QFLRTDDEVVLQCTATIHKEQQKLCLAAEGFGNRLCFLESTSNSKNVPPD
LSICTFVLEQSLSVRALQEMLANGHRTLLYGHAILLRHSYSGMYLCCLST
SRKLAFDVGLQEDTTGEACWWTIHPASKQRSEGEKVRVGDDLILVSVSSE
RYLHLSYLHVDAAFQQTLWSVAPISSAQGYLIGGDVLRLLHGECLTVPSG
EHEQRRTVHYEGGAVSVHARSLWRLETLRVAWSGSHIRWGQPFRLRHVTT
GKYLSLMEDKSLLLMDKEKADVKSTAFTFRSSKERKEVDGMGTSEIKYGD
SVCFIQHIGTGLWLTYQSSIQRKAIMHHEGHMDDGLNLSRSQHEESRTAR
VIRSTVFLFNRFIRGLDALSKKAKASTVDLPIESVSLSLQDLIGYFHPPD
EHLEHEDKQNRLRALKNRQNLFQEEGMINLVLECIDRLHVYSSVAGREAG
ESWKSILNSLYELLAALIRGNRKNCAQFSGSLDWLISRLERLEASSGILE
VLHCVLVESPEALNIIKEGHIKSIISLLDKHGRNHKVLDVLCSLCVCHGV
AVRSNQHLICDNLLPGRDLLLQTRLVNHVSSMRPNIFLGKKWYYELMVDH
TEPFVTAEATHLRVGWASTEGYSPYPGGGEEWGGNGVGDDLFSYGFDGLH
LWSGCIARTVSSPNQHLLRTDDVISCCLDLSAPSISFRINGQPVQGMFEN
FNIDGLFFPVVSFSAGIKVRFLLGEFKFLPPPGYAPCYEAVLPKEKLKVE
HSREYKQERTYTRDLLGPTVSAFTPIPVDTSQIVLPPHLERIREKLAENI
HELWVMNKIELGWQYGPVRDDNKRQHPCLVEFSKLPEQERNYNLQMSLET
LKTLLALGCHVGISDEHAYQLTSGYKPAPMDLSFIKLTPSQEAMVDKLAE
NAHNVWARDRIRQRRNPRLVPYALLDDRTKKSNKDSLREAVRTLLGYGYN
LEARFRIFRAEKTYAVKAGRWYFEFEAVTAGDMRVGWSRPGCQPDQELGS
DERAFAFDGFKAQRWHQGNEHYGRSWQAGDVVGCMVDMTEHTMMFTLNGE
ILLDDSGSELAFKDFDVGDGFIPVCSLGVAQVGRMNFGKDVSTLKYFTIC
GLQEGYEPFAVNTNRDITMWLSKRLPQFLQVPSSHEHIEVTRIDVTQKSF
GSQNSSTDIMFYRLSMPIECTYYYSVRIFPNVWVGWITSDFHQYDTAFDL
VTVTLGDEKGKVHESIKRSNYMVCANNGLEIGCVVGLLTFTANGKDLSTY
YQVEPSTKLFPAVFAQATSPNVFQFEAGLFKSEHKNPVPQCPPRLHVQFL
SHVLWSRMPNQFLKVDVSRISERQGWLVQCLEPLQFMSLHIPEENRSVDI
LELTEQEELLKFHYHTLRLYSAVCALGNHRVAHALCSHVDEPQLLYAIEN
KYMPGLLRAGYYDLLIDIHLSSYATARLMMNNEFIVPMTEETKSITLFPD
PGIGLSTSLRPRMQFSSPSFVSINNECYQYSPEFPLDILKAKTIQMLTEA
VQEGSLHARDPVGGTTEFLFVPLIKLFYTLLIMGIFHNEDLKHILQLIEP
SGLLQMKLPEPVKLQMCLLLQYLCDCQVRHRIEAIVAFSDDFVAKLQDNQ
RFRYNEVMQALEEIRDQLLDFHEDLMTHCGIELDLTIRGRLLSLVEKVTY
TLQQLISETMVRWAQESVIEDPELVRAMFVLLHRQYDGIGGLVRALPKTY
TINGVSVEDTINLLASLGQIRSLLSVEEEKLMIRGLGDIMNNKVFYQHPN
LMRALGMHETVMEVMVNVLGPKMVANCCRFLCYFCRISRQNQKAMFDHLS
YLLENSSVTPLDVAAASVMDNNELALALREPDLEKVVRYLAGCGLPVEGE
RYLDFLRFAVFCNGESVEENANVVVRLLIRRPEGLLAAMEEAIKIGNAIM
TFYAALIDLLGRCAPEMHLIHAAKGEAIRIRSILRSLIPLGDLVGVISIA
FQFCPDHKAAMVLFLDRVYVQDFLLHLLEVGFLPDLRAAASLTDMALALN
RYLCTAVLPLLLFAGTEHHASLIDSLLHTVKGCSLTKAQRDSIEVCLLSP
SMMQHLLRRLVFDVPLLNKMPLKLLTNHYERCWKYYCLPGGASEEELHLS
RKLFWGIFDALYEQELFKLALPCLSAVAGALPNFNPQPVDTSNITIPEKL
EYFINKYAEHSHDKWSMDKLANGWIYGEIYSDSSKVQPLMKPYKLLSEKE
KEIYRWPIKESLKTMLAWGWRIERTREGDAAHGYSPRAIDMSNVTLSRDL
HAMAEMMAENYHNIWAKKKKLELESKGGGNHPLLVPYDTLTAKEKAKDRE
KAQDILKFLQINGYAVSRGYFLSAASRPLCSGGHASNKEKEMVFCKLGVL
VRHRISLFGNDATLHILGQTLDARTVMKTGLESVKFLDNAAEDLEKTMEN
LKQGQFTTTVALLPMLSSLFEHIGQHQFLEDVQVSCYRILTSLYALGTSV
ERQRSALGECLAAFAGAAFLETHLDKHNIYSPLYNLPRHRAVNLFLQGYE
KSWIETEEHYFEDKLIEDLAKPRVDPLHQLILLFSRTALTEKCKLEEDFL
YMAYADIMAKSCSFEEKEMEKQKLLYQQARLHDRGAAEMVLQTISASKGE
TGPMVAATLKLGIAILNGGNSTVQQKMLEYLKEKKDVGFFQSLAGLMQSC
SVLDLNAFERQNKAEGLGGEKVLQDDEFTCDLFRFLQLLCEGHNSDFQNY
LRTQTGNNTTVNIIISTVDYLLRVQESISDFYWYYSGKDVIDEQGQRNFS
KAIQVAKQVFNTLTEYIQGPCTGNQQSLAHSRLWDAVVGFLHVFAHMQMK
LSQDSSQIELLKELMDLQKDMVVMLLSMLEGNVVNGTIGKQMVDMLVESS
NNVEMILKFFDMFLKLKDLTSSDTFKEYDPDGKGVISKRDFHKAMESHKH
YTQSETEFLLSCATLDYEEFVKRFHEPAKDIGFNVAVLLTNLSEHMPNDT
RLQTFLELAESVLNYFQPFLGRIEIMGSAKRIERVYFEISESSRTQWEKP
QVKESKRQFIFDVVNEGGEKEKMELFVNFCEDTIFEMQLAAQIAYQQKLL
NYFARNFYNMRMLALFVAFAINFILLFYKVVHYVLEESSGYMEPTLRILA
ILHTVISFFCIIGYYCLKVPLVIFKREKEVARKLEFDGLYITEQPSEDDI
KGQWDRLVINTQSFPNNYWDKFVKRKVMDKYGEFYGRDRISELLGNSIDV
KYQMWKLGVVFTDNSFLYLAWYMTMSVLGHYNNFFFAAHLLDIAMGFKTL
RTILSSVTHNGKQLVLTVGLLAVVVYLYTVVAFNFFRKFYNKSEDGDTPD
MKCDDMLTCYMFHMYVGVRAGGGIGDEIEDPAGDEYEIYRIIFDITFFFF
VIVILLAIIQGLIIDAFGELRDQQEQVKEDMETKCFICGIGNDYFDTVPH
GFETHTLQEHNLANYLFFLMYLINKDETEHTGQESYVWKMYQERCWEFFP
AGDCFRKQYE

3D structure

• PDB: 6jrr Modulation of cardiac ryanodine receptor 2 by calmodulin.
• Chain: A
• Resolution: 3.9 Å

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	ZN	A	C4889 C4892 H4909 H4914	C3385 C3388 H3405 H3410
BS02	CA	A	E3849 E3923 T4932	E2691 E2765 T3428
BS03	ATP	A	K4170 R4171 M4885 F4890 T4910 L4916	K3006 R3007 M3381 F3386 T3406 L3412
BS04	CFF	A	W4646 I4927 Y4945	W3169 I3423 Y3441

Gene Ontology

--> -->

UnboundLocalError

Python 3.6.8: /usr/bin/python3 Mon Dec 2 03:12:26 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>()

   1443                 pubmed=display_regular_ligand(pdbid,asym_id,lig3,ligIdx,title)

   1444         else:

=> 1445             pubmed,uniprot=display_protein_receptor(pdbid,asym_id,title)

   1446     

   1447     uniprot_line=''

pubmed = '', uniprot = '', display_protein_receptor = <function display_protein_receptor>, pdbid = '6jrr', asym_id = 'A', title = 'Modulation of cardiac ryanodine receptor 2 by calmodulin.'

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

    839 

    840     if go:

=>  841         display_go(go,uniprot,pdbid,asym_id)

    842     return pubmed,uniprot

    843 

global display_go = <function display_go>, go = '0005216,0005219,0005262,0005509,0006811,0006816,0006874,0016020,0055085,0070588', uniprot = '', pdbid = '6jrr', 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='6jrr', 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>