Structure of PDB 6ji0 Chain G

Receptor sequence

>6ji0G (length=3476) Species: 9823 (Sus scrofa)

QFLRTDDEVVLQCTATIHKEQQKLCLAAEGFGNRLCFLESTSNSKNVPPD
LSICTFVLEQSLSVRALQEMLANTFMMKTAQGGGHRTLLYGHAILLRHSY
SGMYLCCLSTSRSSTDKLAFDVGLQEDTTGEACWWTIHPASKQRSEGEKV
RVGDDLILVSVSSERYLHLSYLHVDAAFQQTLWSVAPISSGSEAAQGYLI
GGDVLRLLHGECLTVPSGEHEQRRTVHYEGGAVSVHARSLWRLETLRVAW
SGSHIRWGQPFRLRHVTTGKYLSLMEDKSLLLMDKEKADVKSTAFTFRSS
KEKRKEVDGMGTSEIKYGDSVCFIQHIGTGLWLTYQSSIQRKAIMHHEGH
MDDGLNLSRSQHEESRTARVIRSTVFLFNRFIRGLDALSKKAKASTVDLP
IESVSLSLQDLIGYFHPPDEHLEHEDKQNRLRALKNRQNLFQEEGMINLV
LECIDRLHVYSSVAGREAGESWKSILNSLYELLAALIRGNRKNCAQFSGS
LDWLISRLERLEASSGILEVLHCVLVESPEALNIIKEGHIKSIISLLDKH
GRNHKVLDVLCSLCVCHGVAVRSNQHLICDNLLPGRDLLLQTRLVNHVSS
MRPNIFLGKKWYYELMVDHTEPFVTAEATHLRVGWASTEGYSPYPGGGEE
WGGNGVGDDLFSYGFDGLHLWSGCIARTVSSPNQHLLRTDDVISCCLDLS
APSISFRINGQPVQGMFENFNIDGLFFPVVSFSAGIKVRFLLGEFKFLPP
PGYAPCYEAVLPKEKLKVEHSREYKQERTYTRDLLGPTVSAFTPIPVDTS
QIVLPPHLERIREKLAENIHELWVMNKIELGWQYGPVRDDNKRQHPCLVE
FSKLPEQERNYNLQMSLETLKTLLALGCHVGISDEHAYQLTSGYKPAPMD
LSFIKLTPSQEAMVDKLAENAHNVWARDRIRQRRNPRLVPYALLDDRTKK
SNKDSLREAVRTLLGYGYNLEARFRIFRAEKTYAVKAGRWYFEFEAVTAG
DMRVGWSRPGCQPDQELGSDERAFAFDGFKAQRWHQGNEHYGRSWQAGDV
VGCMVDMTEHTMMFTLNGEILLDDSGSELAFKDFDVGDGFIPVCSLGVAQ
VGRMNFGKDVSTLKYFTICGLQEGYEPFAVNTNRDITMWLSKRLPQFLQV
PSSHEHIEVTRIDVTQKSFGSQNSSTDIMFYRLSMPIECTYYYSVRIFPN
VWVGWITSDFHQYDTAFDLVTVTLGDEKGKVHESIKRSNYMVCANGLEIG
CVVGLLTFTANGKDLSTYYQVEPSTKLFPAVFAQATSPNVFQFEAGLFKS
EHKNPVPQCPPRLHVQFLSHVLWSRMPNQFLKVDVSRISERQGWLVQCLE
PLQFMSLHIPEENRSVDILELTEQEELLKFHYHTLRLYSAVCALGNHRVA
HALCSHVDEPQLLYAIENKYMPGLLRAGYYDLLIDIHLSSYATARLMMNN
EFIVPMTEETKSITLFPDGLPGIGLSTSLRPRMQFSSPSFVSINNECYQY
SPEFPLDILKAKTIQMLTEAVQEGSLHARDPVGGTTEFLFVPLIKLFYTL
LIMGIFHNEDLKHILQLIEPSGLLQMKLPEPVKLQMCLLLQYLCDCQVRH
RIEAIVAFSDDFVAKLQDNQRFRYNEVRDQLLDFHEDLMTHCGIELDSDL
TIRGRLLSLVEKVTYTLQQLISETMVRWAQESVIEDPELVRAMFVLLHRQ
YDGIGGLVRALPKTYTINGVSVEDTINLLASLGQIRSLLSVRMGKEEEKL
MIRGLGDIMNNKVFYQHPNLMRALGMHETVMEVMVNVLGFPKMVANCCRF
LCYFCRISRQNQKAMFDHLSYLLENSSVGLASPAMRGSTPLDVAAASVMD
NNELALALREPDLEKVVRYLAGCGPVEGERYLDFLRFAVFCNGESVEENA
NVVVRLLIRRGLLAAMEEAIKIGNAIMTFYAALIDLLGRCAEAIRIRSIL
RGDLVGVISIAFQFCPDHKAAMVLFLDRVYVQDFLLHLLGFLPDLRAAAS
LTDMALALNRYLCTAVLPLLFAGTEHHASLIDSLLHTVKGCSLTKAQRDS
IEVCLLSRPSMMQHLLRRLVFDVPLLNKMPLKLLTNHYERCWKYYCLPGG
ASEEELHLSRKLFWGIFDALYEQELFKLALPCLSAVAGALPPNFNPQPVD
TSNITIPEKLEYFINKYAEHSHDKWSMDKLANGWIYGEIYSDSSKVQPLM
KPYKLLSEKEKEIYRWPIKESLKTMLAWGWRIERTREGDAAHGYSPRAID
MSNVTLSRDLHAMAEMMAENYHNIWAKKKKLELESKGGGNHPLLVPYDTL
TAKEKAKDREKAQDILKFLQINGYAVSRGYFLSAASRPLCSGGHASNKEK
EMVFCKLGVLVRHRISLFGNDATLHILGQTLDARTVMKTGLESVKFLDNA
AEDLEKTMENLKQGQFTTTVALLPMLSSLFEHIGQHQFLEDVQVSCYRIL
TSLYALGTSVERQRSALGECLAAFAGAAFLETHLDKHNIYSYNLPRHRAV
NLFLQGYEKSWIETEEHYFEDKLIEDLAKPRVDPLHQLILLFSRTALTEK
CKLEEDFLYMAYADIMAKSCSFEEKEMEKQKLLYQQARLHDRGAAEMVLQ
TISASKGETGPMVAATLKLGIAILNGGNSTVQQKMLEYLKEKKDVGFFQS
LAGLMQSCSVLDLNAFERQNKAEGKVLQDDEFTCDLFRFLQLLCEGHNSD
FQNYLRTQTGNNTTVNIIISTVDYLLRVQESISDFYWYYSGKDVIDEQGQ
RNFSKAIQVAKQVFNTLTEYIQGPCTGNQQSLAHSRLWDAVVGFLHVFAH
MQMKLSQDSSQIELLKELMDLQKDMVVMLLSMLEGNVVNGTIGKQMVDML
VESSNNVEMILKFFDMFLKLKDLTSSDTFKEYDPDGKGVISKRDFHKAME
SHKHYTQSETEFLLSCAETDENETLDYEEFVKRFHEPAKDIGFNVAVLLT
NLSEHMPNDTRLQTFLELAESVLNYFQPFLGRIEIMGSAKRIERVYFEIS
ESSRTQWEKPQVKESKRQFIFDVVNEGGEKEKMELFVNFCEDTIFEMQLA
AQIIAYQQKLLNYFARNFYNMRMLALFVAFAINFILLFYKVSVHYVLEES
SGYMEPTLRILAILHTVISFFCIIGYYCLKVPLVIFKREKEVARKLEFDG
LYITEQPSEDDIKGQWDRLVINTQSFPNNYWDKFVKRKVMDKYGEFYGRD
RISELLGSAVLNSIDVKYQMWKLGVVFTDNSFLYLAWYMTMSVLGHYNNF
FFAAHLLDIAMGFKTLRTILSSVTHNGKQLVLTVGLLAVVVYLYTVVAFN
FFRKFYNKSEDGDTPDMKCDDMLTCYMFHMYVGVRAGGGIGDEIEDPAGD
EYEIYRIIFDITFFFFVIVILLAIIQGLIIDAFGELRDQQEQVKEDMETK
CFICGIGNDYFDTVPHGFETHTLQEHNLANYLFFLMYLINKDETEHTGQE
SYVWKMYQERCWEFFPAGDCFRKQYE

3D structure

• PDB: 6ji0 Modulation of cardiac ryanodine receptor 2 by calmodulin.
• Chain: G
• Resolution: 4.2 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	G	I4891 C4892 H4909 H4914	I3403 C3404 H3421 H3426
BS02	ATP	G	K4167 K4170 R4171 M4885 E4886 C4889 F4890 F4906 T4910 L4916	K3013 K3016 R3017 M3397 E3398 C3401 F3402 F3418 T3422 L3428
BS03	CA	G	E3849 E3923 T4932	E2695 E2769 T3444
BS04	CFF	G	F3715 W4646 I4927	F2572 W3181 I3439

Gene Ontology

--> -->

UnboundLocalError

Python 3.6.8: /usr/bin/python3 Tue Nov 26 06:15:58 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 = '6ji0', asym_id = 'G', title = 'Modulation of cardiac ryanodine receptor 2 by calmodulin.'

 /var/www/html/BioLiP/pdb.cgi in display_protein_receptor(pdbid='6ji0', asym_id='G', 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 = '6ji0', asym_id = 'G'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0005216,0005219,0005262,0005509,0006811,0006816,0006874,0016020,0055085,0070588', uniprot='', pdbid='6ji0', asym_id='G')

    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>