Structure of PDB 6zj3 Chain LR

Receptor sequence

>6zj3LR (length=365) Species: 3039 (Euglena gracilis)

ARPLVTVQKEGKTVPLPKVFSSALRYDVVRFVHTNIAKNTRIPYAVSRRA
GHKHSAESWGTGRAVARIPRISGGGTHRSGQGAFGNMCRGGRMFAPTKVF
RKWHAKVPRKVRRLAVRAALAASAIPALVMARGHNLEDVPEIPLVVPNSV
EALEKTKDAVKLLKDIGAYHDVEKVAATKKVRVGKGKRRNRRYCVRKGPL
VVLSKRCEAQRAFRNLPGVDINFVSALNLLRLAPGGHIGRLIVFTEDAFN
QLDKVLKVDTIEGLPDSKRVINSEEVQGVIRHKIKASRRKPQKNSSRPRL
NPAHKVETKVQKKLYIERCKVNADPELRKAKEKKQKAAKKLWLLKVTGKV
DKKGNPRKSTKTPKQ

3D structure

• PDB: 6zj3 Cryo-EM structure of the highly atypical cytoplasmic ribosome of Euglena gracilis.
• Chain: LR
• Resolution: 3.15 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	rna	LR	P45 A47 V48 K189 R190	P43 A45 V46 K187 R188
BS02	rna	LR	A39 R43 I44 Y46 V48 S49 R50 A52 G53 K55 H56 S74 G77 T78 R80 R91 G92 K157 T158 K187 R190 R191 R193 Y195 R213 R216 N217 P219	A37 R41 I42 Y44 V46 S47 R48 A50 G51 K53 H54 S72 G75 T76 R78 R89 G90 K155 T156 K185 R188 R189 R191 Y193 R211 R214 N215 P217
BS03	rna	LR	N296 R299 R301 N303 H306 E309 T310 Q313 K314 Y317 R320 N324 K331 K335 Q337 K341	N294 R297 R299 N301 H304 E307 T308 Q311 K312 Y315 R318 N322 K329 K333 Q335 K339
BS04	rna	LR	R27 F33 N37 N41 T42 H54 S57 R69 I70 P71 N88 M89 R94 F96 A97 K100 F102 K104 K108 V109 P110 R111 K112 R114 R115 L116 R208 R216 A228 N230 R290 R291 K292 R301 P304 A305 K307 V308 W344 K347 V348 D353 K354 R359 S361 T362 T364 K366 Q367	R25 F31 N35 N39 T40 H52 S55 R67 I68 P69 N86 M87 R92 F94 A95 K98 F100 K102 K106 V107 P108 R109 K110 R112 R113 L114 R206 R214 A226 N228 R288 R289 K290 R299 P302 A303 K305 V306 W342 K345 V346 D351 K352 R357 S359 T360 T362 K364 Q365
BS05	rna	LR	T36 K40 R43 Y46 V67 A68 R69 Q83 M89 R91 M95 R103 R134 K176 A179 T180 K182 R184 V185 G186 K187 K189 R193 R198 K199 P236 G237 H239 N274 Q279 R283 K285 I286 K287 S289 R291 P293 Q294	T34 K38 R41 Y44 V65 A66 R67 Q81 M87 R89 M93 R101 R132 K174 A177 T178 K180 R182 V183 G184 K185 K187 R191 R196 K197 P234 G235 H237 N272 Q277 R281 K283 I284 K285 S287 R289 P291 Q292
BS06	rna	LR	G64 R65	G62 R63

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Tue Apr 8 21:51:55 2025

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 = '6zj3', asym_id = 'LR', title = 'Cryo-EM structure of the highly atypical cytoplasmic ribosome of Euglena gracilis.'

 /var/www/html/BioLiP/pdb.cgi in display_protein_receptor(pdbid='6zj3', asym_id='LR', title='Cryo-EM structure of the highly atypical cytoplasmic ribosome of Euglena gracilis.')

    839 

    840     if go:

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

    842     return pubmed,uniprot

    843 

global display_go = <function display_go>, go = '0003735,0005840,0006412', uniprot = '', pdbid = '6zj3', asym_id = 'LR'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003735,0005840,0006412', uniprot='', pdbid='6zj3', asym_id='LR')

    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>