Structure of PDB 6gz4 Chain Ct

Receptor sequence

>6gz4Ct (length=853) Species: 9986 (Oryctolagus cuniculus)

TVDQIRAIMDKKANIRNMSVIAHVDHGKSTLTDSLVCKAGIIASARAGET
RFTDTRKDEQERCITIKSTAISLFYELSENDLNFIKQSKDGAGFLINLID
SPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAERIKPV
LMMNKMDRALLELQLEPEELYQTFQRIVENVNVIISTYGEGESGPMGNIM
IDPVLGTVGFGSGLHGWAFTLKQFAEMYVAKFAAKGEGQLGPAERAKKVE
DMMKKLWGDRYFDPANGKFSKSATSPEGKKLPRTFCQLILDPIFKVFDAI
MNFKKEETAKLIEKLDIKLDSEDKDKEGKPLLKAVMRRWLPAGDALLQMI
TIHLPSPVTAQKYRCELLYEGPPDDEAAMGIKSCDPKGPLMMYISKMVPT
SDKGRFYAFGRVFSGLVSTGLKVRIMGPNYTPGKKEDLYLKPIQRTILMM
GRYVEPIEDVPCGNIVGLVGVDQFLVKTGTITTFEHAHNMRVMKFSVSPV
VRVAVEAKNPADLPKLVEGLKRLAKSDPMVQCIIEESGEHIIAGAGELHL
EICLKDLEEDHACIPIKKSDPVVSYRETVSEESNVLCLSKSPNKHNRLYM
KARPFPDGLAEDIDKGEVSARQELKQRARYLAEKYEWDVAEARKIWCFGP
DGTGPNILTDITKGVQYLNEIKDSVVAGFQWATKEGALCEENMRGVRFDV
HDVTLHADAIHRGGGQIIPTARRCLYASVLTAQPRLMEPIYLVEIQCPEQ
VVGGIYGVLNRKRGHVFEESQVAGTPMFVVKAYLPVNESFGFTADLRSNT
GGQAFPQCVFDHWQILPGDPFDNSSRPSQVVAETRKRKGLKEIPALDNFL
DKL

3D structure

• PDB: 6gz4 tRNA Translocation by the Eukaryotic 80S Ribosome and the Impact of GTP Hydrolysis.
• Chain: Ct
• Resolution: 3.6 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	Ct	H27 V28 D29 R66 R162 E753 G757 Y760 N764 R765 V770 F771 R801 G805 G806	H23 V24 D25 R62 R158 E749 G753 Y756 N760 R761 V766 F767 R797 G801 G802
BS02	rna	Ct	K594 H599 R601 H710 D712 X715 L857	K590 H595 R597 H706 D708 X711 L853
BS03	rna	Ct	K629 R647 K648 G668 Q670 G717	K625 R643 K644 G664 Q666 G713
BS04	GNP	Ct	V28 H30 G31 K32 S33 T34 R55 T69 K159 G217 L218	V24 H26 G27 K28 S29 T30 R51 T65 K155 G213 L214

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Sun Dec 1 13:54:28 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 = '6gz4', asym_id = 'Ct', title = 'tRNA Translocation by the Eukaryotic 80S Ribosome and the Impact of GTP Hydrolysis.'

 /var/www/html/BioLiP/pdb.cgi in display_protein_receptor(pdbid='6gz4', asym_id='Ct', title='tRNA Translocation by the Eukaryotic 80S Ribosome and the Impact of GTP Hydrolysis.')

    839 

    840     if go:

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

    842     return pubmed,uniprot

    843 

global display_go = <function display_go>, go = '0003924,0005525', uniprot = '', pdbid = '6gz4', asym_id = 'Ct'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003924,0005525', uniprot='', pdbid='6gz4', asym_id='Ct')

    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>