Structure of PDB 7st7 Chain 8

Receptor sequence

>7st78 (length=697) Species: 83333 (Escherichia coli K-12)

TTPIARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWM
EQEQERGITITSAATTAFWSGMAKQYEPHRINIIDTPGHVDFTIEVERSM
RVLDGAVMVYCAVGGVQPQSETVWRQANKYKVPRIAFVNKMDRMGANFLK
VVNQIKTRLGANPVPLQLAIGAEEHFTGVVDLVKMKAINWNDADQGVTFE
YEDIPADMVELANEWHQNLIESAAEASEELMEKYLGGEELTEAEIKGALR
QRVLNNEIILVTCGSAFKNKGVQAMLDAVIDYLPSPVDVPAINGILDDGK
DTPAERHASDDEPFSALAFKIATDPFVGNLTFFRVYSGVVNSGDTVLNSV
KAARERFGRIVQMHANKREEIKEVRAGDIAAAIGLKDVTTGDTLCDPDAP
IILERMEFPEPVISIAVEPKTKADQEKMGLALGRLAKEDPSFRVWTDEES
NQTIIAGMGELHLDIIVDRMKREFNVEANVGKPQVAYRETIRQKVTDVEG
KHAKQSGGRGQYGHVVIDMYPLEPGSNPKGYEFINDIKGGVIPGEYIPAV
DKGIQEQLKAGPLAGYPVVDMGIRLHFGSYHDVDSSELAFKLAASIAFKE
GFKKAKPVLLEPIMKVEVETPEENTGDVIGDLSRRRGMLKGQESEVTGVK
IHAEVPLSEMFGYATQLRSLTKGRASYTMEFLKYDEAPSNVAQAVIE

3D structure

• PDB: 7st7 Time-resolved cryo-EM visualizes ribosomal translocation with EF-G and GTP.
• Chain: 8
• Resolution: 3.2 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	rna	8	I19 D20 H44 R59 H92 R146 G629 I632 M641 L642 Q645 R671 K675	I16 D17 H41 R56 H89 R143 G626 I629 M638 L639 Q642 R668 K672
BS02	rna	8	H38 K39 F329 R359 R362 E373 K389 D585	H35 K36 F326 R356 R359 E370 K386 D582
BS03	rna	8	A506 Q508 G510 G511	A503 Q505 G507 G508
BS04	GDP	8	G22 K23 T24 T25 V43 H44 K143 D145 S268 F270	G19 K20 T21 T22 V40 H41 K140 D142 S265 F267

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Sat Nov 16 14:53:22 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 = '7st7', asym_id = '8', title = 'Time-resolved cryo-EM visualizes ribosomal translocation with EF-G and GTP.'

 /var/www/html/BioLiP/pdb.cgi in display_protein_receptor(pdbid='7st7', asym_id='8', title='Time-resolved cryo-EM visualizes ribosomal translocation with EF-G and GTP.')

    839 

    840     if go:

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

    842     return pubmed,uniprot

    843 

global display_go = <function display_go>, go = '0003746,0003924,0005525,0006414', uniprot = '', pdbid = '7st7', asym_id = '8'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003746,0003924,0005525,0006414', uniprot='', pdbid='7st7', asym_id='8')

    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>