Structure of PDB 5it7 Chain 1

Receptor sequence

>5it71 (length=827) Species: 1177187 (Saccharomyces cerevisiae P283)

TVDQMRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEA
RFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLID
SPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGERIKPV
VVINKVDRALLELQVSKEDLYQTFARTVESVNVIVSTYADEVLGDVQVYP
ARGTVAFGSGLHGWAFTIRQFATRYAKKFGVDKAKMMDRLWGDSFFNPKT
KKWTNKDTDAEGKPLERAFNMFILDPIFRLFTAIMNFKKDEIPVLLEKLE
IVLKGEEKDLEGKALLKVVMRKFLPAADALLEMIVLHLPSPVTAQAYRAE
QLYEGPADDANCIAIKNCDPKADLMLYVSKMVPTSDKGRFYAFGRVFAGT
VKSGQKVRIQGPNYVPGKKDDLFIKAIQRVVLMMGRFVEPIDDCPAGNII
GLVGIDQFLLKTGTLTTSETAHNMKVMKFSVSPVVQVAVEVKNANDLPKL
VEGLKRLSKSDPCVLTYMSESGEHIVAGTGELHLEICLQDLEHDHAGVPL
KISPPVVAYRETVESESSQTALSKSPNKHNRIYLKAEPIDEEVSLAIENG
IINPRDDFKARARIMADDYGWDVTDARKIWCFGPDGNGPNLVIDQTKAVQ
YLHEIKDSVVAAFQWATKEGPIFGEEMRSVRVNILDVTLHADAIHRGGGQ
IIPTMRRATYAGFLLADPKIQEPVFLVEIQCPEQAVGGIYSVLNKKRGQV
VSEEQRPGTPLFTVKAYLPVNESFGFTGELRQATGGQAFPQMVFDHWSTL
GSDPLDPTSKAGEIVLAARKRHGMKEE

3D structure

• PDB: 5it7 Structural characterization of ribosome recruitment and translocation by type IV IRES.
• Chain: 1
• 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	1	H27 V28 R66 H108 C136 V137 R162 G741 Y744 K749 V754 V755 E757 R785 Q786 G789 G790	H23 V24 R62 H104 C132 V133 R158 G737 Y740 K745 V750 V751 E753 R781 Q782 G785 G786
BS02	rna	1	D390 Q432 R433 K613 Q654	D386 Q428 R429 K609 Q650
BS03	rna	1	K578 K582 R585 D696	K574 K578 R581 D692
BS04	MG	1	S33 T69	S29 T65
BS05	6EM	1	K582 H694 H699	K578 H690 H695

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Thu Dec 12 10:25:25 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 = '5it7', asym_id = '1', title = 'Structural characterization of ribosome recruitment and translocation by type IV IRES.'

 /var/www/html/BioLiP/pdb.cgi in display_protein_receptor(pdbid='5it7', asym_id='1', title='Structural characterization of ribosome recruitment and translocation by type IV IRES.')

    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 = '5it7', asym_id = '1'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0003924,0005525', uniprot='', pdbid='5it7', asym_id='1')

    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>