Structure of PDB 6rn4 Chain D

Receptor sequence

>6rn4D (length=684) Species: 1280998 (Escherichia coli HVH 50 (4-2593475))

QALKKYTIDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEP
GVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEER
LKGVLNDLAKQEGNVILFIDALHTMVGAGMDAGNMLKPALARGELHCVGA
TTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLKERYELHHHV
QITDPAIVAAATLSHRYIADRQLPDKAIDLIDEAASSIRMQIDSPEELDR
LDRRIIQLKLEQQALMLDMLNEELSDKERQYSELEEEWKAEKASLSGTQT
IKAELEQAKIAIEQARRVGDLARMSELQYGKIPELEKQLEAATQLEGKTM
RLLRNKVTDAEIAEVLARWTGIPVSRMMESEREKLLRMEQELHHRVIGQN
EAVDAVSNAIRRSRAGLADPNRPIGSFLFLGPTGVGKTELCKALANFMFD
SDEAMVRIDMSEFMEKHSVSRLVGAPPGYVGYEEGGYLTEAVRRRPYSVI
LLDAVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNLGSDL
IQERFGELDYAHMKELVLGVVSHNFRPEFINRIDEVVVFHPLGEQHIASI
AQIQLKRLYKRLEERGYEIHISDEALKLLSENGYDPVYGARPLKRAIQQQ
IENPLAQQILSGELVPGKVIRLEVNEDRIVAVQH

3D structure

• PDB: 6rn4 Two-Step Activation Mechanism of the ClpB Disaggregase for Sequential Substrate Threading by the Main ATPase Motor.
• Chain: D
• 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	peptide	D	K250 R252 G652 Y653	K92 R94 G478 Y479
BS02	AGS	D	V180 G209 V210 G211 K212 T213 A214 I349 L353 P387	V22 G51 V52 G53 K54 T55 A56 I186 L190 P224
BS03	AGS	D	R569 V570 I571 T607 G608 V609 G610 K611 T612 E613 I774 A814 R815 K818	R395 V396 I397 T433 G434 V435 G436 K437 T438 E439 I600 A640 R641 K644
BS04	AGS	D	R331 R332	R168 R169

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Thu Apr 10 01:11:12 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 = '6rn4', asym_id = 'D', title = 'Two-Step Activation Mechanism of the ClpB Disagg...ial Substrate Threading by the Main ATPase Motor.'

 /var/www/html/BioLiP/pdb.cgi in display_protein_receptor(pdbid='6rn4', asym_id='D', title='Two-Step Activation Mechanism of the ClpB Disagg...ial Substrate Threading by the Main ATPase Motor.')

    839 

    840     if go:

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

    842     return pubmed,uniprot

    843 

global display_go = <function display_go>, go = '0005524,0005737,0009408,0016887,0042026', uniprot = '', pdbid = '6rn4', asym_id = 'D'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0005524,0005737,0009408,0016887,0042026', uniprot='', pdbid='6rn4', asym_id='D')

    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>