Structure of PDB 5znk Chain A

Receptor sequence

>5znkA (length=562) Species: 1280 (Staphylococcus aureus) [Search protein sequence]

MKQSKVFIPTMRDVPSEAEAQSHRLLLKSGLIKQSTSGIYSYLPLATRVL
NNITAIVRQEMERIDSVEILMPALQQAELWEESGRWGAYGPELMRLQDRH
GRQFALGPTHEELVTSIVRNELKSYKQLPMTLFQIQSKFRDEKRPRFGLL
RGREFIMKDAYSFHADEASLDQTYQDMYQAYSRIFERVGINARPVVADSG
AIGGSHTHEFMALSAIGEDTIVYSKESDYTANIEKAEVVYEPNHKHSTVQ
PLEKIETPNVKTAQELADFLGRPVDEIAKTMIFKVDGEYIMVLVRGHHEI
NDIKLKSYFGTDNIELATQDEIVNLVSLGPVIDKEIKIYADNFVQDLNNL
VVGANEDGYHLINVNVGRDFNVDEYGDFRFILEGEKLSDGSGVAHFAEGI
EVGQVFKLGTKYSESMNATFLDNQGKAQPLIMGCYGIGISRTLSAIVEQN
HDDNGIVWPKSVTPFDLHLISINPKKDDQRELADALYAEFNTKFDVLYDD
RQERAGVKFNDADLIGLPLRIVVGKRASEGIVEVKERLTGDSEEVHIDDL
MTVITNKYDNLK

3D structure

PDB

5znk Structure-Guided Design of Halofuginone Derivatives as ATP-Aided Inhibitors Against Bacterial Prolyl-tRNA Synthetase.

Chain

Resolution

2.07 Å

3D
structure

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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)
BS01	ANP	A	R140 E142 R151 G152 F155 M157 E406 V407 G408 G443 R446	R140 E142 R151 G152 F155 M157 E401 V402 G403 G438 R441
BS02	MG	A	E406 Q409	E401 Q404
BS03	9G3	A	W80 R85 Y89 E92 L93 P108 T109 E111 R140 M157 Y161 F411 G441	W80 R85 Y89 E92 L93 P108 T109 E111 R140 M157 Y161 F406 G436

Gene Ontology

--> -->

UnboundLocalError

Python 3.6.8: /usr/bin/python3
Tue May 13 07:15:25 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>()

1709 pubmed=display_regular_ligand(pdbid,asym_id,lig3,ligIdx,title)

1710 else:

=> 1711 pubmed,uniprot=display_protein_receptor(pdbid,asym_id,title)

1712

1713 uniprot_line=''

pubmed = '', uniprot = '', display_protein_receptor = <function display_protein_receptor>, pdbid = '5znk', asym_id = 'A', title = 'Structure-Guided Design of Halofuginone Derivati...ibitors Against Bacterial Prolyl-tRNA Synthetase.'

/var/www/html/BioLiP/pdb.cgi in display_protein_receptor(pdbid='5znk', asym_id='A', title='Structure-Guided Design of Halofuginone Derivati...ibitors Against Bacterial Prolyl-tRNA Synthetase.')

843

844 if go:

=> 845 display_go(go,uniprot,pdbid,asym_id)

846 return pubmed,uniprot

847

global display_go = <function display_go>, go = '0000166,0002161,0004812,0004827,0005524,0005737,0006418,0006433', uniprot = '', pdbid = '5znk', asym_id = 'A'

/var/www/html/BioLiP/pdb.cgi in display_go(go='0000166,0002161,0004812,0004827,0005524,0005737,0006418,0006433', uniprot='', pdbid='5znk', asym_id='A')

484 '''.replace("$namespace_link",namespace_link

485 ).replace("$namespace",namespace

=> 486 ).replace("$uniprot",u

487 ))

488 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>