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BioLiP

Structure of PDB 8avp Chain M Binding Site BS01

Receptor Information

>8avp Chain M (length=121) Species: 1523420 (Rhizobium sp. AAP43) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]

TDFDSLSGTSTTWVNELGSVMTIDVDRKGGVTGYYVNNAPGTGCRGLPYD
LSGHAHGSTIAFSVVWSNGIADCRSATSWAGYARKTFGGGVQIVTQWSLA
FVGKAGGKIETGQNVFTYQAA

Ligand information

Ligand ID

BTN

InChI

InChI=1S/C10H16N2O3S/c13-8(14)4-2-1-3-7-9-6(5-16-7)11-10(15)12-9/h6-7,9H,1-5H2,(H,13,14)(H2,11,12,15)/t6-,7-,9-/m0/s1

InChIKey

YBJHBAHKTGYVGT-ZKWXMUAHSA-N

SMILES

Software	SMILES
CACTVS 3.385	OC(=O)CCCC[CH]1SC[CH]2NC(=O)N[CH]12
CACTVS 3.385	OC(=O)CCCC[C@@H]1SC[C@@H]2NC(=O)N[C@H]12
ACDLabs 12.01	O=C1NC2C(SCC2N1)CCCCC(=O)O
OpenEye OEToolkits 1.7.6	C1C2C(C(S1)CCCCC(=O)O)NC(=O)N2
OpenEye OEToolkits 1.7.6	C1[C@H]2[C@@H]([C@@H](S1)CCCCC(=O)O)NC(=O)N2

Formula

C10 H16 N2 O3 S

Name

BIOTIN

PDB chain

8avp Chain M Residue 201 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]

Receptor-Ligand Complex Structure

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Structure summary

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PDB	8avp Self-assembly of a dimeric avidin into unique higher-order oligomers.
Resolution	2.87 Å
Binding residue (original residue number in PDB)	L18 S20 Y36 N38 W67 T78 W98 N115
Binding residue (residue number reindexed from 1)	L17 S19 Y35 N37 W66 T77 W97 N114
Annotation score	4

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3
Sun May 18 19:56:04 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>()

1701 title=pdb2title(pdbid)

1702 if bs.startswith("BS"):

=> 1703 pubmed,uniprot=display_interaction(pdbid,asym_id,bs,title)

1704 else:

1705 if lig3:

pubmed = '', uniprot = '', display_interaction = <function display_interaction>, pdbid = '8avp', asym_id = 'M', bs = 'BS01', title = 'Self-assembly of a dimeric avidin into unique higher-order oligomers.'

/var/www/html/BioLiP/pdb.cgi in display_interaction(pdbid='8avp', asym_id='M', bs='BS01', title='Self-assembly of a dimeric avidin into unique higher-order oligomers.')

1326 display_ec(ec,csaOrig,csaRenu)

1327 if go:

=> 1328 display_go(go,uniprot,pdbid,asym_id)

1329 return pubmed,uniprot

1330

global display_go = <function display_go>, go = '0009374', uniprot = '', pdbid = '8avp', asym_id = 'M'

/var/www/html/BioLiP/pdb.cgi in display_go(go='0009374', uniprot='', pdbid='8avp', asym_id='M')

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>