Structure of PDB 8dl1 Chain B

Receptor sequence

>8dl1B (length=708) Species: 411476 (Bacteroides ovatus ATCC 8483)

LHDGFNFDPAIPKADEPLTITFKAPEGSNFYGYADDLYLHSGTGANWTGA
PTWGDNQNKYRLKKTKDNVWSITLSSSIRHFYSVAPSTPLQTINLIVRDA
EGSQQTYDYATLVEDSQNGFIWEEPQKAPLPISGEEKEGIHIHSATSIML
VLYDKDSQGGHKDCVFVTGNFNNWKLDSRYMMKYDETNHCWWITLEELTE
TQFQYFVYSASDGGTYLCDPYCEQALEKGVDTNFPTGAQAPYVSVVSTNP
QPYQWSAEFEMKNKENPVIYELLLRDFTSSGNLAGAMEKLPYLKELGIDA
IELMPVQEFAGNDSWGYNTGLYFALDASYGTQNEYKAFIDACHQNGIAVI
FDVVYNHTNNDNPFARMYWDTFNNRPSTKNPWLNAVTPHQKYVFSPDDFN
HTSEQTKAFVKRNLKYLLDTYHIDGFRFDFTKGFTQKQTTGDDDLAATDP
ARVSVLKEYYEAVKAVKEDAMVTMQHFCANEETTLATEGIHFWRNMNHSY
CQSAMGWKDNSDFSGLYDTTRPNQFVGYMESHDEERCAYKQIEYGNGALK
TNLSERLKQLSSNAAFFFTVPGPKMLWQFGEMGYDISIDENGRTGKKPVL
WEYQTERKSLVDIYTKLITLRTTHSDLFNASSQFTWKVSYNDWDNGRTLT
LKAVNGKQLHVYANFTNASIDYTIPEGTWYLYLENPVEGEKKISVPAHEF
RLYTNFAE

3D structure

• PDB: 8dl1 BoGH13A Sus from Bacteroides ovatus represents a novel alpha-amylase used for Bacteroides starch breakdown in the human gut.
• Chain: B
• Resolution: 2.09 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	GLC	B	W98 Q150	W53 Q105
BS02	GLC	B	H85 W92 I141 D153	H40 W47 I96 D108
BS03	GLC	B	K588 Y592	K540 Y544
BS04	GLC	B	Q550 W555 Y592	Q502 W507 Y544
BS05	GLC	B	W555 D557	W507 D509
BS06	GLC	B	Y440 F478 Q523	Y392 F430 Q475
BS07	GLC	B	W363 Y365 F442 D477 Q523 H580 D581	W315 Y317 F394 D429 Q475 H532 D533
BS08	GLC	B	W363 Y365 R641	W315 Y317 R593
BS09	GLC	B	S362 W363 Y365 N366 T642	S314 W315 Y317 N318 T594
BS10	GLC	B	D361 T642	D313 T594
BS11	CA	B	E274 E356 F357 G359 D374	E227 E308 F309 G311 D326
BS12	MN	B	N404 H437 D446 G481	N356 H389 D398 G433

Gene Ontology

--> -->

UnboundLocalError

Python 3.6.8: /usr/bin/python3 Fri Nov 22 23:29:25 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 = '8dl1', asym_id = 'B', title = 'BoGH13A Sus from Bacteroides ovatus represents a...or Bacteroides starch breakdown in the human gut.'

 /var/www/html/BioLiP/pdb.cgi in display_protein_receptor(pdbid='8dl1', asym_id='B', title='BoGH13A Sus from Bacteroides ovatus represents a...or Bacteroides starch breakdown in the human gut.')

    839 

    840     if go:

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

    842     return pubmed,uniprot

    843 

global display_go = <function display_go>, go = '0005975', uniprot = '', pdbid = '8dl1', asym_id = 'B'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0005975', uniprot='', pdbid='8dl1', asym_id='B')

    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>