Structure of PDB 5h06 Chain A

Receptor sequence

>5h06A (length=497) Species: 408172 (marine metagenome)

HMCDSALTAQANDLRIYQVMVESFVNGDDAIGHGTGYGTSHHKGDLQGII
DSLDYIESLGMNAIWLTPIFDSIPVEGQDHWADRLDATGYFTSNYFAVDP
RFGTMEQAKELVEKAHEKGLYVFFDGVFGHHKDNVVPSPEGRLPVGENNP
VSYPESLAFYQEVATFWIEELKIDGWRLDQAYQVPTEAWTAIRASVDEAS
KSVTYVNSKGEAVNPLGYMVAEIWNNENYIKETGYGAEGEPALCSAFDFP
VRYRVVETFAANENGIGNKGGKWLDEGMNLHRLYPSHAQPNLMLGNHDLV
RFGDLLQRGNIASPEQAEYWERHKAALSFQAAYSGPITLYYGEEIGDELE
GYAQKVEQDCAVQGLCDDHVARTSANIDGLTVNLNEKQRDLKQYVSQLMT
LRAAHPALSRGERTNIVANETVYIDHKQADDDALIYMVSTTADQDTVELK
ASDIASDGQLVDLLTGKVHSAINGEYQISLAPFEAKFLLIETPSASG

3D structure

• PDB: 5h06 Crystal structure of a raw-starch-degrading bacterial alpha-amylase belonging to subfamily 37 of the glycoside hydrolase family GH13
• Chain: A
• Resolution: 1.95 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	A	F90 R371	F91 R372
BS02	GLC	A	Y36 D367 H368	Y37 D368 H369
BS03	CA	A	N25 D27 I30 K42 D44	N26 D28 I31 K43 D45
BS04	CA	A	D303 Q306 E347 L348 Y351	D304 Q307 E348 L349 Y352

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Fri Nov 29 03:38:02 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 = '5h06', asym_id = 'A', title = 'Crystal structure of a raw-starch-degrading bact...family 37 of the glycoside hydrolase family GH13 '

 /var/www/html/BioLiP/pdb.cgi in display_protein_receptor(pdbid='5h06', asym_id='A', title='Crystal structure of a raw-starch-degrading bact...family 37 of the glycoside hydrolase family GH13 ')

    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 = '5h06', asym_id = 'A'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0005975', uniprot='', pdbid='5h06', asym_id='A')

    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>