Structure of PDB 7nkg Chain A

Receptor sequence

>7nkgA (length=564) Species: 1122233 (Methermicoccus shengliensis DSM 18856)

DREQLFKKALEIKFTQEWGENKATEVSTDITSKKAKYLRLGTAQSPRKRE
FEQYGKEIAAKRGLPGYDPKLHLGGIPLGQRQITPYVVSSTDTLCDGDDL
HFVNNAAMQQMWDDIRRTVIVGMDLAHETLEKRLGKEVTPETINHYLEVL
NHAMPGAAVVQEMMVETHPGLVDDCYVKVFTGDDELADEIDKRFLIDIDK
QFGEEKAAQIKAAIGKTTWQAVHVPTIVVRTCDGATTSRWTAMQIGMSFI
AAYRMCAGEAAVADLAYAAKHAALVGMGDMLPARRARGPNEPGGLQFGYL
ADIVQADRVTDDKVKASLEVVAAGAMLYDQIWLGSYMSGGVGFTQYATAA
YTNNILDDFSYYGYEYAVDKYGGPAQAPATLETVKDIATETAIYAIEQYE
YFPTLLEDQFGGSQRAAVVAAAAGIATGLATGNSQAGLSGWYLAQYLLKE
AEGRLGFFGYDLQDQCGAANVFSYQSDEGLPLELRGPNYPNYAMNVGHQG
EYAGIASSGHIGRGDAFVVNPLVKVAFADPLLNFDFTQVRKEFAKGAVRE
FDRCAGERALILPA

3D structure

• PDB: 7nkg Structural Insights into the Methane-Generating Enzyme from a Methoxydotrophic Methanogen Reveal a Restrained Gallery of Post-Translational Modifications.
• Chain: A
• Resolution: 1.6 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	COM	A	Y350 F461 F462	Y346 F457 F458
BS02	TP7	A	R288 M341 F347 F461 M498 N499 V500	R284 M337 F343 F457 M494 N495 V496
BS03	TP7	A	R243 K274 H275	R239 K270 H271
BS04	F43	A	A162 V163 V164 Q165 Q248 M251 A261	A158 V159 V160 Q161 Q244 M247 A257
BS05	F43	A	V345 G346 F347 T348 Q349 Y350 F414 F461	V341 G342 F343 T344 Q345 Y346 F410 F457

Gene Ontology

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UnboundLocalError

Python 3.6.8: /usr/bin/python3 Sat Nov 16 03:35:16 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 = '7nkg', asym_id = 'A', title = 'Structural Insights into the Methane-Generating ...ned Gallery of Post-Translational Modifications. '

 /var/www/html/BioLiP/pdb.cgi in display_protein_receptor(pdbid='7nkg', asym_id='A', title='Structural Insights into the Methane-Generating ...ned Gallery of Post-Translational Modifications. ')

    839 

    840     if go:

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

    842     return pubmed,uniprot

    843 

global display_go = <function display_go>, go = '0015948,0050524', uniprot = '', pdbid = '7nkg', asym_id = 'A'

 /var/www/html/BioLiP/pdb.cgi in display_go(go='0015948,0050524', uniprot='', pdbid='7nkg', 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>