Structure of PDB 5nbd Chain B

Receptor sequence

>5nbdB (length=564) Species: 197 (Campylobacter jejuni)

MVKKLFFILSKEDKNFLFFLLVFSVFVSFIETFAISLVMPFITLASDFSY
FDRNKYLISLKEYLNIPVFEIIVYFGVGLIVFYVFRALLNAYYFHLLARF
SKGRKHAIAYKVFSKFLNINYEKFTQKNQSEILKSITGEVYNLSTMISSF
LLLMSEIFVVLLLYALMLLINYKITLFLSIFMVLNAFILVKILSPIIKKA
GLRREEAMKNFFEILNTNLNNFKFIKLKTKEDGVLSLFKAQSEAFSKANI
TNESVAAVPRIYLEGIGFCVLVFIVVFLVLKNESDISGILSTISIFVLAL
YRLMPSANRIITSYHDLLYYHSSLNIIYQNLRQEEENLGEGKLSFNQELK
ICNLSFGYEGKKYLFKNLNLNIKKGEKIAFIGESGCGKSTLVDLIIGLLK
PKEGQILIDKQELNASNAKNYRQKIGYIPQNIYLFNDSIAKNITFGDAVD
EEKLNKVIKQANLEHFIKNLPQGVQTKVGDGGSNLSGGQKQRIAIARALY
LEPEILVLDQATSALDTQSEAKIMDEIYKISKDKTMIIIAHRLSTITQCD
KVYRLEHGKLKEEK

3D structure

• PDB: 5nbd Structural basis of inhibition of lipid-linked oligosaccharide flippase PglK by a conformational nanobody.
• Chain: B
• Resolution: 3.9 Å

Enzymatic activity

• Enzyme Commision number: 7.5.2.5: ABC-type lipopolysaccharide transporter.

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	ADP	B	T125 Y358 K361 G385 C386 G387 K388 S389 T390	T125 Y358 K361 G385 C386 G387 K388 S389 T390

Gene Ontology

Molecular Function

• GO:0005524 ATP binding
• GO:0015437 lipopolysaccharide floppase activity
• GO:0016887 ATP hydrolysis activity
• GO:0034040 ATPase-coupled lipid transmembrane transporter activity
• GO:0140359 ABC-type transporter activity

Biological Process

• GO:0006486 protein glycosylation
• GO:0006487 protein N-linked glycosylation
• GO:0006869 lipid transport
• GO:0015920 lipopolysaccharide transport
• GO:0018279 protein N-linked glycosylation via asparagine
• GO:0055085 transmembrane transport

Cellular Component

• GO:0005886 plasma membrane
• GO:0016020 membrane

External links

• PDB: RCSB:5nbd, PDBe:5nbd, PDBj:5nbd
• PDBsum: 5nbd
• PubMed: 28422165
• UniProt: Q0P9C4|PGLK_CAMJE Protein glycosylation K (Gene Name=pglK)