Structure of PDB 5gpn Chain Y

Receptor sequence

>5gpnY (length=672) Species: 9823 (Sus scrofa)

LIEVFVDGQSVMVEPGTTVLQACEKVGMQIPRFCYHERLSVAGNCRMCLV
EIEKAPKVVAACAMPVMKGWNILTNSEKSKKAREGVMEFLLANHPLDCPI
CDQGGECDLQDQSMMFGSDRSRFLEGKRAVEDKNIGPLVKTIMTRCIQCT
RCIRFASEIAGVDDLGTTGRGNDMQVGTYIEKMFMSELSGNIIDICPVGA
LTSKPYAFTARPWETRKTESIDVMDAVGSNIVVSTRTGEVMRILPRMHED
INEEWISDKTRFAYDGLKRQRLTQPMIRNEKGLLTYTTWEDALSRVAGML
QSFQGNDVAAIAGGLVDAEALVALKDLLNRVDSDSLCTEEVFPTAGAGTD
LRSNYLLNTTIAGVEEADVILLVGTNPRFEAPLFNARIRKSWLHNDLKVA
LIGSPVDLTYRYDHLGDSPKILQDIASGNHPFSQILKEAKKPMVVLGSSA
LQRSDGTAILAAVSNIAQNIRLSSGASQVAALDLGYKPGVEAIRKNPPKV
LFLLGADGGCITRQDLPKDCFIIYQGHHGDVGAPMADVILPGAAYTEKSA
TYVNTEGRAQQTKVAVTPPGLAREDWKIIRALSEIAGMTLPYDTLDQVRS
RLEEVSPNLVRYDDVEGANYFQQANELSKLVNQQLLADPLVPPQLTIKDF
YMTDSISRASQTMAKCVKAVTE

3D structure

• PDB: 5gpn The architecture of the mammalian respirasome.
• Chain: Y
• Resolution: 5.4 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	SF4	Y	H124 C128 C131 Q133 C137 Q140 R175	H94 C98 C101 Q103 C107 Q110 R145
BS02	SF4	Y	C176 I177 C179 T180 C182 V206 C226 P227 A230 L231	C146 I147 C149 T150 C152 V176 C196 P197 A200 L201
BS03	FES	Y	C64 Y65 N74 C75 C78 C92	C34 Y35 N44 C45 C48 C62

Gene Ontology

Molecular Function

• GO:0008137 NADH dehydrogenase (ubiquinone) activity
• GO:0016491 oxidoreductase activity
• GO:0016651 oxidoreductase activity, acting on NAD(P)H
• GO:0046872 metal ion binding
• GO:0051536 iron-sulfur cluster binding
• GO:0051539 4 iron, 4 sulfur cluster binding

Biological Process

• GO:0042773 ATP synthesis coupled electron transport
• GO:1902600 proton transmembrane transport

Cellular Component

• GO:0005743 mitochondrial inner membrane
• GO:0016020 membrane

External links

• PDB: RCSB:5gpn, PDBe:5gpn, PDBj:5gpn
• PDBsum: 5gpn
• PubMed: 27654917
• UniProt: A0A4X1V1H9