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Ligand · 9YF

9YF · (2R)-2-(hexadecanoyloxy)-3-{[(S)-hydroxy{[(1r,2r,3r,4r, 5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propyl (9S)-9-methyloctadecanoate

9YF, (2R)-2-(hexadecanoyloxy)-3-{[(S)-hydroxy{[(1r,2r,3r,4r, 5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propyl (9S)-9-methyloctadecanoate (C44 H85 O13 P, 853.1 g/mol), in the MolNFT structures on GenesisL1: bound in 10…

Component
9YF
Formula
C44 H85 O13 P
Class
ligand
Structures
10
PDB entries
10

Binding sites

9YF in 10 structures; the first of them:

  • 6ADQ · Respiratory complex CIII2CIV2SOD2 from mycobacterium smegmatis · 9YF K202 · binds ILE141, GLY69, VAL71, GLU72, PHE75, PHE79, CYS24, SER25 and 13 more
  • 7E1V · Cryo-EM structure of apo hybrid respiratory supercomplex consisting of mycobacterium… · 9YF M503 · binds TRP231, TRP246
  • 7E1W · Cryo-EM structure of hybrid respiratory supercomplex consisting of mycobacterium… · 9YF M503 · binds TRP231, TRP246, GLU425
  • 7E1X · Cryo-EM structure of hybrid respiratory supercomplex consisting of mycobacterium… · 9YF M503 · binds TRP231, TRP246, GLU425
  • 7Q21 · III2-IV2 respiratory supercomplex from corynebacterium glutamicum · 9YF L201 · binds VAL59, GLU60, TRP63, LEU142, CYS27, SER28, ILE32, GLN34 and 10 more
  • 7QHM · Cytochrome bcc-AA3 supercomplex (respiratory supercomplex III2/IV2) from corynebacterium… · 9YF A503 · binds ALA180, GLY183, GLY184, ILE186, LYS187, ASN188, TRP181, TRP79 and 3 more
  • 7QHO · Cytochrome bcc-AA3 supercomplex (respiratory supercomplex III2/IV2) from corynebacterium… · 9YF A503 · binds LEU176, GLY183, GLY184, ILE186, LYS187, ASN188, ASN191, ILE75 and 4 more
  • 7RH5 · Mycobacterial CIII2CIV2 supercomplex, inhibitor free · 9YF O303 · binds LEU278, LEU279, PRO111, TRP112, ALA116, PHE120, LYS197, ASP209 and 9 more

Residues it binds most

ILE 47, TRP 53, GLY 33, LEU 32, VAL 34, SER 20, ALA 32, LYS 26, GLU 38, ASN 31 (residue and the binding sites it lines).

Found with

  • CDL · Cardiolipin
  • FES · Fe2/s2 (inorganic) cluster
  • HEC · Heme C
  • HEM · Protoporphyrin IX containing Fe
  • MQ9 · Menaquinone-9
  • PLM · Palmitic acid
  • CU · Copper (II) ion
  • 9Y0 · (2R)-3-(((2-aminoethoxy)(hydroxy)phosphoryl)oxy)-2-(palmitoyloxy)propyl (E)-octadec-9-enoate
  • HEA · Heme-A
  • 9XX · (2S)-1-(hexadecanoyloxy)propan-2-yl (10S)-10-methyloctadecanoate
  • HAS · Heme-as
  • CA · Calcium ion

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