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Ligand · SPH

SPH · Sphingosine

SPH, Sphingosine (C18 H37 N O2, 299.5 g/mol), in the MolNFT structures on GenesisL1: bound in 83 records (62 PDB entries). Every binding site with its residues within 4.5 Å, the residues it binds most and the ligands found with it.

Component
SPH
Formula
C18 H37 N O2
Class
ligand
Structures
83
PDB entries
62

Binding sites

SPH in 83 structures; the first of them:

  • 5C4W · Crystal structure of coxsackievirus A16 · SPH A301 · binds ILE111, ASP112, LEU113, MET114, PHE135, PHE137, TYR153, TYR155 and 10 more
  • 6IIJ · Cryo-EM structure of CV-A10 mature virion · SPH A301 · binds ILE109, ASP110, ILE111, MET112, PHE133, PHE135, TYR153, VAL190 and 9 more
  • 6ILK · Cryo-EM structure of Echovirus 6 complexed with its attachment receptor CD55 at PH 7.4 · SPH A301 · binds ILE95, THR97, PHE115, VAL117, ILE144, TYR146, PRO168, VAL170 and 7 more
  • 6ILN · Cryo-EM structure of full Echovirus 6 particle at PH 5.5 · SPH A301 · binds ILE95, THR97, LEU107, PHE115, VAL117, ILE144, TYR146, MET181 and 6 more
  • 6ILP · Cryo-EM structure of full Echovirus 6 particle at PH 7.4 · SPH A301 · binds ILE95, THR97, LEU107, PHE115, VAL117, ILE144, TYR146, ILE183 and 4 more
  • 6LA3 · Cryo-EM structure of full echovirus 11 particle at pH 7.4 · SPH A301 · binds ILE95, ALA97, MET117, ILE144, TYR146, PRO168, SER169, ILE170 and 8 more
  • 6LA5 · Cryo-EM structure of echovirus 11 complexed with its attaching receptor CD55 at pH 7.4 · SPH A301 · binds ILE95, PHE115, MET117, ILE144, TYR146, PRO168, MET181, ILE183 and 5 more
  • 6LAO · Cryo-EM structure of echovirus 11 complexed with its attaching receptor CD55 at pH 5.5 · SPH A301 · binds ILE95, ALA97, LEU107, MET117, ILE144, TYR146, PRO168, MET181 and 7 more
  • 6LHK · The cryo-EM structure of coxsackievirus A16 mature virion in complex with Fab 18A7 · SPH A301 · binds ASP112, LEU113, MET114, PHE135, TYR155, VAL179, VAL192, TYR201 and 4 more
  • 6LHQ · The cryo-EM structure of coxsackievirus A16 mature virion in complex with Fab NA9D7 · SPH A301 · binds ILE111, ASP112, LEU113, PHE135, TYR155, VAL192, TYR201, TRP203 and 3 more
  • 6LHT · Localized reconstruction of coxsackievirus A16 mature virion in complex with Fab 18A7 · SPH A301 · binds ILE111, ASP112, LEU113, PHE135, PHE137, TYR155, VAL190, VAL192 and 5 more
  • 6SNW · Structure of Coxsackievirus A10 complexed with its receptor KREMEN1 · SPH A301 · binds ILE110, ASP111, ILE112, PHE134, PHE136, TYR152, TYR154, PRO176 and 10 more
  • 6UH7 · EV-A71 strain 11316 complexed with MADAL compound 30 · SPH A301 · binds ILE111, ASP112, ILE113, THR114, PHE135, PHE137, TYR153, PHE155 and 11 more
  • 6Z3Q · Structure of EV71 in complex with a protective antibody 38-1-10A Fab · SPH A301 · binds ILE111, ASP112, ILE113, THR114, PHE131, ALA133, PHE135, PHE137 and 12 more
  • 6Z6W · Poliovirus type 3 (strain Saukett) stabilised virus-like particle (PV3 SC8) from a… · SPH 1401 · binds ILE108, THR109, TYR110, LYS111, PHE128, MET130, LEU132, ILE155 and 14 more
  • 7A4P · Structure of small high-light grown Chlorella ohadii photosystem I · SPH 6806 · binds TRP137, ARG141, TRP39, SER43, ASP44, PRO46, PHE60, PRO62
  • 7BGI · Photosystem I of a temperature sensitive mutant Chlamydomonas reinhardtii · SPH K5001 · binds ALA262, PHE265, THR266, PHE29, LEU229, PHE232
  • 7C9S · Echovirus 30 F-particle · SPH A500 · binds ILE96, THR98, PHE116, LEU118, ILE120, VAL145, MET146, TYR147 and 11 more
  • 7C9W · E30 F-particle in complex with CD55 · SPH A500 · binds ILE96, THR98, ARG99, LEU118, ILE120, VAL145, TYR147, PRO169 and 5 more
  • 7EN0 · Structure and Activity of SLAC1 Channels for Stomatal Signaling in Leaves · SPH A602 · binds TYR375, ILE376, PHE379, ASP422, ALA423, VAL424, THR427, PHE428 and 8 more
  • 7PIW · Stacked stretched Dunaliella PSII · SPH Y625 · binds LEU234, ILE237, TRP238, TYR241, THR242, THR243, TRP245
  • 7R3K · Chlamydomonas reinhardtii TSP9 mutant small Photosystem I complex · SPH 35001 · binds PHE265, THR266, PHE29, LEU229, THR230, PHE232
  • 7VH5 · Cryo-EM structure of the hexameric plasma membrane H+-ATPase in the autoinhibited state… · SPH F1010
  • 7Y7M · The structure of coxsackievirus A16 mature virion in complex with Fab 8C4 · SPH A301 · binds ILE111, ASP112, LEU113, MET114, PHE131, PHE135, PHE137, TYR153 and 11 more
  • 7YRF · Cryo-EM structure of compact CA16 empty particle in complex with a neutralizing antibody… · SPH A301 · binds ILE111, ASP112, LEU113, MET114, PHE131, PHE135, PHE137, TYR155 and 10 more

Residues it binds most

ILE 86, PHE 82, TYR 92, MET 83, VAL 75, LEU 69, ASN 70, TRP 62, ASP 57, THR 43 (residue and the binding sites it lines).

Found with

  • 3PH · 1,2-diacyl-glycerol-3-sn-phosphate
  • BCR · Beta-carotene
  • CHL · Chlorophyll B
  • CLA · Chlorophyll A
  • DGA · Diacyl glycerol
  • DGD · Digalactosyl diacyl glycerol (dgdg)
  • LHG · 1,2-dipalmitoyl-phosphatidyl-glycerole
  • LUT · (3R,3'R,6S)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol
  • RRX · (3R)-beta,beta-caroten-3-ol
  • SQD · 1,2-di-O-acyl-3-O-[6-deoxy-6-sulfo-alpha-D-glucopyranosyl]-sn-glycerol
  • LMT · Dodecyl-beta-D-maltoside
  • C7Z · (1~{S})-3,5,5-trimethyl-4-[(1~{E},3~{E},5~{E},7~{E}, 9~{E},11~{E},13~{E},15~{E},17~{E})-3,7,12,16-tetramethyl-18-[(4~{S})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-1,3,5,7,9,11,13,15,17-nonaenyl]cyclohex-3-en-1-ol

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