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Ligand · EEM

EEM · [(3S)-3-amino-4-hydroxy-4-oxo-butyl]-[[(2S,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl]-methyl-selanium

EEM, [(3S)-3-amino-4-hydroxy-4-oxo-butyl]-[[(2S,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl]-methyl-selanium (C15 H23 N6 O5 Se +1, 446.3 g/mol), in the MolNFT structures on GenesisL1: bound in 20 records (10 PDB…

Component
EEM
Formula
C15 H23 N6 O5 Se +1
Class
ligand
Structures
20
PDB entries
10

Binding sites

EEM in 20 structures; the first of them:

  • 3E5F · Crystal Structures of the SMK box (SAM-III) Riboswitch with Se-SAM · EEM A216 · binds G7, A29, U30, G31, G36, U37, A38, A39 and 2 more
  • 4FHC · Spore photoproduct lyase · EEM A402 · binds TYR96, CYS97, TYR98, LEU99, ALA139, CYS140, SER142, ASP143 and 11 more
  • 4FHD · Spore photoproduct lyase complexed with dinucleoside spore photoproduct · EEM A402 · binds CYS90, TYR96, CYS97, TYR98, LEU99, ALA139, CYS140, SER142 and 12 more
  • 4FHE · Spore photoproduct lyase C140A mutant · EEM A407 · binds TYR96, CYS97, TYR98, LEU99, ALA139, ALA140, SER142, ASP143 and 11 more
  • 4FHF · Spore photoproduct lyase C140A mutant with dinucleoside spore photoproduct · EEM A402 · binds CYS90, TYR96, CYS97, TYR98, LEU99, ALA139, SER142, ASP143 and 11 more
  • 4FHG · Spore photoproduct lyase C140S mutant · EEM A402 · binds TYR96, CYS97, TYR98, LEU99, ALA139, SER140, SER142, ASP143 and 11 more
  • 4K9R · Spore photoproduct lyase Y98F mutant · EEM A402 · binds TYR96, CYS97, PHE98, LEU99, ALA139, SER142, ASP143, VAL172 and 10 more
  • 4RH0 · Spore photoproduct lyase C140A/S76C mutant with bound AdoMet · EEM A401 · binds TYR96, CYS97, TYR98, LEU99, ALA139, ALA140, SER142, ASP143 and 11 more
  • 4RH1 · Spore photoproduct lyase C140A/S76C mutant with bound AdoMet and dinucleoside spore… · EEM A402 · binds TYR96, CYS97, TYR98, LEU99, ALA139, SER142, ASP143, VAL172 and 10 more
  • 5APG · Structure of the SAM-dependent rRNA:acp-transferase Tsr3 from Vulcanisaeta distributa · EEM A1185 · binds LYS17, ASN18, THR19, LEU45, ASP46, PRO47, LEU68, ILE69 and 15 more
  • 3E5F · Crystal structures of the smk box (SAM-III) riboswitch with se-SAM · EEM A216 · binds G7, A29, U30, G31, G36, U37, A38, A39 and 2 more
  • 4FHC · Spore photoproduct lyase · EEM A402 · binds TYR96, CYS97, TYR98, LEU99, ALA139, CYS140, SER142, ASP143 and 11 more
  • 4FHD · Spore photoproduct lyase complexed with dinucleoside spore photoproduct · EEM A402 · binds CYS90, TYR96, CYS97, TYR98, LEU99, ALA139, CYS140, SER142 and 12 more
  • 4FHE · Spore photoproduct lyase C140A mutant · EEM A407 · binds TYR96, CYS97, TYR98, LEU99, ALA139, ALA140, SER142, ASP143 and 11 more
  • 4FHF · Spore photoproduct lyase C140A mutant with dinucleoside spore photoproduct · EEM A402 · binds CYS90, TYR96, CYS97, TYR98, LEU99, ALA139, SER142, ASP143 and 11 more
  • 4FHG · Spore photoproduct lyase C140S mutant · EEM A402 · binds TYR96, CYS97, TYR98, LEU99, ALA139, SER140, SER142, ASP143 and 11 more
  • 4K9R · Spore photoproduct lyase Y98F mutant · EEM A402 · binds TYR96, CYS97, PHE98, LEU99, ALA139, SER142, ASP143, VAL172 and 10 more
  • 4RH0 · Spore photoproduct lyase C140A/S76C mutant with bound adomet · EEM A401 · binds TYR96, CYS97, TYR98, LEU99, ALA139, ALA140, SER142, ASP143 and 11 more
  • 4RH1 · Spore photoproduct lyase C140A/S76C mutant with bound adomet and dinucleoside spore… · EEM A402 · binds TYR96, CYS97, TYR98, LEU99, ALA139, SER142, ASP143, VAL172 and 10 more
  • 5APG · Structure of the SAM-dependent RRNA:ACP-transferase TSR3 from vulcanisaeta distributa · EEM A1185 · binds LYS17, ASN18, THR19, LEU45, ASP46, PRO47, LEU68, ILE69 and 15 more

Residues it binds most

ALA 22, SER 22, LEU 22, TYR 22, VAL 16, CYS 22, ARG 22, ASP 22, ILE 22, THR 22 (residue and the binding sites it lines).

Found with

  • SF4 · Iron/sulfur cluster
  • SO4 · Sulfate ion
  • EDO · 1,2-ethanediol
  • 0TT · 1-[(2R,4S,5R)-5-(hydroxymethyl)-4-oxidanyl-oxolan-2-yl]-5-[[(5R)-1-[(2R,4S,5R)-5-(hydroxymethyl)-4-oxidanyl-oxolan-2-yl]-5-methyl-2,4-bis(oxidanylidene)-1,3-diazinan-5-yl]methyl]pyrimidine-2,4-dione
  • POP · Pyrophosphate 2-
  • SR · Strontium ion
  • MES · 2-(N-morpholino)-ethanesulfonic acid

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