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Ligand · VNM

VNM · (2S)-2-({4-[({(6S)-2,4-diamino-5-[(1-{(2R,4S,5R)-4-hydroxy-5-[(phosphonooxy)methyl]tetrahydrofuran-2-yl}-2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl)methyl]-5, 6,7,8-tetrahydropyrido[3,2-d]pyrimidin-6-yl}methyl) amino]benzoyl}amino)pentanedioic acid (non-preferred name)

VNM, (2S)-2-({4-[({(6S)-2,4-diamino-5-[(1-{(2R,4S,5R)-4-hydroxy-5-[(phosphonooxy)methyl]tetrahydrofuran-2-yl}-2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl)methyl]-5, 6,7,8-tetrahydropyrido[3,2-d]pyrimidin-6-yl}methyl)…

Component
VNM
Formula
C30 H38 N9 O13 P
Class
ligand
Structures
2
PDB entries
1

Binding sites

VNM in 2 structures; the first of them:

  • 7JXF · E. coli TSase complex with a bi-substrate reaction intermediate diastereomer analog · VNM B301 · binds ARG126, ARG21, ILE79, TRP80, TRP83, LEU143, CYS146, HIS147 and 13 more
  • 7JXF · E. COLI tsase complex with a bi-substrate reaction intermediate diastereomer analog · VNM B301 · binds ARG126, ARG21, ILE79, TRP83, CYS146, GLN165, ARG166, SER167 and 10 more

Residues it binds most

ARG 2, CYS 2, HIS 2, LEU 2, TRP 2, ALA 2, ASN 2, ASP 2, GLN 2, GLY 2 (residue and the binding sites it lines).

Found with

  • 5HU · 5-hydroxymethyluridine-2'-deoxy-5'-monophosphate
  • NA · Sodium ion
  • VMV · N-[4-({[(6S)-2,4-diamino-5,6,7,8-tetrahydropyrido[3,2-d]pyrimidin-6-yl]methyl}amino)benzene-1-carbonyl]-L-glutamic acid

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