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Ligand · RDF

RDF · N-alpha-L-rhamnopyranosyloxy(hydroxyphosphinyl)-L-leucyl-L-tryptophan

RDF, N-alpha-L-rhamnopyranosyloxy(hydroxyphosphinyl)-L-leucyl-L-tryptophan (C23 H34 N3 O10 P, 543.5 g/mol), in the MolNFT structures on GenesisL1: bound in 18 records (9 PDB entries). Every binding site with its residues within 4.5 Å, the…

Component
RDF
Formula
C23 H34 N3 O10 P
Class
ligand
Structures
18
PDB entries
9

Binding sites

RDF in 18 structures; the first of them:

  • 1DMT · Structure of human neutral endopeptidase complexed with phosphoramidon · RDF A750 · binds ARG102, PHE106, ASP107, ARG110, VAL541, ASN542, ALA543, PHE544 and 12 more
  • 1TLP · Crystallographic structural analysis of phosphoramidates as inhibitors and… · RDF E317 · binds TYR110, ASN111, ASN112, ALA113, PHE114, TRP115, PHE130, LEU133 and 10 more
  • 3DBK · Pseudomonas aeruginosa elastase with phosphoramidon · RDF A2001 · binds GLU111, ASN112, ALA113, TYR114, TRP115, MET128, PHE129, LEU132 and 10 more
  • 3DWB · structure of human ECE-1 complexed with phosphoramidon · RDF A817 · binds PHE149, MET560, VAL565, ASN566, ALA567, TYR568, ILE582, PHE587 and 9 more
  • 3ZUK · Crystal structure of mycobacterium tuberculosis zinc metalloprotease ZMP1 in complex with… · RDF A1665 · binds PHE48, MET446, VAL451, ASN452, ALA453, TYR454, TYR455, ILE468 and 12 more
  • 4B52 · Crystal structure of Gentlyase, the neutral metalloprotease of Paenibacillus polymyxa · RDF A501 · binds ASN104, ASN105, ALA106, PHE107, TRP108, PHE123, PHE126, VAL132 and 11 more
  • 4CTH · Neprilysin variant G399V,G714K in complex with phosphoramidon · RDF A1759 · binds PHE106, VAL541, ASN542, ALA543, PHE544, TYR545, ILE558, PHE563 and 10 more
  • 4ZR5 · Soluble rabbit neprilysin in complex with phosphoramidon · RDF A802 · binds ARG103, SER105, PHE107, ASP108, ARG111, VAL542, ASN543, ALA544 and 13 more
  • 6BH8 · Crystal structure of ZMPSTE24 in complex with phosphoramidon · RDF A502 · binds SER264, ASN265, ALA266, VAL332, HIS335, GLU336, HIS339, SER411 and 8 more
  • 1DMT · Structure of human neutral endopeptidase complexed with phosphoramidon · RDF A750 · binds ARG102, PHE106, ASP107, ARG110, VAL541, ASN542, ALA543, PHE544 and 12 more
  • 1TLP · Crystallographic structural analysis of phosphoramidates as inhibitors and… · RDF E317 · binds TYR110, ASN111, ASN112, ALA113, PHE114, TRP115, PHE130, LEU133 and 10 more
  • 3DBK · Pseudomonas aeruginosa elastase with phosphoramidon · RDF A2001 · binds GLU111, ASN112, ALA113, TYR114, TRP115, MET128, PHE129, LEU132 and 10 more
  • 3DWB · Structure of human ece-1 complexed with phosphoramidon · RDF A817 · binds PHE149, MET560, VAL565, ASN566, ALA567, TYR568, ILE582, PHE587 and 9 more
  • 3ZUK · Crystal structure of mycobacterium tuberculosis zinc metalloprotease ZMP1 in complex with… · RDF A1665 · binds PHE48, MET446, VAL451, ASN452, ALA453, TYR454, TYR455, ILE468 and 12 more
  • 4B52 · Crystal structure of gentlyase, the neutral metalloprotease of paenibacillus polymyxa · RDF A501 · binds ASN104, ASN105, ALA106, PHE107, TRP108, PHE123, PHE126, VAL132 and 11 more
  • 4CTH · Neprilysin variant G399V,G714K in complex with phosphoramidon · RDF A1759 · binds PHE106, VAL541, ASN542, ALA543, PHE544, TYR545, ILE558, PHE563 and 10 more
  • 4ZR5 · Soluble rabbit neprilysin in complex with phosphoramidon · RDF A802 · binds ARG103, SER105, PHE107, ASP108, ARG111, VAL542, ASN543, ALA544 and 13 more
  • 6BH8 · Crystal structure of ZMPSTE24 in complex with phosphoramidon · RDF A502 · binds SER264, ASN265, ALA266, VAL332, HIS335, GLU336, HIS339, SER411 and 8 more

Residues it binds most

HIS 26, VAL 26, GLU 26, PHE 22, ARG 26, ASN 26, TYR 22, ALA 26, LEU 12, TRP 22 (residue and the binding sites it lines).

Found with

  • ZN · Zinc ion
  • CA · Calcium ion
  • NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose
  • SO4 · Sulfate ion
  • GOL · Glycerol
  • 211 · 2,2',2''-nitrilotriethanol
  • 5HD · 5-(2-hydroxyethyl)nonane-1,9-diol
  • NA · Sodium ion
  • CL · Chloride ion
  • ACT · Acetate ion
  • C8E · (hydroxyethyloxy)tri(ethyloxy)octane
  • PEG · Di(hydroxyethyl)ether

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