SMTL ID : 8ahf.1

PAC-FragmentDEL: Photoactivated covalent capture of DNA encoded fragments for hit discovery

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.27 Å

Oligo State

homo-dimer

Ligands

2 x M3U: (2~{R},4~{S})-4-[bis(fluoranyl)methoxy]-~{N}-methyl-1-(2~{H}-pyrazolo[4,3-b]pyridin-6-ylcarbonyl)pyrrolidine-2-carboxamide(Non-covalent)

M3U.1: 14 residues within 4Å: Chain A: K.23, T.211, P.244, P.270, L.271, V.273, F.276, H.277, S.290, G.292, V.293, E.296, A.297 Ligands: SO4.3 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:L.271, A:S.290, A:S.290, A:G.292 pi-Stacking: A:F.276 M3U.8: 15 residues within 4Å: Chain B: T.211, H.213, P.244, P.270, L.271, V.273, F.276, H.277, S.290, G.291, G.292, V.293, E.296, A.297 Ligands: SO4.10 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:L.271, B:S.290, B:G.292 pi-Stacking: B:F.276, B:F.276 Halogen bonds: B:V.293

8 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 5 residues within 4Å: Chain A: P.298, S.299, A.352, S.353, N.354 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.354 Water bridges: A:S.299 SO4.3: 5 residues within 4Å: Chain A: H.213, S.290, G.291, G.292 Ligands: M3U.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.289, A:S.290, A:G.291, A:G.292 Salt bridges: A:H.213 SO4.4: 7 residues within 4Å: Chain A: G.16, T.17, R.18, A.46, Q.47, H.48, K.71 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.17, A:R.18, A:Q.47, A:H.48 Salt bridges: A:R.18, A:K.71 SO4.5: 3 residues within 4Å: Chain A: H.213, R.214, R.215 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.214 Salt bridges: A:H.213, A:R.214 SO4.6: 6 residues within 4Å: Chain A: R.18, H.48, R.49, Q.50, M.51, L.52 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.50, A:M.51, A:L.52 Water bridges: A:Q.50 Salt bridges: A:R.18 SO4.7: 4 residues within 4Å: Chain A: E.220, R.223, N.224, R.227 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.223, A:R.227 SO4.9: 8 residues within 4Å: Chain B: G.16, T.17, R.18, P.19, A.46, Q.47, H.48, K.71 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.18, B:Q.47, B:H.48 Salt bridges: B:R.18, B:H.48 SO4.10: 6 residues within 4Å: Chain B: R.214, D.289, S.290, G.291, G.292 Ligands: M3U.8 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.290, B:S.290, B:G.291 Salt bridges: B:R.214

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ma, H. et al., PAC-FragmentDEL - photoactivated covalent capture of DNA-encoded fragments for hit discovery. Rsc Med Chem (2022)

Release Date

2022-09-14

Peptides

UDP-N-acetylglucosamine 2-epimerase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

UDP-N-acetylglucosamine 2-epimerase

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