SMTL ID : 5yyf.1 (1 other biounit)

Crystal structure of AF9 YEATS domain in complex with a peptide inhibitor "PHQ-H3(Q5-K9)" modified at K9 with 2-furancarboyl group

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x PHQ- GLN- THR- ALA- ARG- LYS- NH2: Peptide inhibitor PHQ-H3(Q5-K9)(Non-covalent)

PHQ-GLN-THR-ALA-ARG-LYS-NH2.1: 16 residues within 4Å: Chain A: H.33, H.59, S.61, F.62, Y.81, A.82, G.83, F.84, I.85, D.106, F.108, L.109, H.110, L.111, H.114 Ligands: FOA.4 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:A.82, A:L.109, A:H.114 Hydrogen bonds: A:S.61, A:Y.81, A:G.83, A:G.83, A:F.84, A:L.109, A:L.111 Water bridges: A:D.106, A:L.109, A:L.109 Salt bridges: A:D.106 pi-Stacking: A:H.110, A:H.114

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

SO4.2: 5 residues within 4Å: Chain A: R.19, M.36, F.38, R.40, P.73 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.19 Salt bridges: A:R.19, A:R.40 SO4.3: 4 residues within 4Å: Chain A: H.57, P.87, E.89, R.102 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.57, A:R.102

1 x FOA: 2-FUROIC ACID(Non-covalent)

FOA.4: 8 residues within 4Å: Chain A: F.31, S.61, F.62, S.79, G.80, Y.81, A.82 Ligands: PHQ-GLN-THR-ALA-ARG-LYS-NH2.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.31, A:F.31, A:Y.81 Hydrogen bonds: A:Y.81, A:A.82 pi-Stacking: A:F.62

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, X. et al., Structure-guided development of YEATS domain inhibitors by targeting pi-pi-pi stacking. Nat. Chem. Biol. (2018)

Release Date

2018-11-07

Peptides

Protein AF-9: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Protein AF-9

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