SMTL ID : 6j2p.2 (3 other biounits)

Crystal structure of Saccharomyces cerevisiae Spp1 in complex with H3K4me3

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

monomer

Ligands

1 x ALA- ARG- THR- M3L- GLN- THR: Histone H3(Non-covalent)

ALA-ARG-THR-M3L-GLN-THR.1: 14 residues within 4Å: Chain A: Y.27, D.34, G.36, E.37, L.38, M.39, V.40, G.41, C.42, D.43, D.46, W.48, V.64, F.65 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:L.38, A:W.48, A:W.48, A:V.64 Hydrogen bonds: A:M.39, A:M.39, A:G.41, A:C.42, A:C.42, A:F.65 Salt bridges: A:D.34, A:D.43, A:D.46 pi-Cation interactions: A:W.48, A:W.48

3 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.28, C.30, H.50, C.53 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.28, A:C.30, A:H.50, A:C.53 ZN.3: 4 residues within 4Å: Chain A: C.42, C.45, C.69, C.72 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.42, A:C.45, A:C.69, A:C.72 ZN.4: 4 residues within 4Å: Chain A: C.96, C.101, C.112, H.116 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.96, A:C.101, A:C.112, A:H.116

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

He, C. et al., Structural basis for histone H3K4me3 recognition by the N-terminal domain of the PHD finger protein Spp1. Biochem.J. (2019)

Release Date

2019-09-11

Peptides

COMPASS component SPP1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

COMPASS component SPP1

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