SMTL ID : 8fbg.1 (1 other biounit)

Crystal structure of NSD1 Mutant-Y1869C

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.29 Å

Oligo State

monomer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.173, C.220, C.222, C.227 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.173, A:C.220, A:C.222, A:C.227 ZN.2: 7 residues within 4Å: Chain A: C.45, C.47, C.55, C.61, C.70 Ligands: ZN.3, CA.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.45, A:C.47, A:C.55, A:C.61 ZN.3: 6 residues within 4Å: Chain A: C.55, C.70, C.75, C.81 Ligands: ZN.2, CA.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.55, A:C.70, A:C.75, A:C.81

2 x CA: CALCIUM ION(Non-covalent)

CA.4: 7 residues within 4Å: Chain A: C.45, N.63, C.70, C.75 Ligands: ZN.2, ZN.3, CA.6 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.45, A:C.70, A:C.75 CA.6: 6 residues within 4Å: Chain A: R.44, C.45, N.63, C.70, C.75 Ligands: CA.4 No protein-ligand interaction detected (PLIP)

1 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)

SAM.5: 19 residues within 4Å: Chain A: R.102, G.103, W.104, T.144, N.145, F.146, Y.147, R.167, F.168, M.169, N.170, H.171, Y.208, N.215, V.219, C.220, K.221, C.222, L.231 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:W.104, A:T.144, A:F.146, A:F.146, A:Y.147, A:Y.147, A:N.170, A:H.171, A:H.171, A:N.215, A:K.221, A:C.222 Water bridges: A:N.145, A:N.145, A:N.145

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Providokhina, K. et al., Crystal structure of NSD1. To Be Published

Release Date

2023-01-18

Peptides

Histone-lysine N-methyltransferase, H3 lysine-36 specific: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Histone-lysine N-methyltransferase, H3 lysine-36 specific

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