SMTL ID : 6chg.1

Crystal structure of the yeast COMPASS catalytic module

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.99 Å

Oligo State

hetero-1-1-1-1-2-mer

Ligands

1 x THR- MET- GLN: H3(Non-covalent)

THR-MET-GLN.1: 13 residues within 4Å: Chain C: Y.40, E.54, S.65, Y.66, L.67, F.68, R.69, I.88, Y.125, Y.127, K.128, F.129 Ligands: SAM.2 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:F.68 Hydrogen bonds: C:E.54, C:E.54, C:L.67, C:R.69, C:R.69, C:R.69, C:Y.127

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

SAM.2: 21 residues within 4Å: Chain A: W.182 Chain C: I.20, H.21, N.22, W.23, Y.40, G.63, S.64, S.65, Y.66, R.86, F.87, I.88, N.89, H.90, Y.127, C.141, L.142, C.143, L.152 Ligands: THR-MET-GLN.1 12 PLIP interactions: 12 interactions with chain C Hydrophobic interactions: C:Y.66 Hydrogen bonds: C:H.21, C:W.23, C:W.23, C:G.63, C:S.65, C:S.65, C:Y.66, C:H.90, C:L.142, C:L.142 Salt bridges: C:H.21

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 7 residues within 4Å: Chain C: H.90, C.91, C.92, C.141, C.143, C.148, K.149 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.92, C:C.141, C:C.143, C:K.149

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hsu, P.L. et al., Crystal Structure of the COMPASS H3K4 Methyltransferase Catalytic Module. Cell (2018)

Release Date

2018-08-22

Peptides

KLLA0E24487p: A
KLLA0C10945p: B
Histone-lysine N-methyltransferase, H3 lysine-4 specific: C
KLLA0A08800p: D
KLLA0E03521p: EF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

KLLA0E24487p

KLLA0C10945p

Histone-lysine N-methyltransferase, H3 lysine-4 specific

KLLA0A08800p

KLLA0E03521p

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