SMTL ID : 5n2v.2 (1 other biounit)

Changes in conformational equilibria regulate the activity of the Dcp2 decapping enzyme

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

hetero-1-1-1-mer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 6 residues within 4Å: Chain B: K.129, G.130, E.149, E.194 Ligands: MG.2, M7G.4 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:K.129, B:E.149 MG.2: 7 residues within 4Å: Chain B: E.145, E.148, E.149, E.194 Ligands: MG.1, MG.3, M7G.4 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.145, B:E.149, B:E.194 MG.3: 4 residues within 4Å: Chain B: E.145, E.148 Ligands: MG.2, M7G.4 No protein-ligand interaction detected (PLIP)

1 x M7G: 7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE(Non-covalent)

M7G.4: 13 residues within 4Å: Chain B: W.45, D.49, K.129, G.130, K.131, E.145, E.149, R.192, K.193, E.194 Ligands: MG.1, MG.2, MG.3 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:K.131, B:R.192, B:K.193 Salt bridges: B:D.49, B:K.131, B:K.131 pi-Stacking: B:W.45, B:W.45 pi-Cation interactions: B:W.45

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wurm, J.P. et al., Changes in conformational equilibria regulate the activity of the Dcp2 decapping enzyme. Proc. Natl. Acad. Sci. U.S.A. (2017)

Release Date

2017-05-24

Peptides

mRNA-decapping enzyme subunit 1: A
mRNA decapping complex subunit 2: B
Edc1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

C
F

mRNA-decapping enzyme subunit 1

mRNA decapping complex subunit 2

Edc1

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