SMTL ID : 1xmm.1 (1 other biounit)

Structure of human Dcps bound to m7GDP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 6 residues within 4Å: Chain A: H.273, P.276, S.277, H.282, H.284, R.299 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:S.277, A:S.277, A:S.277, A:Y.278 Salt bridges: A:H.273, A:H.282, A:H.284, A:R.299 PO4.3: 5 residues within 4Å: Chain A: Y.118 Chain B: K.147, Y.148, Y.278 Ligands: M7G.4 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.148 Salt bridges: B:K.147

1 x G7M: N7-METHYL-GUANOSINE-5'-MONOPHOSPHATE(Non-covalent)

G7M.2: 8 residues within 4Å: Chain A: W.180, E.190, R.193, I.208, D.210, L.211, S.277, Y.278 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.193 Salt bridges: A:E.190 pi-Stacking: A:W.180, A:W.180

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

M7G.4: 22 residues within 4Å: Chain A: F.113, N.115, Y.118 Chain B: K.147, W.180, E.190, R.193, I.208, P.209, D.210, L.211, K.212, Y.222, I.224, H.273, P.276, S.277, Y.278, H.282, H.284, R.299 Ligands: PO4.3 21 PLIP interactions: 20 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.193, B:P.209, B:L.211, B:K.212, B:K.212, B:S.277, B:S.277, B:Y.278, B:H.284, A:N.115 Water bridges: B:H.273 Salt bridges: B:K.147, B:E.190, B:K.212, B:H.273, B:H.273, B:H.282, B:H.284, B:R.299 pi-Stacking: B:W.180, B:W.180

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, N. et al., Crystal structures of human DcpS in ligand-free and m7GDP-bound forms suggest a dynamic mechanism for scavenger mRNA decapping. J.Mol.Biol. (2005)

Release Date

2005-03-22

Peptides

heat shock-like protein 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

heat shock-like protein 1

Related Entries With Identical Sequence