SMTL ID : 5udk.1

IFIT1 monomeric mutant (L457E/L464E) with PPP-AAAA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

monomer

Ligands

1 x ATP- A- A- A: RNA (5'-D(*(ATP))-R(P*AP*AP*A)-3')(Non-covalent)

ATP-A-A-A.1: 41 residues within 4Å: Chain A: R.39, L.151, K.152, G.154, G.155, K.156, Y.158, Y.187, R.188, G.191, F.192, L.194, A.195, Y.219, Y.253, R.256, Y.257, K.260, R.263, R.264, V.286, L.287, H.290, Q.291, L.294, K.297, K.337, T.339, F.340, E.341, V.342, L.345, D.346, R.349, V.373, V.374, T.377, D.380, H.384, L.414 Ligands: PGE.2 31 PLIP interactions: 31 interactions with chain A Hydrogen bonds: A:G.155, A:Y.158, A:Y.219 Water bridges: A:L.151, A:K.152, A:G.154, A:K.156, A:R.188, A:R.188, A:R.188, A:Y.253, A:R.256, A:R.256, A:K.337, A:K.337, A:K.337, A:K.337, A:E.341, A:V.373, A:V.374, A:V.374 Salt bridges: A:R.39, A:R.39, A:K.152, A:K.152, A:R.188, A:R.188, A:R.188, A:R.256, A:K.337 pi-Stacking: A:F.192

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.2: 13 residues within 4Å: Chain A: Q.43, L.47, T.49, Y.51, W.148, K.152, E.177, I.184, R.188, Y.219, Y.253 Ligands: ATP-A-A-A.1, PEG.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.43, A:Y.51, A:K.152, A:Y.219 Water bridges: A:R.188, A:R.188 PGE.5: 3 residues within 4Å: Chain A: H.64, L.65, H.108 1 PLIP interactions: 1 interactions with chain A Water bridges: A:G.67

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 13 residues within 4Å: Chain A: L.47, D.48, T.49, W.148, E.177, A.180, I.184, N.214, N.217, Y.219, I.220 Ligands: PGE.2, EDO.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.48, A:N.217

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 11 residues within 4Å: Chain A: L.47, D.48, D.216, N.217, G.218, Y.219, I.220, N.247, S.249, S.250 Ligands: PEG.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.216, A:N.217, A:G.218, A:Y.219

2 x CA: CALCIUM ION(Non-covalent)

CA.6: 2 residues within 4Å: Chain A: D.48, S.250 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.48, A:D.48, H2O.5, H2O.7, H2O.10 CA.7: 1 residues within 4Å: Chain A: E.78 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.78, A:E.78, H2O.10, H2O.11, H2O.12

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abbas, Y.M. et al., Structure of human IFIT1 with capped RNA reveals adaptable mRNA binding and mechanisms for sensing N1 and N2 ribose 2'-O methylations. Proc. Natl. Acad. Sci. U.S.A. (2017)

Release Date

2017-03-01

Peptides

Interferon-induced protein with tetratricopeptide repeats 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Interferon-induced protein with tetratricopeptide repeats 1

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