SMTL ID : 6vff.1

Dimer of Human Adenosine Deaminase Acting on dsRNA (ADAR2) mutant E488Q bound to dsRNA sequence derived from human GLI1 gene

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

2 x IHP: INOSITOL HEXAKISPHOSPHATE(Non-covalent)

IHP.1: 18 residues within 4Å: Chain A: N.178, I.184, R.187, R.188, T.300, K.306, R.309, G.317, S.318, K.416, Y.445, K.449, Y.455, K.459, W.474, E.476, K.477, D.482 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:N.178, A:R.309, A:S.318, A:Y.455, A:E.476, A:K.477 Water bridges: A:R.309, A:L.319, A:Y.455 Salt bridges: A:R.187, A:R.188, A:R.188, A:K.306, A:K.306, A:R.309, A:R.309, A:K.416, A:K.449, A:K.449, A:K.449, A:K.459, A:K.477 IHP.3: 19 residues within 4Å: Chain B: N.178, I.184, R.187, R.188, T.300, K.306, R.309, G.317, S.318, K.416, Y.445, K.449, Y.455, K.459, W.474, V.475, E.476, K.477, D.482 20 PLIP interactions: 20 interactions with chain B Hydrogen bonds: B:N.178, B:S.318, B:Y.445, B:E.476, B:E.476, B:K.477 Salt bridges: B:R.187, B:R.188, B:R.188, B:K.306, B:K.306, B:R.309, B:R.309, B:K.416, B:K.449, B:K.449, B:K.449, B:K.459, B:K.477, B:K.477

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 6 residues within 4Å: Chain A: H.181, E.183, C.238, K.270, C.303 Chain C: X.13 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.181, A:C.238, A:C.303 ZN.4: 5 residues within 4Å: Chain B: H.181, E.183, C.238, K.270, C.303 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.181, B:C.238, B:C.303, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thuy-Boun, A.S. et al., Asymmetric dimerization of adenosine deaminase acting on RNA facilitates substrate recognition. Nucleic Acids Res. (2020)

Release Date

2020-07-01

Peptides

Double-stranded RNA-specific editase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Double-stranded RNA-specific editase 1

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