SMTL ID : 7z67.1

Crystal structure of the tandem kinase & triphosphate tunnel metalloenzyme domain module of the TTM1 protein from Arabidoposis thaliana in complex with a adenosine nucleotide analog.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

monomer

Ligands

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.1: 13 residues within 4Å: Chain A: I.236, K.238, R.283, R.285, W.298, R.309, R.335, K.348, Q.361, Q.363, T.387, Y.388 Ligands: MG.4 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:I.236 Hydrogen bonds: A:R.283, A:R.283, A:Q.361, A:Q.361, A:Q.363, A:Y.388 Salt bridges: A:K.238, A:R.283, A:R.283, A:R.285, A:R.285, A:R.309, A:R.335, A:K.348, A:K.348

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

EDO.2: 4 residues within 4Å: Chain A: T.368, F.369, N.372, V.373 No protein-ligand interaction detected (PLIP)

1 x ACP: PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER(Non-covalent)

ACP.3: 17 residues within 4Å: Chain A: P.57, S.58, G.59, A.60, G.61, K.62, T.63, I.64, G.170, V.171, N.222, K.223, F.224, N.225, T.311, F.312, E.313 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:G.59, A:A.60, A:G.61, A:K.62, A:K.62, A:K.62, A:T.63, A:T.63, A:I.64, A:V.171, A:N.222, A:N.222, A:N.225, A:T.311, A:T.311, A:E.313

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 6 residues within 4Å: Chain A: Y.267, R.283, T.387, Y.388, I.389 Ligands: CIT.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:Y.267

1 x NA: SODIUM ION(Non-functional Binders)

NA.5: 2 residues within 4Å: Chain A: R.185, A.186 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.186

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pesquera, M. et al., Structural and biological insight into the plant unique multimodular triphosphosphate tunnel metalloenzymes of Arabidopsis thaliana. To Be Published

Release Date

2022-03-23

Peptides

Inorganic pyrophosphatase TTM1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Inorganic pyrophosphatase TTM1

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