SMTL ID : 3adb.1

Crystal structure of O-phosphoseryl-tRNA kinase complexed with selenocysteine tRNA and AMPPNP (crystal type 1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

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

PO4.1: 8 residues within 4Å: Chain A: L.19, P.20, G.21, V.22, G.23, K.24, S.25, R.127 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:G.21, A:V.22, A:G.23, A:K.24, A:S.25 Water bridges: A:K.24, A:K.24, A:S.25, A:S.25, A:S.25, A:D.85 Salt bridges: A:K.24, A:R.127

1 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.2: 13 residues within 4Å: Chain B: L.19, P.20, G.21, V.22, G.23, K.24, S.25, T.26, D.48, R.123, R.127, T.161 Ligands: MG.3 17 PLIP interactions: 17 interactions with chain B Hydrogen bonds: B:G.21, B:V.22, B:G.23, B:K.24, B:K.24, B:S.25, B:T.26, B:T.26, B:R.127, B:R.127, B:T.161 Water bridges: B:S.25, B:S.25, B:D.48, B:T.87 Salt bridges: B:R.127 pi-Cation interactions: B:R.123

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain B: S.25, D.85 Ligands: ANP.2 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:S.25, H2O.2, H2O.2, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chiba, S. et al., Structural Basis for the Major Role of O-Phosphoseryl-tRNA Kinase in the UGA-Specific Encoding of Selenocysteine. Mol.Cell (2010)

Release Date

2010-07-28

Peptides

L-seryl-tRNA(Sec) kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

L-seryl-tRNA(Sec) kinase

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