SMTL ID : 7tif.2 (11 other biounits)

2.85 Angstroem crystal structure of Arginyltransferase 1 (ATE1) from Saccharomyces cerevisiae

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

monomer

Ligands

25 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 7 residues within 4Å: Chain A: H.316, G.338, E.339, T.342, V.344, L.348 Ligands: SO4.8 Ligand excluded by PLIP SO4.2: 4 residues within 4Å: Chain A: V.351, D.352, S.353, E.490 Ligand excluded by PLIP SO4.3: 5 residues within 4Å: Chain A: E.200, G.204, T.205, S.208, K.225 Ligand excluded by PLIP SO4.4: 4 residues within 4Å: Chain A: R.479, Y.499, S.500 Ligands: SO4.16 Ligand excluded by PLIP SO4.5: 3 residues within 4Å: Chain A: R.43, Y.44, K.47 Ligand excluded by PLIP SO4.6: 3 residues within 4Å: Chain A: R.156, Q.206, W.209 Ligand excluded by PLIP SO4.7: 2 residues within 4Å: Chain A: K.176, Y.181 Ligand excluded by PLIP SO4.8: 4 residues within 4Å: Chain A: H.316, E.339, F.361 Ligands: SO4.1 Ligand excluded by PLIP SO4.9: 4 residues within 4Å: Chain A: D.71, R.72, G.356, R.357 Ligand excluded by PLIP SO4.10: 3 residues within 4Å: Chain A: T.345, K.346 Ligands: SO4.19 Ligand excluded by PLIP SO4.11: 4 residues within 4Å: Chain A: R.119, R.123, K.266, W.267 Ligand excluded by PLIP SO4.12: 7 residues within 4Å: Chain A: G.77, K.87, V.88, L.97, T.99, V.314 Ligands: GOL.27 Ligand excluded by PLIP SO4.13: 4 residues within 4Å: Chain A: G.423, I.424, K.478, D.482 Ligand excluded by PLIP SO4.14: 3 residues within 4Å: Chain A: E.359 Ligands: SO4.15, SO4.22 Ligand excluded by PLIP SO4.15: 4 residues within 4Å: Chain A: E.359, G.360 Ligands: SO4.14, SO4.22 Ligand excluded by PLIP SO4.16: 5 residues within 4Å: Chain A: A.9, S.11, H.13 Ligands: SO4.4, GOL.29 Ligand excluded by PLIP SO4.17: 3 residues within 4Å: Chain A: W.8, I.458 Ligands: GOL.29 Ligand excluded by PLIP SO4.18: 4 residues within 4Å: Chain A: F.61, E.63, K.83 Ligands: SO4.20 Ligand excluded by PLIP SO4.19: 5 residues within 4Å: Chain A: S.386, E.389, S.390, L.438 Ligands: SO4.10 Ligand excluded by PLIP SO4.20: 1 residues within 4Å: Ligands: SO4.18 Ligand excluded by PLIP SO4.21: 6 residues within 4Å: Chain A: E.158, S.163, E.165, K.166, Y.235 Ligands: GOL.26 Ligand excluded by PLIP SO4.22: 5 residues within 4Å: Chain A: K.318, G.360, P.362 Ligands: SO4.14, SO4.15 Ligand excluded by PLIP SO4.23: 2 residues within 4Å: Chain A: H.13, N.14 Ligand excluded by PLIP SO4.24: 4 residues within 4Å: Chain A: Y.173, V.177, W.260, G.270 Ligand excluded by PLIP SO4.25: 4 residues within 4Å: Chain A: N.214, R.217, M.218, E.222 Ligand excluded by PLIP

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.26: 4 residues within 4Å: Chain A: S.163, E.164, E.165 Ligands: SO4.21 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.164, A:E.165 GOL.27: 8 residues within 4Å: Chain A: P.90, Y.98, L.312, D.313, V.314, L.334, F.335 Ligands: SO4.12 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.313, A:V.314, A:F.335, A:F.335 GOL.28: 6 residues within 4Å: Chain A: H.316, K.318, Y.349, L.350, V.351, E.354 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.351 GOL.29: 4 residues within 4Å: Chain A: W.8, F.61 Ligands: SO4.16, SO4.17 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.8 GOL.30: 1 residues within 4Å: Chain A: L.498 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Van, V. et al., The Structure of Saccharomyces cerevisiae Arginyltransferase 1 (ATE1). J.Mol.Biol. (2022)

Release Date

2022-09-14

Peptides

Arginyl-tRNA--protein transferase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Arginyl-tRNA--protein transferase 1

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