SMTL ID : 1ueu.2 (1 other biounit)

Divergent evolutions of trinucleotide polymerization revealed by an archaeal CCA-adding enzyme structure

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 2 residues within 4Å: Chain A: V.167, N.234 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.234 Water bridges: A:N.234, A:R.237 ACT.5: 2 residues within 4Å: Chain B: V.167, N.234 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.234 Water bridges: B:N.234, B:R.237

4 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: E.59, D.61, D.110 Ligands: CTP.4 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.59, A:D.61, A:D.110, H2O.5, H2O.6 MG.3: 4 residues within 4Å: Chain A: S.47, E.59, D.61 Ligands: CTP.4 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.61, H2O.8 MG.6: 4 residues within 4Å: Chain B: E.59, D.61, D.110 Ligands: CTP.8 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.59, B:D.61, B:D.110, H2O.16, H2O.17 MG.7: 4 residues within 4Å: Chain B: S.47, E.59, D.61 Ligands: CTP.8 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.61, H2O.19

2 x CTP: CYTIDINE-5'-TRIPHOSPHATE(Covalent)

CTP.4: 18 residues within 4Å: Chain A: V.45, G.46, S.47, R.50, T.52, W.53, L.54, S.57, E.59, D.61, T.130, H.133, K.152, Y.161, G.172, Y.173 Ligands: MG.2, MG.3 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:T.130 Hydrogen bonds: A:V.45, A:S.47, A:S.47, A:R.50, A:T.52, A:L.54, A:S.57, A:H.133, A:Y.161, A:Y.161, A:Y.173 Water bridges: A:R.50, A:D.61, A:G.172, A:E.176 Salt bridges: A:K.152, A:K.152, A:K.152 CTP.8: 18 residues within 4Å: Chain B: V.45, G.46, S.47, R.50, T.52, W.53, L.54, S.57, E.59, D.61, T.130, H.133, K.152, Y.161, G.172, Y.173 Ligands: MG.6, MG.7 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:T.130 Hydrogen bonds: B:V.45, B:S.47, B:S.47, B:R.50, B:T.52, B:L.54, B:S.57, B:Y.161, B:Y.161, B:Y.173 Water bridges: B:R.50, B:T.52, B:T.52, B:D.61, B:G.172 Salt bridges: B:K.152, B:K.152, B:K.152

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Okabe, M. et al., Divergent evolutions of trinucleotide polymerization revealed by an archaeal CCA-adding enzyme structure. Embo J. (2003)

Release Date

2003-12-02

Peptides

tRNA nucleotidyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

tRNA nucleotidyltransferase

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