SMTL ID : 4oi4.1 (1 other biounit)

Protein complex of Clp1 bound to ATP and Mg2+ with Pcf11deltaN454deltaC563 of S. cerevisiae

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-1-1-mer

Ligands

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 24 residues within 4Å: Chain A: D.41, Q.43, F.64, K.80, F.81, P.82, N.108, G.139, S.140, Q.141, T.142, G.143, K.144, T.145, S.146, D.169, S.262, D.319, G.320, V.321, S.322, K.329 Ligands: MG.2, GOL.3 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:D.41, A:N.108, A:Q.141, A:Q.141, A:T.142, A:G.143, A:K.144, A:T.145, A:S.146, A:S.146, A:D.169, A:S.262, A:S.322 Water bridges: A:T.145, A:T.145, A:Y.328, A:Y.328 Salt bridges: A:K.144, A:K.144, A:K.329

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: T.145 Ligands: ATP.1 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.145, H2O.1, H2O.4, H2O.4

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 9 residues within 4Å: Chain A: F.64, W.79, T.145, S.146, R.149, Q.172, P.195, W.197 Ligands: ATP.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.149, A:Q.172, A:P.195 Water bridges: A:T.145, A:Q.172

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dikfidan, A. et al., RNA specificity and regulation of catalysis in the eukaryotic polynucleotide kinase clp1. Mol.Cell (2014)

Release Date

2014-05-14

Peptides

mRNA cleavage and polyadenylation factor CLP1: A
Protein PCF11: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

mRNA cleavage and polyadenylation factor CLP1

Protein PCF11

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