SMTL ID : 4zkd.1

Crystal structure of the S. cerevisiae Ski7 GTPase-like domain, bound to GDP and inorganic phosphate.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.18 Å

Oligo State

monomer

Ligands

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

PO4.1: 11 residues within 4Å: Chain A: D.27, T.28, N.29, K.32, F.84, S.85, P.110, G.111, S.112 Ligands: GDP.2, MG.3 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:D.27, A:T.28, A:N.29, A:S.85, A:S.85, A:G.111, A:S.112 Water bridges: A:K.32, A:S.33 Salt bridges: A:K.32

1 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.2: 22 residues within 4Å: Chain A: D.27, T.28, N.29, A.30, G.31, K.32, S.33, T.34, S.65, S.66, N.67, K.70, N.179, K.180, D.182, L.183, S.219, G.220, L.221, L.222 Ligands: PO4.1, MG.3 27 PLIP interactions: 27 interactions with chain A Hydrogen bonds: A:D.27, A:T.28, A:T.28, A:N.29, A:A.30, A:G.31, A:K.32, A:S.33, A:T.34, A:T.34, A:S.65, A:S.65, A:N.67, A:K.180, A:K.180, A:S.219, A:S.219, A:G.220, A:L.221 Water bridges: A:K.32, A:S.33, A:S.85, A:N.179, A:N.179 Salt bridges: A:K.32, A:K.70, A:D.182

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 6 residues within 4Å: Chain A: K.32, S.33, S.85, D.108 Ligands: PO4.1, GDP.2 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.33, A:S.85, H2O.1, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kowalinski, E. et al., Saccharomyces cerevisiae Ski7 Is a GTP-Binding Protein Adopting the Characteristic Conformation of Active Translational GTPases. Structure (2015)

Release Date

2015-06-17

Peptides

Superkiller protein 7: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Superkiller protein 7

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