SMTL ID : 4yj1.1

Crystal structure of T. brucei MRB1590-ADP bound to poly-U RNA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 18 residues within 4Å: Chain A: P.214, R.215, L.224, N.227, A.228, V.229, G.265, G.266, F.267, H.268, G.269, K.270, S.271, T.272, R.275, Y.427 Chain B: K.326 Ligands: MG.2 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:V.229, A:V.229, A:F.267, A:H.268, A:G.269, A:K.270, A:S.271, A:T.272, A:T.272, A:R.275, A:Y.427 Water bridges: A:R.215, A:R.215, A:S.271, A:S.271, A:D.360, A:D.360 pi-Stacking: A:Y.427, A:Y.427 ADP.4: 18 residues within 4Å: Chain A: K.326 Chain B: P.214, R.215, L.224, N.227, A.228, V.229, G.265, G.266, F.267, H.268, G.269, K.270, S.271, T.272, R.275, Y.427 Ligands: MG.5 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:V.229, B:V.229, B:F.267, B:H.268, B:G.269, B:K.270, B:S.271, B:T.272, B:T.272, B:R.275, B:Y.427 Water bridges: B:R.215, B:R.215, B:S.271, B:S.271, B:D.360, B:D.360 pi-Stacking: B:Y.427, B:Y.427

4 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.2: 4 residues within 4Å: Chain A: S.271, D.362 Chain B: S.337 Ligands: ADP.1 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:S.271, H2O.1, H2O.2, H2O.2, H2O.3 MG.3: 5 residues within 4Å: Chain A: S.503, M.504 Chain B: S.503, M.504 Ligands: MG.6 No protein-ligand interaction detected (PLIP) MG.5: 4 residues within 4Å: Chain A: S.337 Chain B: S.271, D.362 Ligands: ADP.4 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:S.271, H2O.21, H2O.22, H2O.22, H2O.23 MG.6: 5 residues within 4Å: Chain A: S.503, M.504 Chain B: S.503, M.504 Ligands: MG.3 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shaw, P.L. et al., Structures of the T. brucei kRNA editing factor MRB1590 reveal unique RNA-binding pore motif contained within an ABC-ATPase fold. Nucleic Acids Res. (2015)

Release Date

2015-08-12

Peptides

Uncharacterized protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Uncharacterized protein