SMTL ID : 4okk.1

Crystal structure of RNase AS from M tuberculosis in complex with UMP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.21 Å

Oligo State

homo-dimer

Ligands

2 x U5P: URIDINE-5'-MONOPHOSPHATE(Non-covalent)

U5P.1: 9 residues within 4Å: Chain A: D.6, T.7, E.8, F.9, W.46, V.47, V.51 Ligands: MG.2, MG.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.9 Water bridges: A:F.9 pi-Stacking: A:W.46 U5P.5: 11 residues within 4Å: Chain A: M.106 Chain B: D.6, T.7, E.8, F.9, W.46, V.47, V.51, D.145 Ligands: MG.6, MG.8 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:E.8, B:F.9 Water bridges: B:T.7, B:F.9, B:V.47 pi-Stacking: B:W.46

6 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: D.6, T.7, D.95 Ligands: U5P.1, MG.4 5 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions, 1 Ligand-Water interactions Metal complexes: A:D.6, A:T.7, A:D.95, U5P.1, H2O.7 MG.3: 6 residues within 4Å: Chain A: Y.5, D.6, A.89, W.90, D.145, Q.149 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:Y.5 MG.4: 6 residues within 4Å: Chain A: D.6, T.7, E.8, D.145 Ligands: U5P.1, MG.2 5 PLIP interactions: 3 interactions with chain A, 1 Ligand-Ligand interactions, 1 Ligand-Water interactions Metal complexes: A:D.6, A:D.6, A:E.8, U5P.1, H2O.2 MG.6: 4 residues within 4Å: Chain B: D.6, D.95 Ligands: U5P.5, MG.8 5 PLIP interactions: 1 interactions with chain B, 1 Ligand-Ligand interactions, 3 Ligand-Water interactions Metal complexes: B:D.6, U5P.5, H2O.7, H2O.10, H2O.12 MG.7: 4 residues within 4Å: Chain B: E.37, S.65, R.66, Q.67 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.37, H2O.11, H2O.11 MG.8: 6 residues within 4Å: Chain B: D.6, T.7, E.8, D.145 Ligands: U5P.5, MG.6 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:D.6, B:D.6, B:E.8, B:D.145, U5P.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Romano, M. et al., Structure and Function of RNase AS, a Polyadenylate-Specific Exoribonuclease Affecting Mycobacterial Virulence In Vivo. Structure (2014)

Release Date

2014-05-21

Peptides

3'-5' exoribonuclease Rv2179c/MT2234.1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3'-5' exoribonuclease Rv2179c/MT2234.1

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