SMTL ID : 5cou.1

Structure and mechanism of a eukaryal nick-sealing RNA ligase K170M+ATP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

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

ATP.1: 20 residues within 4Å: Chain A: R.5, D.54, K.122, T.146, Q.148, R.150, T.169, V.170, M.171, L.172, S.176, E.228, F.249, V.282, V.316, K.318, K.327, I.329 Ligands: MN.2, MN.3 27 PLIP interactions: 27 interactions with chain A Hydrogen bonds: A:T.146, A:T.146, A:T.169, A:T.169, A:L.172, A:S.176, A:K.318 Water bridges: A:K.122, A:K.122, A:Q.148, A:Q.148, A:R.150, A:R.150, A:S.176, A:R.191, A:E.313, A:K.327, A:K.327, A:K.327 Salt bridges: A:R.5, A:K.122, A:K.122, A:R.150, A:K.327, A:K.327, A:K.327 pi-Stacking: A:F.249

2 x MN: MANGANESE (II) ION(Non-functional Binders)

MN.2: 1 residues within 4Å: Ligands: ATP.1 No protein-ligand interaction detected (PLIP) MN.3: 1 residues within 4Å: Ligands: ATP.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Unciuleac, M.C. et al., Structure and two-metal mechanism of a eukaryal nick-sealing RNA ligase. Proc.Natl.Acad.Sci.USA (2015)

Release Date

2015-10-28

Peptides

Naegleria gruberi RNA ligase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Naegleria gruberi RNA ligase

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