SMTL ID : 5fpr.1

Structure of Bacterial DNA Ligase with small-molecule ligand pyrimidin-2-amine (AT371) in an alternate binding site.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 5 residues within 4Å: Chain A: K.182, F.190, G.199, Q.203, R.212 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.203, A:Q.203 Salt bridges: A:K.182, A:R.212 SO4.2: 5 residues within 4Å: Chain A: G.115, L.116, A.117, R.133, R.194 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:A.117 Water bridges: A:G.115, A:R.133, A:G.134, A:E.167, A:R.194, A:R.194 Salt bridges: A:R.194

1 x LGA: PYRIMIDIN-2-AMINE

LGA.3: 9 residues within 4Å: Chain A: Y.18, S.19, Y.22, Y.23, P.28, V.30, P.31, D.32, Y.35 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.22, A:Y.23, A:Y.35 Hydrogen bonds: A:V.30 pi-Stacking: A:Y.22

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ludlow, R.F. et al., Detection of Secondary Binding Sites in Proteins Using Fragment Screening. Proc.Natl.Acad.Sci.USA (2015)

Release Date

2015-12-16

Peptides

DNA LIGASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA LIGASE

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