SMTL ID : 8d2m.1 (1 other biounit)

Covalent Schiff base complex of YedK C2A and abasic DNA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.82 Å

Oligo State

monomer

Ligands

1 x DG- DT- DC- PED- DG- DG- DA: DNA (5'-D(*GP*TP*CP*(PED)P*GP*GP*A)-3')(Non-covalent)

DG-DT-DC-PED-DG-DG-DA.1: 25 residues within 4Å: Chain A: A.1, G.2, R.3, A.38, P.39, W.66, W.67, L.72, I.73, N.74, A.75, R.76, S.83, R.84, M.85, F.86, P.88, W.105, K.112, T.148, H.159, R.161, G.208, N.209, V.210 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.1 Hydrogen bonds: A:T.148, A:H.159 Salt bridges: A:R.76, A:R.161

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Paulin, K.A. et al., The SOS response-associated peptidase (SRAP) domain of YedK catalyzes ring opening of abasic sites and reversal of its DNA-protein cross-link. J.Biol.Chem. (2022)

Release Date

2023-04-12

Peptides

Abasic site processing protein YedK: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Abasic site processing protein YedK

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