SMTL ID : 7ywa.1

Structure of DinI in complex with RecA filament

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-mer

Ligands

1 x DT- DT- DT- DT- DT- DT: DNA (5'-D(P*TP*TP*TP*TP*TP*T)-3')(Non-covalent)

DT-DT-DT-DT-DT-DT.1: 23 residues within 4Å: Chain B: M.165, G.166, A.169, R.170, S.173, R.177, R.197, M.198, K.199, I.200, T.211, G.212, G.213, N.214 Chain C: M.165, A.169, R.197, M.198, K.199, I.200, G.212, G.213, N.214 Protein-ligand interaction information (PLIP) not available

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain B: T.74, D.145 Ligands: AGS.3 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.74 MG.4: 3 residues within 4Å: Chain B: K.251 Chain C: T.74 Ligands: AGS.5 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.74

2 x AGS: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER(Non-covalent)

AGS.3: 11 residues within 4Å: Chain B: E.69, S.70, S.71, G.72, K.73, T.74, T.75, D.101, Y.104, Y.265 Ligands: MG.2 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:S.70, B:S.70, B:S.71, B:G.72, B:K.73, B:T.74, B:T.75, B:T.75, B:D.101, B:S.241, B:S.241 Salt bridges: B:K.73 pi-Stacking: B:Y.104, B:Y.104 AGS.5: 19 residues within 4Å: Chain B: F.218, K.249, N.250, K.251, I.252, A.253, A.254, P.255 Chain C: E.69, S.70, S.71, G.72, K.73, T.74, T.75, D.101, Y.104, Y.265 Ligands: MG.4 15 PLIP interactions: 4 interactions with chain B, 11 interactions with chain C Hydrogen bonds: B:K.249, B:K.251, B:I.252, C:S.70, C:S.70, C:S.71, C:G.72, C:K.73, C:T.74, C:T.75, C:T.75 Salt bridges: B:K.251, C:K.73 pi-Stacking: C:Y.104, C:Y.104

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gao, B. et al., Structural basis for regulation of SOS response in bacteria. Proc.Natl.Acad.Sci.USA (2023)

Release Date

2022-12-21

Peptides

DNA damage-inducible protein I: A
Protein RecA: BC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
F

C
G

DNA damage-inducible protein I

Protein RecA

Related Entries With Identical Sequence