SMTL ID : 8tp8.1 (1 other biounit)

Structure of the C. crescentus WYL-activator, DriD, bound to ssDNA and cognate DNA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.74 Å

Oligo State

homo-dimer

Ligands

2 x DG- DT- DC: DNA (5'-D(P*GP*TP*C)-3')(Non-covalent)

DG-DT-DC.1: 20 residues within 4Å: Chain A: Y.188, G.190, G.191, S.192, R.198, R.209, Y.212, P.223, R.224, S.225, W.226, R.227, R.230, F.252, I.259, Y.260, H.261, R.308, E.309, W.312 Protein-ligand interaction information (PLIP) not available DG-DT-DC.2: 18 residues within 4Å: Chain B: Y.188, G.191, S.192, R.198, R.209, Y.212, P.223, R.224, S.225, W.226, R.227, R.230, I.259, Y.260, H.261, R.308, E.309, W.312 Protein-ligand interaction information (PLIP) not available

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

SO4.3: 7 residues within 4Å: Chain A: A.253, D.254, S.256, F.257, G.258 Chain B: A.157, V.158 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:V.158, A:D.254 SO4.4: 7 residues within 4Å: Chain A: A.157, V.158 Chain B: A.253, D.254, S.256, F.257, G.258 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:V.158, A:V.158, B:A.253, B:D.254

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schumacher, M.A. et al., Structure of the WYL-domain containing transcription activator, DriD, in complex with ssDNA effector and DNA target site. Nucleic Acids Res. (2024)

Release Date

2023-11-29

Peptides

DeoR-family transcriptional regulator: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DeoR-family transcriptional regulator

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