SMTL ID : 4wwc.1

Crystal structure of full length YvoA in complex with palindromic operator DNA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-dimer

Ligands

7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 4 residues within 4Å: Chain A: M.52 Chain B: M.52 Chain D: C.8, T.9 No protein-ligand interaction detected (PLIP) EDO.2: 8 residues within 4Å: Chain B: T.90, S.91, F.92, D.95, Q.186, R.214, Y.231, Y.236 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.214, B:Y.236, B:Y.236 EDO.3: 7 residues within 4Å: Chain A: T.53, Q.56 Chain B: M.52, R.55 Chain C: T.7, C.8, T.9 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.55 EDO.4: 2 residues within 4Å: Chain B: D.109, T.135 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.133, B:K.133 EDO.5: 5 residues within 4Å: Chain B: Y.170, R.214, T.216, F.224, E.225 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.214, B:T.216, B:E.225 EDO.6: 2 residues within 4Å: Chain C: C.13 Chain D: T.7 No protein-ligand interaction detected (PLIP) EDO.7: 4 residues within 4Å: Chain C: G.5, G.6 Chain D: C.14, A.15 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fillenberg, S.B. et al., Structural insight into operator dre-sites recognition and effector binding in the GntR/HutC transcription regulator NagR. Nucleic Acids Res. (2015)

Release Date

2015-01-14

Peptides

HTH-type transcriptional repressor YvoA: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

HTH-type transcriptional repressor YvoA

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