SMTL ID : 2f7a.1

BenM effector binding domain with its effector, cis,cis-muconate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x BEZ: BENZOIC ACID(Non-covalent)

BEZ.1: 9 residues within 4Å: Chain A: L.20, L.24, L.25, I.28, F.64, L.79, R.80, I.189, Y.213 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.20, A:L.20, A:L.25, A:L.25, A:I.28, A:F.64, A:F.64, A:L.79, A:I.189, A:Y.213 Hydrogen bonds: A:L.24, A:Y.213 Salt bridges: A:R.80 BEZ.5: 9 residues within 4Å: Chain B: L.20, L.24, L.25, I.28, F.64, L.79, R.80, I.189, Y.213 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:L.20, B:L.24, B:L.25, B:I.28, B:F.64, B:L.79 Water bridges: B:L.24 Salt bridges: B:R.80

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.2: 6 residues within 4Å: Chain B: A.35, H.36, P.37, N.38, L.39, Y.201 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:Y.201 Hydrogen bonds: B:N.38 Water bridges: B:N.38, B:Y.201 Salt bridges: B:H.36

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

SO4.3: 3 residues within 4Å: Chain B: I.202, Y.203, Y.206 No protein-ligand interaction detected (PLIP)

1 x CCU: (2Z,4Z)-HEXA-2,4-DIENEDIOIC ACID(Non-covalent)

CCU.4: 10 residues within 4Å: Chain B: V.17, G.18, S.19, T.48, R.66, L.67, Y.115, P.116, N.122, F.123 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:V.17, B:V.17, B:F.123 Hydrogen bonds: B:S.19, B:T.48, B:F.123 Water bridges: B:S.19, B:S.19, B:K.49

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ezezika, O.C. et al., Distinct Effector-binding Sites Enable Synergistic Transcriptional Activation by BenM, a LysR-type Regulator. J.Mol.Biol. (2007)

Release Date

2006-10-31

Peptides

HTH-type transcriptional regulator benM: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

HTH-type transcriptional regulator benM

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