SMTL ID : 2y30.1

Simocyclinone D8 bound form of TetR-like repressor SimR

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x SM8: SIMOCYCLINONE D8(Non-covalent)

SM8.1: 25 residues within 4Å: Chain A: W.174, M.185, M.189, S.192, G.193, Q.197, V.200, L.212, T.215, P.218, H.219 Chain B: I.83, T.86, A.103, K.107, P.126, W.128, Q.135, Q.136, V.139, L.140, L.154, I.157, Y.160, N.161 18 PLIP interactions: 5 interactions with chain A, 13 interactions with chain B Hydrophobic interactions: A:W.174, A:V.200, A:L.212, A:L.212, B:K.107, B:K.107, B:W.128, B:Q.136, B:V.139, B:L.140, B:L.154, B:I.157 Hydrogen bonds: A:H.219, B:Y.160, B:N.161 Water bridges: B:Q.136 Salt bridges: B:K.107 pi-Cation interactions: B:K.107 SM8.5: 25 residues within 4Å: Chain A: I.83, T.86, A.103, K.107, P.126, W.128, Q.135, Q.136, V.139, L.140, L.154, I.157, Y.160, N.161 Chain B: W.174, W.188, M.189, S.192, G.193, Q.197, V.200, L.212, T.215, P.218, H.219 21 PLIP interactions: 15 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:K.107, A:K.107, A:W.128, A:V.139, A:L.140, A:L.154, A:I.157, B:W.174, B:W.188, B:V.200, B:L.212 Hydrogen bonds: A:T.86, A:Q.135, A:Q.136, A:Y.160, A:Y.160, A:N.161, B:H.219, B:H.219 Salt bridges: A:K.107 pi-Cation interactions: A:K.107

6 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 3 residues within 4Å: Chain A: G.44, V.45, W.116 Ligand excluded by PLIP CL.3: 3 residues within 4Å: Chain A: S.49, M.50, K.71 Ligand excluded by PLIP CL.4: 3 residues within 4Å: Chain A: W.174, D.184, M.185 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain B: G.44, V.45, W.116 Ligand excluded by PLIP CL.7: 3 residues within 4Å: Chain B: T.70, K.71, E.72 Ligand excluded by PLIP CL.8: 3 residues within 4Å: Chain B: W.174, D.184, M.185 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Le, T.B.K. et al., Structures of the Tetr-Like Simocyclinone Efflux Pump Repressor, Simr, and the Mechanism of Ligand-Mediated Derepression. J.Mol.Biol. (2011)

Release Date

2011-03-09

Peptides

PUTATIVE REPRESSOR SIMREG2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PUTATIVE REPRESSOR SIMREG2

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