SMTL ID : 4d7m.1

TetR(D) in complex with anhydrotetracycline and magnesium

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

homo-dimer

Ligands

2 x TDC: 5A,6-ANHYDROTETRACYCLINE

TDC.1: 18 residues within 4Å: Chain A: H.63, S.66, N.81, F.85, H.99, T.102, R.103, P.104, T.111, V.112, Q.115, L.130, I.133, S.137 Chain B: L.169, L.173, M.176 Ligands: MG.2 14 PLIP interactions: 12 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:P.104, A:V.112, A:L.130, B:L.169, B:L.173 Hydrogen bonds: A:N.81, A:N.81, A:T.102, A:R.103, A:Q.115 Water bridges: A:Q.108, A:S.137, A:S.137, A:S.137 TDC.8: 18 residues within 4Å: Chain A: L.169, L.173, M.176 Chain B: H.63, S.66, N.81, F.85, H.99, T.102, R.103, P.104, T.111, V.112, Q.115, L.130, I.133, S.137 Ligands: MG.9 14 PLIP interactions: 12 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:P.104, B:V.112, B:L.130, A:L.169, A:L.173 Hydrogen bonds: B:N.81, B:N.81, B:T.102, B:R.103, B:Q.115 Water bridges: B:Q.108, B:S.137, B:S.137, B:S.137

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: H.99, T.102 Ligands: TDC.1 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.99, H2O.4, H2O.4, H2O.13 MG.9: 3 residues within 4Å: Chain B: H.99, T.102 Ligands: TDC.8 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.99, H2O.6, H2O.11, H2O.11

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

SO4.3: 3 residues within 4Å: Chain A: R.61, H.62, Y.92 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.92 Water bridges: A:D.10 Salt bridges: A:R.61, A:H.62 SO4.10: 3 residues within 4Å: Chain B: R.61, H.62, Y.92 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.92 Water bridges: B:D.10 Salt bridges: B:R.61, B:H.62

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

CL.4: 2 residues within 4Å: Chain A: S.73, S.76 Ligand excluded by PLIP CL.5: 1 residues within 4Å: Chain A: L.3 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain A: N.4, R.5, E.6 Ligand excluded by PLIP CL.7: 3 residues within 4Å: Chain A: W.74, Q.75, L.200 Ligand excluded by PLIP CL.11: 2 residues within 4Å: Chain B: S.73, S.76 Ligand excluded by PLIP CL.12: 1 residues within 4Å: Chain B: L.3 Ligand excluded by PLIP CL.13: 3 residues within 4Å: Chain B: N.4, R.5, E.6 Ligand excluded by PLIP CL.14: 3 residues within 4Å: Chain B: W.74, Q.75, L.200 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Werten, S. et al., Tetracycline Repressor Allostery Does not Depend on Divalent Metal Recognition. Biochemistry (2014)

Release Date

2014-12-10

Peptides

TETRACYCLINE REPRESSOR PROTEIN CLASS D: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

TETRACYCLINE REPRESSOR PROTEIN CLASS D

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