SMTL ID : 6rgx.1

TETR(D) N82A MUTANT IN COMPLEX WITH DOXYCYCLINE AND MAGNESIUM

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

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

CL.1: 2 residues within 4Å: Chain A: S.73, S.76 Ligand excluded by PLIP CL.2: 2 residues within 4Å: Chain A: R.2, L.3 Ligand excluded by PLIP CL.3: 3 residues within 4Å: Chain A: N.4, R.5, E.6 Ligand excluded by PLIP CL.4: 3 residues within 4Å: Chain A: T.25, T.26, K.47 Ligand excluded by PLIP CL.5: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.10: 2 residues within 4Å: Chain B: S.73, S.76 Ligand excluded by PLIP CL.11: 2 residues within 4Å: Chain B: R.2, L.3 Ligand excluded by PLIP CL.12: 3 residues within 4Å: Chain B: N.4, R.5, E.6 Ligand excluded by PLIP CL.13: 2 residues within 4Å: Chain B: T.25, T.26 Ligand excluded by PLIP CL.14: 2 residues within 4Å: Chain A: L.168 Chain B: R.117 Ligand excluded by PLIP

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.6: 8 residues within 4Å: Chain A: L.59, H.63, S.66, A.81, F.85, Q.108, T.111, S.137 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.59, A:S.66 Water bridges: A:Q.115, A:Q.115

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.7: 3 residues within 4Å: Chain A: N.17, L.90, R.91 2 PLIP interactions: 2 interactions with chain A Water bridges: A:L.90, A:L.90

1 x DXT: (4S,4AR,5S,5AR,6R,12AS)-4-(DIMETHYLAMINO)-3,5,10,12,12A-PENTAHYDROXY-6-METHYL-1,11-DIOXO-1,4,4A,5,5A,6,11,12A-OCTAHYDROTETRACENE-2-CARBOXAMIDE(Non-covalent)

DXT.8: 17 residues within 4Å: Chain A: L.169, L.173 Chain B: L.59, H.63, S.66, A.81, F.85, H.99, R.103, P.104, Q.108, T.111, V.112, Q.115, 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, A:L.169, A:L.173 Hydrogen bonds: B:H.63, B:R.103, B:Q.115, B:Q.115 Water bridges: B:T.102, B:T.102, B:Q.108, B:S.137, B:S.137, B:S.137

1 x MG: MAGNESIUM ION(Non-covalent)

MG.9: 2 residues within 4Å: Chain B: H.99 Ligands: DXT.8 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.99, H2O.3, H2O.7, H2O.7

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Palm, G.J. et al., Thermodynamics, cooperativity and stability of the tetracycline repressor (TetR) upon tetracycline binding. Biochim Biophys Acta Proteins Proteom (2020)

Release Date

2019-08-21

Peptides

Tetracycline repressor protein class D: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Tetracycline repressor protein class D

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