SMTL ID : 2xpv.1

TetR(D) in complex with minocycline and magnesium.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.49 Å

Oligo State

homo-dimer

Ligands

2 x MIY: (4S,4AS,5AR,12AS)-4,7-BIS(DIMETHYLAMINO)-3,10,12,12A-TETRAHYDROXY-1,11-DIOXO-1,4,4A,5,5A,6,11,12A-OCTAHYDROTETRACENE-2- CARBOXAMIDE(Non-covalent)

MIY.1: 19 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, A.172, L.173, M.176 Ligands: MG.2 10 PLIP interactions: 9 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:P.104, A:V.112, B:L.173 Hydrogen bonds: A:H.63, A:N.81, A:T.102, A:Q.115 Water bridges: A:S.66, A:Q.108, A:Q.108 MIY.11: 19 residues within 4Å: Chain A: L.169, A.172, 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.12 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:P.104, B:V.112, A:L.173 Hydrogen bonds: B:H.63, B:N.81, B:T.102, B:Q.115 Water bridges: B:S.66, B:Q.108, B:Q.108

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: H.99 Ligands: MIY.1 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.99, H2O.7, H2O.7, H2O.11 MG.12: 2 residues within 4Å: Chain B: H.99 Ligands: MIY.11 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.99, H2O.17, H2O.17, H2O.21

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

CL.3: 2 residues within 4Å: Chain A: S.1, R.2 Ligand excluded by PLIP CL.4: 2 residues within 4Å: Chain A: R.2, L.3 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: T.25, T.26 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain A: N.4, R.5, E.6 Ligand excluded by PLIP CL.7: 1 residues within 4Å: Chain A: S.1 Ligand excluded by PLIP CL.8: 3 residues within 4Å: Chain A: W.74, Q.75, L.200 Ligand excluded by PLIP CL.9: 2 residues within 4Å: Chain A: R.194 Chain B: V.198 Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain A: T.25, R.27, K.28 Ligand excluded by PLIP CL.13: 2 residues within 4Å: Chain B: S.1, R.2 Ligand excluded by PLIP CL.14: 2 residues within 4Å: Chain B: R.2, L.3 Ligand excluded by PLIP CL.15: 2 residues within 4Å: Chain B: T.25, T.26 Ligand excluded by PLIP CL.16: 3 residues within 4Å: Chain B: N.4, R.5, E.6 Ligand excluded by PLIP CL.17: 1 residues within 4Å: Chain B: S.1 Ligand excluded by PLIP CL.18: 3 residues within 4Å: Chain B: W.74, Q.75, L.200 Ligand excluded by PLIP CL.19: 2 residues within 4Å: Chain A: V.198 Chain B: R.194 Ligand excluded by PLIP CL.20: 3 residues within 4Å: Chain B: T.25, R.27, K.28 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dalm, D. et al., Tetr(D) in Complex with Minocycline. To be Published

Release Date

2011-09-07

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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