SMTL ID : 3bqz.2 (1 other biounit)

Crystal Structure of the Complex of Malachite Green Bound to QacR(E90Q), a Mutant of a Multidrug Binding Transcriptional Repressor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.17 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: T.45, K.46, E.47 Chain C: T.109, N.110 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:T.109, C:I.112, A:K.46, A:E.47 Water bridges: A:K.46 SO4.2: 5 residues within 4Å: Chain A: I.142, N.143, D.144, V.148 Chain B: K.177 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.143, A:D.144 Salt bridges: B:K.177 SO4.3: 3 residues within 4Å: Chain A: R.76, Y.80, Q.180 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.180 Salt bridges: A:R.76 SO4.4: 5 residues within 4Å: Chain B: Y.20, N.21, K.46, E.105, Y.106 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.21, B:Y.106 Salt bridges: B:K.46 SO4.5: 2 residues within 4Å: Chain B: K.30, E.33 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:E.33, B:E.33 Water bridges: B:S.34, B:S.34 Salt bridges: B:K.30 SO4.6: 4 residues within 4Å: Chain B: T.24, T.25, G.26, K.36 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.24, B:T.25, B:G.26 Salt bridges: B:K.36 SO4.10: 5 residues within 4Å: Chain A: T.109, N.110 Chain C: T.45, K.46, E.47 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:K.46, C:E.47, A:T.109, A:I.112 Water bridges: C:K.46 SO4.11: 5 residues within 4Å: Chain C: I.142, N.143, D.144, V.148 Chain D: K.177 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:N.143, C:D.144 Salt bridges: D:K.177 SO4.12: 3 residues within 4Å: Chain C: R.76, Y.80, Q.180 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Q.180 Salt bridges: C:R.76 SO4.13: 5 residues within 4Å: Chain D: Y.20, N.21, K.46, E.105, Y.106 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:N.21, D:Y.106 Salt bridges: D:K.46 SO4.14: 2 residues within 4Å: Chain D: K.30, E.33 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:E.33, D:E.33 Water bridges: D:S.34, D:S.34 Salt bridges: D:K.30 SO4.15: 4 residues within 4Å: Chain D: T.24, T.25, G.26, K.36 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:T.24, D:T.25, D:G.26 Salt bridges: D:K.36

4 x IMD: IMIDAZOLE(Non-covalent)

IMD.7: 7 residues within 4Å: Chain B: E.57, E.58, W.61, Y.93, Y.123 Ligands: IMD.8, MGR.9 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.58, B:E.58, B:Y.123 IMD.8: 6 residues within 4Å: Chain B: I.99, L.119, E.120, Y.123 Ligands: IMD.7, MGR.9 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.123 IMD.16: 7 residues within 4Å: Chain D: E.57, E.58, W.61, Y.93, Y.123 Ligands: IMD.17, MGR.18 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:E.58, D:E.58, D:Y.123 IMD.17: 6 residues within 4Å: Chain D: I.99, L.119, E.120, Y.123 Ligands: IMD.16, MGR.18 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:Y.123

2 x MGR: MALACHITE GREEN(Non-covalent)

MGR.9: 16 residues within 4Å: Chain A: F.162 Chain B: W.61, Q.90, Y.93, Q.96, I.99, Y.103, E.120, Y.123, I.124, A.153, N.154, N.157, T.161 Ligands: IMD.7, IMD.8 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:I.99, B:Y.103, B:E.120, B:Y.123, B:N.157, A:F.162, A:F.162 MGR.18: 16 residues within 4Å: Chain C: F.162 Chain D: W.61, Q.90, Y.93, Q.96, I.99, Y.103, E.120, Y.123, I.124, A.153, N.154, N.157, T.161 Ligands: IMD.16, IMD.17 7 PLIP interactions: 5 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:I.99, D:Y.103, D:E.120, D:Y.123, D:N.157, C:F.162, C:F.162

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brooks, B.E. et al., Formal electrostatic interactions do not govern QacR-cation affinity. To be Published

Release Date

2008-12-23

Peptides

HTH-type transcriptional regulator qacR: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

C
B

D
A

HTH-type transcriptional regulator qacR

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