SMTL ID : 3bti.3 (2 other biounits)

crystal structure of QacR(E58Q) bound to berberine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

homo-16-mer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: T.25, Y.40, K.46 Ligands: SO4.2 Ligand excluded by PLIP SO4.2: 5 residues within 4Å: Chain A: Y.20, K.46, E.105, Y.106 Ligands: SO4.1 Ligand excluded by PLIP SO4.3: 4 residues within 4Å: Chain A: H.164, E.165 Chain B: Y.107 Chain O: K.73 Ligand excluded by PLIP SO4.4: 5 residues within 4Å: Chain A: E.13, I.16, K.17 Chain E: K.30, E.33 Ligand excluded by PLIP SO4.5: 3 residues within 4Å: Chain A: H.128, K.132, N.146 Ligand excluded by PLIP SO4.6: 6 residues within 4Å: Chain B: T.24, T.25, G.26, E.27, K.36 Ligands: SO4.27 Ligand excluded by PLIP SO4.7: 6 residues within 4Å: Chain B: Y.40, T.45, K.46, E.47 Chain F: K.36 Ligands: SO4.26 Ligand excluded by PLIP SO4.8: 4 residues within 4Å: Chain B: K.12, I.53, I.56, E.57 Ligand excluded by PLIP SO4.9: 3 residues within 4Å: Chain B: N.2, D.5, K.6 Ligand excluded by PLIP SO4.10: 2 residues within 4Å: Chain B: H.128, K.132 Ligand excluded by PLIP SO4.11: 4 residues within 4Å: Chain C: T.25, Y.40, K.46 Ligands: SO4.12 Ligand excluded by PLIP SO4.12: 5 residues within 4Å: Chain C: Y.20, K.46, E.105, Y.106 Ligands: SO4.11 Ligand excluded by PLIP SO4.13: 4 residues within 4Å: Chain C: H.164, E.165 Chain D: Y.107 Chain M: K.73 Ligand excluded by PLIP SO4.14: 5 residues within 4Å: Chain C: E.13, I.16, K.17 Chain G: K.30, E.33 Ligand excluded by PLIP SO4.15: 3 residues within 4Å: Chain C: H.128, K.132, N.146 Ligand excluded by PLIP SO4.16: 6 residues within 4Å: Chain D: T.24, T.25, G.26, E.27, K.36 Ligands: SO4.37 Ligand excluded by PLIP SO4.17: 6 residues within 4Å: Chain D: Y.40, T.45, K.46, E.47 Chain H: K.36 Ligands: SO4.36 Ligand excluded by PLIP SO4.18: 4 residues within 4Å: Chain D: K.12, I.53, I.56, E.57 Ligand excluded by PLIP SO4.19: 3 residues within 4Å: Chain D: N.2, D.5, K.6 Ligand excluded by PLIP SO4.20: 2 residues within 4Å: Chain D: H.128, K.132 Ligand excluded by PLIP SO4.21: 4 residues within 4Å: Chain E: T.25, Y.40, K.46 Ligands: SO4.22 Ligand excluded by PLIP SO4.22: 5 residues within 4Å: Chain E: Y.20, K.46, E.105, Y.106 Ligands: SO4.21 Ligand excluded by PLIP SO4.23: 4 residues within 4Å: Chain E: H.164, E.165 Chain F: Y.107 Chain I: K.73 Ligand excluded by PLIP SO4.24: 5 residues within 4Å: Chain A: K.30, E.33 Chain E: E.13, I.16, K.17 Ligand excluded by PLIP SO4.25: 3 residues within 4Å: Chain E: H.128, K.132, N.146 Ligand excluded by PLIP SO4.26: 6 residues within 4Å: Chain F: T.24, T.25, G.26, E.27, K.36 Ligands: SO4.7 Ligand excluded by PLIP SO4.27: 6 residues within 4Å: Chain B: K.36 Chain F: Y.40, T.45, K.46, E.47 Ligands: SO4.6 Ligand excluded by PLIP SO4.28: 4 residues within 4Å: Chain F: K.12, I.53, I.56, E.57 Ligand excluded by PLIP SO4.29: 3 residues within 4Å: Chain F: N.2, D.5, K.6 Ligand excluded by PLIP SO4.30: 2 residues within 4Å: Chain F: H.128, K.132 Ligand excluded by PLIP SO4.31: 4 residues within 4Å: Chain G: T.25, Y.40, K.46 Ligands: SO4.32 Ligand excluded by PLIP SO4.32: 5 residues within 4Å: Chain G: Y.20, K.46, E.105, Y.106 Ligands: SO4.31 Ligand excluded by PLIP SO4.33: 4 residues within 4Å: Chain G: H.164, E.165 Chain H: Y.107 Chain K: K.73 Ligand excluded by PLIP SO4.34: 5 residues within 4Å: Chain C: K.30, E.33 Chain G: E.13, I.16, K.17 Ligand excluded by PLIP SO4.35: 3 residues within 4Å: Chain G: H.128, K.132, N.146 Ligand excluded by PLIP SO4.36: 6 residues within 4Å: Chain H: T.24, T.25, G.26, E.27, K.36 Ligands: SO4.17 Ligand excluded by PLIP SO4.37: 6 residues within 4Å: Chain D: K.36 Chain H: Y.40, T.45, K.46, E.47 Ligands: SO4.16 Ligand excluded by PLIP SO4.38: 4 residues within 4Å: Chain H: K.12, I.53, I.56, E.57 Ligand excluded by PLIP SO4.39: 3 residues within 4Å: Chain H: N.2, D.5, K.6 Ligand excluded by PLIP SO4.40: 2 residues within 4Å: Chain H: H.128, K.132 Ligand excluded by PLIP SO4.41: 5 residues within 4Å: Chain I: L.8, K.12, I.56, E.57, K.60 Ligand excluded by PLIP SO4.42: 4 residues within 4Å: Chain I: T.23, T.24, T.25, K.46 Ligand excluded by PLIP SO4.43: 3 residues within 4Å: Chain J: N.2, D.5, K.6 Ligand excluded by PLIP SO4.44: 3 residues within 4Å: Chain J: K.4, Y.41, H.42 Ligand excluded by PLIP SO4.45: 3 residues within 4Å: Chain J: S.35, K.36, G.37 Ligand excluded by PLIP SO4.46: 2 residues within 4Å: Chain J: H.128, K.132 Ligand excluded by PLIP SO4.47: 5 residues within 4Å: Chain J: N.2, L.3, K.4, N.38, H.42 Ligand excluded by PLIP SO4.49: 5 residues within 4Å: Chain K: L.8, K.12, I.56, E.57, K.60 Ligand excluded by PLIP SO4.50: 4 residues within 4Å: Chain K: T.23, T.24, T.25, K.46 Ligand excluded by PLIP SO4.51: 3 residues within 4Å: Chain L: N.2, D.5, K.6 Ligand excluded by PLIP SO4.52: 3 residues within 4Å: Chain L: K.4, Y.41, H.42 Ligand excluded by PLIP SO4.53: 3 residues within 4Å: Chain L: S.35, K.36, G.37 Ligand excluded by PLIP SO4.54: 2 residues within 4Å: Chain L: H.128, K.132 Ligand excluded by PLIP SO4.55: 5 residues within 4Å: Chain L: N.2, L.3, K.4, N.38, H.42 Ligand excluded by PLIP SO4.57: 5 residues within 4Å: Chain M: L.8, K.12, I.56, E.57, K.60 Ligand excluded by PLIP SO4.58: 4 residues within 4Å: Chain M: T.23, T.24, T.25, K.46 Ligand excluded by PLIP SO4.59: 3 residues within 4Å: Chain N: N.2, D.5, K.6 Ligand excluded by PLIP SO4.60: 3 residues within 4Å: Chain N: K.4, Y.41, H.42 Ligand excluded by PLIP SO4.61: 3 residues within 4Å: Chain N: S.35, K.36, G.37 Ligand excluded by PLIP SO4.62: 2 residues within 4Å: Chain N: H.128, K.132 Ligand excluded by PLIP SO4.63: 5 residues within 4Å: Chain N: N.2, L.3, K.4, N.38, H.42 Ligand excluded by PLIP SO4.65: 5 residues within 4Å: Chain O: L.8, K.12, I.56, E.57, K.60 Ligand excluded by PLIP SO4.66: 4 residues within 4Å: Chain O: T.23, T.24, T.25, K.46 Ligand excluded by PLIP SO4.67: 3 residues within 4Å: Chain P: N.2, D.5, K.6 Ligand excluded by PLIP SO4.68: 3 residues within 4Å: Chain P: K.4, Y.41, H.42 Ligand excluded by PLIP SO4.69: 3 residues within 4Å: Chain P: S.35, K.36, G.37 Ligand excluded by PLIP SO4.70: 2 residues within 4Å: Chain P: H.128, K.132 Ligand excluded by PLIP SO4.71: 5 residues within 4Å: Chain P: N.2, L.3, K.4, N.38, H.42 Ligand excluded by PLIP

4 x BER: BERBERINE(Non-covalent)

BER.48: 10 residues within 4Å: Chain J: E.57, K.60, W.61, Q.64, S.86, T.89, Y.93, E.120, Y.123, N.157 8 PLIP interactions: 8 interactions with chain J Hydrophobic interactions: J:E.57, J:W.61, J:W.61, J:W.61, J:Y.93, J:Y.123 Hydrogen bonds: J:Q.64 pi-Stacking: J:W.61 BER.56: 10 residues within 4Å: Chain L: E.57, K.60, W.61, Q.64, S.86, T.89, Y.93, E.120, Y.123, N.157 8 PLIP interactions: 8 interactions with chain L Hydrophobic interactions: L:E.57, L:W.61, L:W.61, L:W.61, L:Y.93, L:Y.123 Hydrogen bonds: L:Q.64 pi-Stacking: L:W.61 BER.64: 10 residues within 4Å: Chain N: E.57, K.60, W.61, Q.64, S.86, T.89, Y.93, E.120, Y.123, N.157 8 PLIP interactions: 8 interactions with chain N Hydrophobic interactions: N:E.57, N:W.61, N:W.61, N:W.61, N:Y.93, N:Y.123 Hydrogen bonds: N:Q.64 pi-Stacking: N:W.61 BER.72: 10 residues within 4Å: Chain P: E.57, K.60, W.61, Q.64, S.86, T.89, Y.93, E.120, Y.123, N.157 8 PLIP interactions: 8 interactions with chain P Hydrophobic interactions: P:E.57, P:W.61, P:W.61, P:W.61, P:Y.93, P:Y.123 Hydrogen bonds: P:Q.64 pi-Stacking: P:W.61

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Peters, K.M. et al., QacR-cation recognition is mediated by a redundancy of residues capable of charge neutralization. Biochemistry (2008)

Release Date

2008-08-12

Peptides

HTH-type transcriptional regulator qacR: ABCDEFGHIJKLMNOP

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

C
D

D
E

E
D

F
E

G
D

H
E

I
B

J
A

K
B

L
A

M
B

N
A

O
B

P
A

HTH-type transcriptional regulator qacR

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