SMTL ID : 4rgu.1

Crystal Structure of Putative MarR Family Transcriptional Regulator HcaR from Acinetobacter sp. ADP complexed with ferulic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.89 Å

Oligo State

homo-tetramer

Ligands

4 x FER: 3-(4-HYDROXY-3-METHOXYPHENYL)-2-PROPENOIC ACID(Non-covalent)

FER.1: 12 residues within 4Å: Chain A: I.31, S.32, L.35, L.46, F.49, T.50, S.53, F.71, V.121 Chain B: S.21, Y.22, R.29 12 PLIP interactions: 4 interactions with chain B, 8 interactions with chain A Hydrogen bonds: B:S.21, A:S.32 Water bridges: B:R.29, B:R.29, A:S.32, A:S.53 Salt bridges: B:R.29 Hydrophobic interactions: A:I.31, A:L.35, A:L.46, A:L.46, A:F.71 FER.4: 13 residues within 4Å: Chain A: S.21, Y.22, A.25, R.29 Chain B: I.31, S.32, L.35, L.46, F.49, T.50, S.53, F.71, V.121 17 PLIP interactions: 8 interactions with chain B, 9 interactions with chain A Hydrophobic interactions: B:I.31, B:L.35, B:L.46, B:L.46, B:F.71, A:Y.22, A:A.25 Water bridges: B:S.32, B:L.46, B:T.50, A:R.19, A:R.29, A:R.29, A:R.29, A:R.29 Hydrogen bonds: A:S.21 Salt bridges: A:R.29 FER.10: 12 residues within 4Å: Chain C: I.31, S.32, L.35, L.46, F.49, T.50, S.53, F.71, V.121 Chain D: S.21, Y.22, R.29 12 PLIP interactions: 8 interactions with chain C, 4 interactions with chain D Hydrophobic interactions: C:I.31, C:L.35, C:L.46, C:L.46, C:F.71 Hydrogen bonds: C:S.32, D:S.21 Water bridges: C:S.32, C:S.53, D:R.29, D:R.29 Salt bridges: D:R.29 FER.13: 13 residues within 4Å: Chain C: S.21, Y.22, A.25, R.29 Chain D: I.31, S.32, L.35, L.46, F.49, T.50, S.53, F.71, V.121 17 PLIP interactions: 9 interactions with chain C, 8 interactions with chain D Hydrophobic interactions: C:Y.22, C:A.25, D:I.31, D:L.35, D:L.46, D:L.46, D:F.71 Hydrogen bonds: C:S.21 Water bridges: C:R.19, C:R.29, C:R.29, C:R.29, C:R.29, D:S.32, D:L.46, D:T.50 Salt bridges: C:R.29

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

CL.2: 4 residues within 4Å: Chain A: R.141, N.142 Chain B: E.15 Chain C: N.135 Ligand excluded by PLIP CL.7: 4 residues within 4Å: Chain A: E.15 Chain B: R.141, N.142 Chain D: N.135 Ligand excluded by PLIP CL.11: 4 residues within 4Å: Chain A: N.135 Chain C: R.141, N.142 Chain D: E.15 Ligand excluded by PLIP CL.16: 4 residues within 4Å: Chain B: N.135 Chain C: E.15 Chain D: R.141, N.142 Ligand excluded by PLIP

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: E.125, L.129, A.137, F.138 Chain B: E.16, R.19, L.20 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:A.137, B:L.20 GOL.5: 6 residues within 4Å: Chain A: E.16, R.19, L.20 Chain B: E.125, A.137, F.138 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:E.16, A:L.20, B:E.125, B:A.137 GOL.6: 5 residues within 4Å: Chain A: E.17, P.18, Y.22 Chain B: S.53, A.57 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.17 Water bridges: A:R.19 GOL.9: 5 residues within 4Å: Chain A: S.53, A.57 Chain B: E.17, P.18, Y.22 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.17 GOL.12: 7 residues within 4Å: Chain C: E.125, L.129, A.137, F.138 Chain D: E.16, R.19, L.20 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:L.20, C:A.137 GOL.14: 6 residues within 4Å: Chain C: E.16, R.19, L.20 Chain D: E.125, A.137, F.138 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:E.16, C:L.20, D:E.125, D:A.137 GOL.15: 5 residues within 4Å: Chain C: E.17, P.18, Y.22 Chain D: S.53, A.57 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:E.17 Water bridges: C:R.19 GOL.18: 5 residues within 4Å: Chain C: S.53, A.57 Chain D: E.17, P.18, Y.22 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:E.17

2 x NA: SODIUM ION(Non-functional Binders)

NA.8: 3 residues within 4Å: Chain B: D.95, T.97, R.100 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.97 NA.17: 3 residues within 4Å: Chain D: D.95, T.97, R.100 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:D.95

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, Y. et al., Crystal Structure of Putative MarR Family Transcriptional Regulator HcaR from Acinetobacter sp. ADP complexed with ferulic acid. To be Published (2014)

Release Date

2015-03-04

Peptides

Repressor protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Repressor protein

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