SMTL ID : 4a0x.1

Structure of the global transcription regulator FapR from Staphylococcus aureus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-hexamer

Ligands

30 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: E.64, E.75 Chain C: H.104 Chain F: E.74 5 PLIP interactions: 1 interactions with chain C, 2 interactions with chain F, 2 interactions with chain A Metal complexes: C:H.104, F:E.74, F:E.74, A:E.64, A:E.64 ZN.2: 4 residues within 4Å: Chain A: H.112 Ligands: ACT.6, ZN.26, ACT.30 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:H.112, ACT.6 ZN.3: 2 residues within 4Å: Chain A: H.134, H.163 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.134, A:H.163, H2O.1, H2O.1 ZN.4: 2 residues within 4Å: Chain A: E.31, H.174 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.31, A:H.174, H2O.1 ZN.5: 2 residues within 4Å: Chain A: H.30, D.34 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.30, A:D.34, H2O.1, H2O.1 ZN.9: 4 residues within 4Å: Chain B: E.64, E.75 Chain C: E.74 Chain F: H.104 5 PLIP interactions: 2 interactions with chain B, 1 interactions with chain F, 2 interactions with chain C Metal complexes: B:E.64, B:E.64, F:H.104, C:E.74, C:E.74 ZN.10: 4 residues within 4Å: Chain B: H.112 Ligands: ACT.14, ZN.34, ACT.38 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Ligand interactions Metal complexes: B:H.112, ACT.14 ZN.11: 2 residues within 4Å: Chain B: H.134, H.163 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.134, B:H.163, H2O.2, H2O.2 ZN.12: 2 residues within 4Å: Chain B: E.31, H.174 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.31, B:H.174, H2O.1 ZN.13: 2 residues within 4Å: Chain B: H.30, D.34 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.30, B:D.34, H2O.1, H2O.1 ZN.17: 4 residues within 4Å: Chain B: E.74 Chain C: E.64, E.75 Chain E: H.104 5 PLIP interactions: 2 interactions with chain C, 2 interactions with chain B, 1 interactions with chain E Metal complexes: C:E.64, C:E.64, B:E.74, B:E.74, E:H.104 ZN.18: 4 residues within 4Å: Chain C: H.112 Ligands: ACT.22, ZN.42, ACT.46 2 PLIP interactions: 1 interactions with chain C, 1 Ligand-Ligand interactions Metal complexes: C:H.112, ACT.22 ZN.19: 2 residues within 4Å: Chain C: H.134, H.163 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:H.134, C:H.163, H2O.3, H2O.3 ZN.20: 2 residues within 4Å: Chain C: E.31, H.174 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.31, C:H.174, H2O.2 ZN.21: 2 residues within 4Å: Chain C: H.30, D.34 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:H.30, C:D.34, H2O.2, H2O.2 ZN.25: 4 residues within 4Å: Chain B: H.104 Chain D: E.64, E.75 Chain E: E.74 5 PLIP interactions: 2 interactions with chain D, 1 interactions with chain B, 2 interactions with chain E Metal complexes: D:E.64, D:E.64, B:H.104, E:E.74, E:E.74 ZN.26: 4 residues within 4Å: Chain D: H.112 Ligands: ZN.2, ACT.6, ACT.30 2 PLIP interactions: 1 interactions with chain D, 1 Ligand-Ligand interactions Metal complexes: D:H.112, ACT.30 ZN.27: 2 residues within 4Å: Chain D: H.134, H.163 4 PLIP interactions: 2 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:H.134, D:H.163, H2O.3, H2O.4 ZN.28: 2 residues within 4Å: Chain D: E.31, H.174 3 PLIP interactions: 2 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.31, D:H.174, H2O.3 ZN.29: 2 residues within 4Å: Chain D: H.30, D.34 4 PLIP interactions: 2 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:H.30, D:D.34, H2O.3, H2O.3 ZN.33: 4 residues within 4Å: Chain A: H.104 Chain D: E.74 Chain E: E.64, E.75 5 PLIP interactions: 1 interactions with chain A, 2 interactions with chain D, 2 interactions with chain E Metal complexes: A:H.104, D:E.74, D:E.74, E:E.64, E:E.64 ZN.34: 4 residues within 4Å: Chain E: H.112 Ligands: ZN.10, ACT.14, ACT.38 2 PLIP interactions: 1 interactions with chain E, 1 Ligand-Ligand interactions Metal complexes: E:H.112, ACT.38 ZN.35: 2 residues within 4Å: Chain E: H.134, H.163 4 PLIP interactions: 2 interactions with chain E, 2 Ligand-Water interactions Metal complexes: E:H.134, E:H.163, H2O.4, H2O.4 ZN.36: 2 residues within 4Å: Chain E: E.31, H.174 3 PLIP interactions: 2 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:E.31, E:H.174, H2O.4 ZN.37: 2 residues within 4Å: Chain E: H.30, D.34 4 PLIP interactions: 2 interactions with chain E, 2 Ligand-Water interactions Metal complexes: E:H.30, E:D.34, H2O.4, H2O.4 ZN.41: 4 residues within 4Å: Chain A: E.74 Chain D: H.104 Chain F: E.64, E.75 5 PLIP interactions: 2 interactions with chain F, 2 interactions with chain A, 1 interactions with chain D Metal complexes: F:E.64, F:E.64, A:E.74, A:E.74, D:H.104 ZN.42: 4 residues within 4Å: Chain F: H.112 Ligands: ZN.18, ACT.22, ACT.46 1 PLIP interactions: 1 interactions with chain F Metal complexes: F:H.112 ZN.43: 2 residues within 4Å: Chain F: H.134, H.163 4 PLIP interactions: 2 interactions with chain F, 2 Ligand-Water interactions Metal complexes: F:H.134, F:H.163, H2O.5, H2O.5 ZN.44: 2 residues within 4Å: Chain F: E.31, H.174 3 PLIP interactions: 2 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:E.31, F:H.174, H2O.4 ZN.45: 2 residues within 4Å: Chain F: H.30, D.34 4 PLIP interactions: 2 interactions with chain F, 2 Ligand-Water interactions Metal complexes: F:H.30, F:D.34, H2O.4, H2O.4

12 x ACT: ACETATE ION(Non-functional Binders)

ACT.6: 6 residues within 4Å: Chain A: H.112, V.113 Chain D: H.112 Ligands: ZN.2, ZN.26, ACT.30 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain D Salt bridges: A:H.112, D:H.112 ACT.7: 6 residues within 4Å: Chain A: N.119, S.120 Chain D: F.103, R.110, G.111, H.112 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain D Hydrogen bonds: A:N.119, A:S.120, D:H.112 Hydrophobic interactions: D:F.103 Salt bridges: D:R.110, D:H.112 ACT.14: 6 residues within 4Å: Chain B: H.112, V.113 Chain E: H.112 Ligands: ZN.10, ZN.34, ACT.38 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain E Salt bridges: B:H.112, E:H.112 ACT.15: 6 residues within 4Å: Chain B: N.119, S.120 Chain E: F.103, R.110, G.111, H.112 6 PLIP interactions: 4 interactions with chain E, 2 interactions with chain B Hydrophobic interactions: E:F.103 Hydrogen bonds: E:H.112, B:N.119, B:S.120 Salt bridges: E:R.110, E:H.112 ACT.22: 6 residues within 4Å: Chain C: H.112, V.113 Chain F: H.112 Ligands: ZN.18, ZN.42, ACT.46 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain F Salt bridges: C:H.112, F:H.112 ACT.23: 6 residues within 4Å: Chain C: N.119, S.120 Chain F: F.103, R.110, G.111, H.112 6 PLIP interactions: 4 interactions with chain F, 2 interactions with chain C Hydrophobic interactions: F:F.103 Hydrogen bonds: F:H.112, C:N.119, C:S.120 Salt bridges: F:R.110, F:H.112 ACT.30: 6 residues within 4Å: Chain A: H.112 Chain D: H.112, V.113 Ligands: ZN.2, ACT.6, ZN.26 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain D Salt bridges: A:H.112, D:H.112 ACT.31: 6 residues within 4Å: Chain A: F.103, R.110, G.111, H.112 Chain D: N.119, S.120 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain D Hydrophobic interactions: A:F.103 Hydrogen bonds: A:H.112, D:N.119, D:S.120 Salt bridges: A:R.110, A:H.112 ACT.38: 6 residues within 4Å: Chain B: H.112 Chain E: H.112, V.113 Ligands: ZN.10, ACT.14, ZN.34 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain B Salt bridges: E:H.112, B:H.112 ACT.39: 6 residues within 4Å: Chain B: F.103, R.110, G.111, H.112 Chain E: N.119, S.120 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain E Hydrophobic interactions: B:F.103 Hydrogen bonds: B:H.112, E:N.119, E:S.120 Salt bridges: B:R.110, B:H.112 ACT.46: 6 residues within 4Å: Chain C: H.112 Chain F: H.112, V.113 Ligands: ZN.18, ACT.22, ZN.42 2 PLIP interactions: 1 interactions with chain F, 1 interactions with chain C Salt bridges: F:H.112, C:H.112 ACT.47: 6 residues within 4Å: Chain C: F.103, R.110, G.111, H.112 Chain F: N.119, S.120 6 PLIP interactions: 2 interactions with chain F, 4 interactions with chain C Hydrogen bonds: F:N.119, F:S.120, C:H.112 Hydrophobic interactions: C:F.103 Salt bridges: C:R.110, C:H.112

6 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.8: 6 residues within 4Å: Chain A: Y.67, E.75, F.78, I.79, G.80, L.95 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.80 Water bridges: A:R.56 Salt bridges: A:D.81 MES.16: 6 residues within 4Å: Chain B: Y.67, E.75, F.78, I.79, G.80, L.95 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.80 Water bridges: B:R.56 Salt bridges: B:D.81 MES.24: 6 residues within 4Å: Chain C: Y.67, E.75, F.78, I.79, G.80, L.95 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:G.80 Water bridges: C:R.56 Salt bridges: C:D.81 MES.32: 6 residues within 4Å: Chain D: Y.67, E.75, F.78, I.79, G.80, L.95 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:G.80 Water bridges: D:R.56 Salt bridges: D:D.81 MES.40: 6 residues within 4Å: Chain E: Y.67, E.75, F.78, I.79, G.80, L.95 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:G.80 Water bridges: E:R.56 Salt bridges: E:D.81 MES.48: 6 residues within 4Å: Chain F: Y.67, E.75, F.78, I.79, G.80, L.95 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:G.80 Water bridges: F:R.56 Salt bridges: F:D.81

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Albanesi, D. et al., Structural Basis for Feed-Forward Transcriptional Regulation of Membrane Lipid Homeostasis in Staphylococcus Aureus. Plos Pathog. (2013)

Release Date

2012-09-26

Peptides

TRANSCRIPTION FACTOR FAPR: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

TRANSCRIPTION FACTOR FAPR

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