- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.85 Å
- Oligo State
- hetero-2-4-2-2-mer
- Ligands
- 4 x ZN: ZINC ION(Non-covalent)
- 2 x SO4: SULFATE ION(Non-functional Binders)
SO4.2: 3 residues within 4Å:- Chain B: R.199, R.203, R.210
5 PLIP interactions:4 interactions with chain B, 1 interactions with chain I- Water bridges: B:R.199, B:R.210, I:D.25
- Salt bridges: B:R.199, B:R.203
SO4.16: 3 residues within 4Å:- Chain G: R.199, R.203, R.210
5 PLIP interactions:4 interactions with chain G, 1 interactions with chain D- Water bridges: G:R.199, G:R.210, D:D.25
- Salt bridges: G:R.199, G:R.203
- 4 x CL: CHLORIDE ION(Non-functional Binders)
CL.3: 3 residues within 4Å:- Chain B: N.132, R.155, K.159
Ligand excluded by PLIPCL.13: 3 residues within 4Å:- Chain E: N.249, S.250, K.253
Ligand excluded by PLIPCL.17: 3 residues within 4Å:- Chain G: N.132, R.155, K.159
Ligand excluded by PLIPCL.27: 3 residues within 4Å:- Chain J: N.249, S.250, K.253
Ligand excluded by PLIP- 14 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.4: 7 residues within 4Å:- Chain B: E.198, R.199, S.202, R.210, E.212, I.285, W.287
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:S.202, B:S.202, B:R.210, B:R.210
EDO.5: 8 residues within 4Å:- Chain B: P.17, Y.32, R.248, L.258
- Chain C: L.232, A.233, L.234, E.238
5 PLIP interactions:4 interactions with chain B, 1 interactions with chain C- Hydrogen bonds: B:R.248, B:R.248, C:L.232
- Water bridges: B:Y.32, B:Q.251
EDO.7: 5 residues within 4Å:- Chain C: S.177, R.179, S.271
- Chain E: N.7, M.9
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:S.177, C:S.177, C:R.179, C:R.179, C:S.271
EDO.8: 4 residues within 4Å:- Chain C: E.204, N.211
- Chain E: Y.35, R.37
4 PLIP interactions:3 interactions with chain C, 1 interactions with chain E- Hydrogen bonds: C:E.204, C:N.211
- Water bridges: C:N.211, E:E.36
EDO.9: 6 residues within 4Å:- Chain C: I.33, S.34, S.35
- Chain E: R.112, Y.342, R.344
5 PLIP interactions:2 interactions with chain E, 3 interactions with chain C- Hydrogen bonds: E:R.344, E:R.344, C:S.35
- Water bridges: C:I.33, C:Q.288
EDO.11: 5 residues within 4Å:- Chain D: G.123, G.124, K.201, Y.202
- Ligands: FMN.10
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:G.124, D:K.201, D:Y.202
EDO.12: 7 residues within 4Å:- Chain C: F.18, E.19, R.51
- Chain E: G.155, S.350, L.351, W.353
5 PLIP interactions:4 interactions with chain E, 1 interactions with chain C- Hydrogen bonds: E:L.351, C:E.19
- Water bridges: E:G.155, E:S.350, E:S.350
EDO.18: 7 residues within 4Å:- Chain G: E.198, R.199, S.202, R.210, E.212, I.285, W.287
4 PLIP interactions:4 interactions with chain G- Hydrogen bonds: G:S.202, G:S.202, G:R.210, G:R.210
EDO.19: 8 residues within 4Å:- Chain G: P.17, Y.32, R.248, L.258
- Chain H: L.232, A.233, L.234, E.238
5 PLIP interactions:1 interactions with chain H, 4 interactions with chain G- Hydrogen bonds: H:L.232, G:Y.32, G:R.248, G:R.248
- Water bridges: G:Q.251
EDO.21: 5 residues within 4Å:- Chain H: S.177, R.179, S.271
- Chain J: N.7, M.9
5 PLIP interactions:5 interactions with chain H- Hydrogen bonds: H:S.177, H:S.177, H:R.179, H:R.179, H:S.271
EDO.22: 4 residues within 4Å:- Chain H: E.204, N.211
- Chain J: Y.35, R.37
4 PLIP interactions:3 interactions with chain H, 1 interactions with chain J- Hydrogen bonds: H:E.204, H:N.211
- Water bridges: H:N.211, J:E.36
EDO.23: 6 residues within 4Å:- Chain H: I.33, S.34, S.35
- Chain J: R.112, Y.342, R.344
5 PLIP interactions:3 interactions with chain H, 2 interactions with chain J- Hydrogen bonds: H:S.35, J:R.344, J:R.344
- Water bridges: H:I.33, H:Q.288
EDO.25: 5 residues within 4Å:- Chain I: G.123, G.124, K.201, Y.202
- Ligands: FMN.24
3 PLIP interactions:3 interactions with chain I- Hydrogen bonds: I:G.124, I:K.201, I:Y.202
EDO.26: 7 residues within 4Å:- Chain H: F.18, E.19, R.51
- Chain J: G.155, S.350, L.351, W.353
4 PLIP interactions:4 interactions with chain J- Hydrogen bonds: J:L.351
- Water bridges: J:G.155, J:S.350, J:S.350
- 2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)
FMN.10: 19 residues within 4Å:- Chain D: R.117, P.121, S.122, G.123, G.124, A.125, M.209
- Chain I: R.82, P.84, S.85, R.181, Y.218, R.233, V.234, W.235, A.236, G.237, I.258
- Ligands: EDO.11
20 PLIP interactions:14 interactions with chain I, 6 interactions with chain D- Hydrophobic interactions: I:V.234, I:V.234, I:A.236
- Hydrogen bonds: I:S.85, I:S.85, I:S.85, I:S.85, I:R.181, I:R.181, I:R.233, I:A.236, I:G.237, D:S.122, D:G.124, D:A.125
- Water bridges: I:R.233, D:R.118, D:R.118
- Salt bridges: I:R.82, D:R.117
FMN.24: 19 residues within 4Å:- Chain D: R.82, P.84, S.85, R.181, Y.218, R.233, V.234, W.235, A.236, G.237, I.258
- Chain I: R.117, P.121, S.122, G.123, G.124, A.125, M.209
- Ligands: EDO.25
21 PLIP interactions:15 interactions with chain D, 6 interactions with chain I- Hydrophobic interactions: D:V.234, D:V.234, D:A.236
- Hydrogen bonds: D:S.85, D:S.85, D:S.85, D:S.85, D:R.181, D:R.181, D:R.233, D:A.236, D:G.237, I:S.122, I:G.124, I:A.125
- Water bridges: D:D.178, D:R.233, I:R.118, I:R.118
- Salt bridges: D:R.82, I:R.117
- 2 x GOL: GLYCEROL(Non-functional Binders)
GOL.14: 6 residues within 4Å:- Chain E: G.53, G.56, E.57, E.60, S.152, F.153
4 PLIP interactions:4 interactions with chain E- Hydrogen bonds: E:G.53, E:F.153
- Water bridges: E:E.60, E:S.152
GOL.28: 6 residues within 4Å:- Chain J: G.53, G.56, E.57, E.60, S.152, F.153
6 PLIP interactions:6 interactions with chain J- Hydrogen bonds: J:G.53, J:E.57, J:E.60, J:F.153
- Water bridges: J:E.60, J:S.152
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ghilarov, D. et al., Architecture of Microcin B17 Synthetase: An Octameric Protein Complex Converting a Ribosomally Synthesized Peptide into a DNA Gyrase Poison. Mol. Cell (2019)
- Release Date
- 2019-01-30
- Peptides
- Bacteriocin microcin B17: AF
Microcin B17-processing protein McbB: BCGH
Microcin B17-processing protein McbC: DI
Microcin B17-processing protein McbD: EJ - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AF
AB
1C
2G
1H
2D
CI
CE
DJ
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.85 Å
- Oligo State
- hetero-2-4-2-2-mer
- Ligands
- 4 x ZN: ZINC ION(Non-covalent)
- 2 x SO4: SULFATE ION(Non-functional Binders)
- 4 x CL: CHLORIDE ION(Non-functional Binders)
- 14 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)
- 2 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ghilarov, D. et al., Architecture of Microcin B17 Synthetase: An Octameric Protein Complex Converting a Ribosomally Synthesized Peptide into a DNA Gyrase Poison. Mol. Cell (2019)
- Release Date
- 2019-01-30
- Peptides
- Bacteriocin microcin B17: AF
Microcin B17-processing protein McbB: BCGH
Microcin B17-processing protein McbC: DI
Microcin B17-processing protein McbD: EJ - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AF
AB
1C
2G
1H
2D
CI
CE
DJ
D