- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.76 Å
- Oligo State
- hetero-2-2-mer
- Ligands
- 2 x GOL: GLYCEROL(Non-functional Binders)
- 14 x CA: CALCIUM ION(Non-covalent)
CA.2: 2 residues within 4Å:- Chain A: E.9, G.88
5 PLIP interactions:3 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:E.9, A:E.9, A:G.88, H2O.9, H2O.10
CA.3: 4 residues within 4Å:- Chain A: T.50, L.52, E.55, P.120
No protein-ligand interaction detected (PLIP)CA.4: 3 residues within 4Å:- Chain A: E.96
- Ligands: ACT.9, ACT.10
4 PLIP interactions:1 interactions with chain A, 2 Ligand-Ligand interactions, 1 Ligand-Water interactions- Metal complexes: A:E.96, ACT.9, ACT.10, H2O.10
CA.5: 4 residues within 4Å:- Chain A: E.337, N.338, A.355, A.356
No protein-ligand interaction detected (PLIP)CA.6: 4 residues within 4Å:- Chain A: P.245, D.246, R.249
- Chain B: V.8
No protein-ligand interaction detected (PLIP)CA.7: 4 residues within 4Å:- Chain A: N.121, L.122
- Ligands: ACT.11, NA.17
5 PLIP interactions:4 Ligand-Water interactions, 1 Ligand-Ligand interactions- Metal complexes: H2O.2, H2O.6, H2O.6, H2O.11, ACT.11
CA.8: 1 residues within 4Å:- Chain A: E.337
5 PLIP interactions:2 interactions with chain A, 3 Ligand-Water interactions- Metal complexes: A:E.337, A:E.337, H2O.8, H2O.8, H2O.11
CA.22: 2 residues within 4Å:- Chain C: E.9, G.88
5 PLIP interactions:3 interactions with chain C, 2 Ligand-Water interactions- Metal complexes: C:E.9, C:E.9, C:G.88, H2O.24, H2O.25
CA.23: 4 residues within 4Å:- Chain C: T.50, L.52, E.55, P.120
No protein-ligand interaction detected (PLIP)CA.24: 3 residues within 4Å:- Chain C: E.96
- Ligands: ACT.29, ACT.30
4 PLIP interactions:1 interactions with chain C, 1 Ligand-Water interactions, 2 Ligand-Ligand interactions- Metal complexes: C:E.96, H2O.25, ACT.29, ACT.30
CA.25: 4 residues within 4Å:- Chain C: E.337, N.338, A.355, A.356
No protein-ligand interaction detected (PLIP)CA.26: 4 residues within 4Å:- Chain C: P.245, D.246, R.249
- Chain D: V.8
No protein-ligand interaction detected (PLIP)CA.27: 4 residues within 4Å:- Chain C: N.121, L.122
- Ligands: ACT.31, NA.37
No protein-ligand interaction detected (PLIP)CA.28: 1 residues within 4Å:- Chain C: E.337
5 PLIP interactions:2 interactions with chain C, 3 Ligand-Water interactions- Metal complexes: C:E.337, C:E.337, H2O.22, H2O.23, H2O.25
- 6 x ACT: ACETATE ION(Non-functional Binders)
ACT.9: 3 residues within 4Å:- Chain A: E.96
- Ligands: CA.4, ACT.10
1 PLIP interactions:1 interactions with chain A- Water bridges: A:G.97
ACT.10: 3 residues within 4Å:- Chain A: E.96
- Ligands: CA.4, ACT.9
No protein-ligand interaction detected (PLIP)ACT.11: 7 residues within 4Å:- Chain A: E.55, V.57, R.227, I.234, T.236
- Ligands: CA.7, NA.17
7 PLIP interactions:7 interactions with chain A- Hydrophobic interactions: A:I.234
- Water bridges: A:L.122, A:R.227, A:R.227, A:R.227, A:T.236
- Salt bridges: A:R.227
ACT.29: 3 residues within 4Å:- Chain C: E.96
- Ligands: CA.24, ACT.30
1 PLIP interactions:1 interactions with chain C- Water bridges: C:G.97
ACT.30: 3 residues within 4Å:- Chain C: E.96
- Ligands: CA.24, ACT.29
No protein-ligand interaction detected (PLIP)ACT.31: 7 residues within 4Å:- Chain C: E.55, V.57, R.227, I.234, T.236
- Ligands: CA.27, NA.37
7 PLIP interactions:7 interactions with chain C- Hydrophobic interactions: C:I.234
- Water bridges: C:L.122, C:R.227, C:R.227, C:R.227, C:T.236
- Salt bridges: C:R.227
- 8 x MG: MAGNESIUM ION(Non-covalent)
MG.12: 5 residues within 4Å:- Chain A: R.3, M.4, G.69, A.70, L.95
No protein-ligand interaction detected (PLIP)MG.13: 4 residues within 4Å:- Chain A: E.96, R.99, L.101, S.110
2 PLIP interactions:1 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:S.110, H2O.7
MG.14: 5 residues within 4Å:- Chain A: N.35, P.74, S.112, T.113, L.114
No protein-ligand interaction detected (PLIP)MG.15: 1 residues within 4Å:- Chain A: S.348
3 PLIP interactions:1 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:S.348, H2O.3, H2O.10
MG.32: 5 residues within 4Å:- Chain C: R.3, M.4, G.69, A.70, L.95
No protein-ligand interaction detected (PLIP)MG.33: 4 residues within 4Å:- Chain C: E.96, R.99, L.101, S.110
2 PLIP interactions:1 interactions with chain C, 1 Ligand-Water interactions- Metal complexes: C:S.110, H2O.22
MG.34: 5 residues within 4Å:- Chain C: N.35, P.74, S.112, T.113, L.114
No protein-ligand interaction detected (PLIP)MG.35: 1 residues within 4Å:- Chain C: S.348
3 PLIP interactions:1 interactions with chain C, 2 Ligand-Water interactions- Metal complexes: C:S.348, H2O.17, H2O.25
- 10 x NA: SODIUM ION(Non-functional Binders)
NA.16: 6 residues within 4Å:- Chain A: H.229, V.230, G.231, D.232, F.233, I.234
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:V.230, A:G.231
- Water bridges: A:G.231
NA.17: 5 residues within 4Å:- Chain A: L.37, T.48, V.57
- Ligands: CA.7, ACT.11
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:Q.39
NA.18: 5 residues within 4Å:- Chain A: E.90, A.92, R.103, S.104, G.105
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:A.92, A:R.103
- Water bridges: A:G.105
NA.19: 3 residues within 4Å:- Chain A: N.278, N.298, N.299
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:N.298
- Water bridges: A:G.283, A:G.283, A:N.298
NA.20: 2 residues within 4Å:- Chain A: G.2, R.3
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:R.3
- Water bridges: A:R.3, A:R.3, A:L.95, A:L.95, A:L.95
NA.36: 6 residues within 4Å:- Chain C: H.229, V.230, G.231, D.232, F.233, I.234
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:V.230, C:G.231
- Water bridges: C:G.231
NA.37: 5 residues within 4Å:- Chain C: L.37, T.48, V.57
- Ligands: CA.27, ACT.31
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:Q.39
NA.38: 5 residues within 4Å:- Chain C: E.90, A.92, R.103, S.104, G.105
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:E.90, C:A.92
- Water bridges: C:G.105
NA.39: 3 residues within 4Å:- Chain C: N.278, N.298, N.299
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:N.298, C:N.298
- Water bridges: C:G.283
NA.40: 2 residues within 4Å:- Chain C: G.2, R.3
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:R.3, C:R.3
- Water bridges: C:L.95
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Fu, C. et al., Elucidation of unusual biosynthesis and DnaN-targeting mode of action of potent anti-tuberculosis antibiotics Mycoplanecins. Nat Commun (2024)
- Release Date
- 2023-11-29
- Peptides
- Beta sliding clamp: AC
Griselimycin: BD - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
AB
BD
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.76 Å
- Oligo State
- hetero-2-2-mer
- Ligands
- 2 x GOL: GLYCEROL(Non-functional Binders)
- 14 x CA: CALCIUM ION(Non-covalent)
- 6 x ACT: ACETATE ION(Non-functional Binders)
- 8 x MG: MAGNESIUM ION(Non-covalent)
- 10 x NA: SODIUM ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Fu, C. et al., Elucidation of unusual biosynthesis and DnaN-targeting mode of action of potent anti-tuberculosis antibiotics Mycoplanecins. Nat Commun (2024)
- Release Date
- 2023-11-29
- Peptides
- Beta sliding clamp: AC
Griselimycin: BD - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
AB
BD
B