- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.22 Å
- Oligo State
- monomer
- Ligands
- 1 x GLC- FRU: beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose(Non-covalent)
- 1 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 1 x GOL: GLYCEROL(Non-functional Binders)
- 10 x SO4: SULFATE ION(Non-functional Binders)
SO4.4: 3 residues within 4Å:- Chain A: K.158, H.160, W.161
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:W.161
- Salt bridges: A:K.158, A:H.160
SO4.5: 8 residues within 4Å:- Chain A: D.115, L.218, G.219, S.220, G.221, H.223, R.258
- Ligands: SO4.13
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:L.218, A:S.220
- Water bridges: A:R.258, A:R.258
- Salt bridges: A:H.223, A:R.258
SO4.6: 6 residues within 4Å:- Chain A: G.89, Y.90, I.94, G.113, Y.114, K.371
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:Y.90, A:Y.114
- Water bridges: A:N.350
- Salt bridges: A:K.371
SO4.7: 2 residues within 4Å:- Chain A: K.232, R.492
2 PLIP interactions:2 interactions with chain A- Salt bridges: A:K.232, A:R.492
SO4.8: 3 residues within 4Å:- Chain A: N.222, R.428, R.432
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:N.222
- Salt bridges: A:R.428, A:R.432
SO4.9: 2 residues within 4Å:- Chain A: S.204, Q.205
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:Q.205
- Water bridges: A:E.201, A:V.203
SO4.10: 2 residues within 4Å:- Chain A: R.386, R.389
2 PLIP interactions:2 interactions with chain A- Salt bridges: A:R.386, A:R.389
SO4.11: 3 residues within 4Å:- Chain A: G.361, K.362, R.363
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.363
- Salt bridges: A:R.363
SO4.12: 4 residues within 4Å:- Chain A: T.128, E.129, K.130, G.247
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:K.130
- Salt bridges: A:K.130
SO4.13: 7 residues within 4Å:- Chain A: G.150, V.151, G.152, S.153, Q.214, R.258
- Ligands: SO4.5
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:G.150, A:G.152, A:S.153, A:Q.214
- Salt bridges: A:R.258
- 2 x ZN: ZINC ION(Non-covalent)
ZN.14: 5 residues within 4Å:- Chain A: C.118, H.254, H.349
- Ligands: GTP.2, ZN.15
4 PLIP interactions:3 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:C.118, A:H.254, A:H.349, H2O.1
ZN.15: 5 residues within 4Å:- Chain A: D.115, C.118, H.223
- Ligands: GTP.2, ZN.14
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:D.115, A:C.118, A:H.223
- 2 x CL: CHLORIDE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Jacewicz, A. et al., Structures of RNA ligase RtcB in complexes with divalent cations and GTP. Rna (2022)
- Release Date
- 2022-10-12
- Peptides
- tRNA-splicing ligase RtcB: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.22 Å
- Oligo State
- monomer
- Ligands
- 1 x GLC- FRU: beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose(Non-covalent)
- 1 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 1 x GOL: GLYCEROL(Non-functional Binders)
- 10 x SO4: SULFATE ION(Non-functional Binders)
- 2 x ZN: ZINC ION(Non-covalent)
- 2 x CL: CHLORIDE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Jacewicz, A. et al., Structures of RNA ligase RtcB in complexes with divalent cations and GTP. Rna (2022)
- Release Date
- 2022-10-12
- Peptides
- tRNA-splicing ligase RtcB: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A