- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.34 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x GLC- FRU: beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose(Non-covalent)
- 2 x MN: MANGANESE (II) ION(Non-covalent)
MN.3: 4 residues within 4Å:- Chain A: C.98, N.202, H.234, H.329
4 PLIP interactions:3 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:C.98, A:H.234, A:H.329, H2O.6
MN.11: 5 residues within 4Å:- Chain B: C.98, H.203, H.234, H.329, H.404
4 PLIP interactions:3 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:C.98, B:H.234, B:H.329, H2O.9
- 13 x SO4: SULFATE ION(Non-functional Binders)
SO4.4: 7 residues within 4Å:- Chain A: D.95, G.199, S.200, H.203, R.238, H.242
- Ligands: SO4.9
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:D.95, A:S.200, A:R.238
- Salt bridges: A:H.203, A:R.238, A:H.242
SO4.5: 6 residues within 4Å:- Chain A: G.69, Y.70, I.74, G.93, Y.94, K.351
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:Y.70, A:Y.94
- Water bridges: A:D.95
- Salt bridges: A:K.351
SO4.6: 2 residues within 4Å:- Chain A: K.212, R.472
3 PLIP interactions:3 interactions with chain A- Water bridges: A:K.212
- Salt bridges: A:K.212, A:R.472
SO4.7: 2 residues within 4Å:- Chain A: R.366, R.369
2 PLIP interactions:2 interactions with chain A- Salt bridges: A:R.366, A:R.369
SO4.8: 2 residues within 4Å:- Chain A: S.184, Q.185
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.185
- Water bridges: A:V.183
SO4.9: 10 residues within 4Å:- Chain A: G.132, R.190, Q.194, R.238, G.239
- Chain B: A.438, S.439, M.440, R.441
- Ligands: SO4.4
5 PLIP interactions:3 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:Q.194, A:R.238, B:M.440, B:R.441
- Salt bridges: A:R.190
SO4.10: 4 residues within 4Å:- Chain A: S.439, M.440, R.441
- Chain B: R.412
6 PLIP interactions:4 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:S.439, A:S.439, A:M.440, A:R.441
- Water bridges: B:R.412
- Salt bridges: B:R.412
SO4.12: 5 residues within 4Å:- Chain B: D.95, G.199, S.200, H.203, R.238
11 PLIP interactions:11 interactions with chain B- Hydrogen bonds: B:L.198, B:S.200
- Water bridges: B:H.203, B:G.236, B:R.238, B:R.238, B:R.238, B:R.238, B:G.239
- Salt bridges: B:H.203, B:R.238
SO4.13: 6 residues within 4Å:- Chain B: G.69, Y.70, I.74, G.93, Y.94, K.351
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:Y.70, B:Y.94
- Salt bridges: B:K.351
SO4.14: 3 residues within 4Å:- Chain B: S.411, R.412, K.413
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:S.411, B:R.412, B:K.413
- Salt bridges: B:R.412
SO4.15: 4 residues within 4Å:- Chain B: R.23, P.54, G.55, I.56
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:G.55, B:I.56
- Salt bridges: B:R.23
SO4.16: 2 residues within 4Å:- Chain B: R.366, R.369
3 PLIP interactions:3 interactions with chain B- Water bridges: B:R.369, B:R.369
- Salt bridges: B:R.369
SO4.17: 1 residues within 4Å:- Chain B: K.220
1 PLIP interactions:1 interactions with chain B- Salt bridges: B:K.220
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Desai, K.K. et al., Structures of the Noncanonical RNA Ligase RtcB Reveal the Mechanism of Histidine Guanylylation. Biochemistry (2013)
- Release Date
- 2013-03-20
- Peptides
- tRNA-splicing ligase RtcB: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.34 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x GLC- FRU: beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose(Non-covalent)
- 2 x MN: MANGANESE (II) ION(Non-covalent)
- 13 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Desai, K.K. et al., Structures of the Noncanonical RNA Ligase RtcB Reveal the Mechanism of Histidine Guanylylation. Biochemistry (2013)
- Release Date
- 2013-03-20
- Peptides
- tRNA-splicing ligase RtcB: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B