- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- homo-tetramer
- Ligands
- 14 x SO4: SULFATE ION(Non-functional Binders)
- 2 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)
SAH.4: 19 residues within 4Å:- Chain A: L.10, T.36, S.37, P.85, G.86, D.87, V.90, A.91, T.92, S.115, I.116, F.165, L.166, L.206, R.208, A.209, P.233, H.234, I.235
10 PLIP interactions:10 interactions with chain A- Hydrogen bonds: A:L.10, A:S.37, A:D.87, A:V.90, A:I.116, A:L.166, A:L.166, A:R.208, A:A.209
- Water bridges: A:L.166
SAH.18: 19 residues within 4Å:- Chain C: L.10, T.36, S.37, P.85, G.86, D.87, V.90, A.91, T.92, S.115, I.116, F.165, L.166, L.206, R.208, A.209, P.233, H.234, I.235
10 PLIP interactions:10 interactions with chain C- Hydrogen bonds: C:L.10, C:S.37, C:D.87, C:V.90, C:I.116, C:L.166, C:L.166, C:R.208, C:A.209
- Water bridges: C:L.166
- 6 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)
MES.5: 7 residues within 4Å:- Chain A: F.34, M.39, T.42, T.43, L.44, I.47, V.57
1 PLIP interactions:1 interactions with chain A- Water bridges: A:R.173
MES.12: 11 residues within 4Å:- Chain B: G.9, L.10, T.36, S.37, P.85, G.86, A.91, S.115, I.116, F.165
- Ligands: SO4.11
8 PLIP interactions:8 interactions with chain B- Hydrogen bonds: B:S.37, B:P.85, B:I.116
- Water bridges: B:L.10, B:S.37, B:S.37, B:D.87, B:D.87
MES.13: 4 residues within 4Å:- Chain B: D.200, Y.220, K.222, E.259
5 PLIP interactions:5 interactions with chain B- Water bridges: B:K.222, B:E.259
- Salt bridges: B:D.200, B:K.222, B:E.259
MES.19: 7 residues within 4Å:- Chain C: F.34, M.39, T.42, T.43, L.44, I.47, V.57
1 PLIP interactions:1 interactions with chain C- Water bridges: C:R.173
MES.26: 11 residues within 4Å:- Chain D: G.9, L.10, T.36, S.37, P.85, G.86, A.91, S.115, I.116, F.165
- Ligands: SO4.25
9 PLIP interactions:9 interactions with chain D- Hydrogen bonds: D:S.37, D:P.85, D:I.116
- Water bridges: D:L.10, D:T.36, D:S.37, D:S.37, D:D.87, D:D.87
MES.27: 4 residues within 4Å:- Chain D: D.200, Y.220, K.222, E.259
4 PLIP interactions:4 interactions with chain D- Water bridges: D:K.222
- Salt bridges: D:D.200, D:K.222, D:E.259
- 6 x GOL: GLYCEROL(Non-functional Binders)
GOL.6: 5 residues within 4Å:- Chain A: Y.128, L.160, H.243
- Chain B: K.132
- Chain D: N.66
4 PLIP interactions:2 interactions with chain D, 2 interactions with chain B- Hydrogen bonds: D:N.66, D:N.66, B:K.132
- Water bridges: B:K.132
GOL.7: 2 residues within 4Å:- Chain A: T.43, R.46
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:T.43, A:T.43
- Water bridges: A:G.45
GOL.14: 7 residues within 4Å:- Chain B: F.34, L.38, M.39, T.42, T.43, L.44, R.173
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:M.39, B:M.39, B:R.173
- Water bridges: B:L.44
GOL.20: 5 residues within 4Å:- Chain B: N.66
- Chain C: Y.128, L.160, H.243
- Chain D: K.132
5 PLIP interactions:1 interactions with chain C, 2 interactions with chain D, 2 interactions with chain B- Hydrogen bonds: C:Y.128, D:K.132, B:N.66, B:N.66
- Water bridges: D:K.132
GOL.21: 2 residues within 4Å:- Chain C: T.43, R.46
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:T.43
- Water bridges: C:G.45
GOL.28: 7 residues within 4Å:- Chain D: F.34, L.38, M.39, T.42, T.43, L.44, R.173
4 PLIP interactions:4 interactions with chain D- Hydrogen bonds: D:M.39, D:M.39, D:R.173
- Water bridges: D:L.44
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Mizutani, H. et al., Crystal structure of diphthine synthase from Pyrococcus horikoshii OT3. To be Published
- Release Date
- 2006-12-30
- Peptides
- diphthine synthase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- homo-tetramer
- Ligands
- 14 x SO4: SULFATE ION(Non-functional Binders)
- 2 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)
- 6 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)
- 6 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Mizutani, H. et al., Crystal structure of diphthine synthase from Pyrococcus horikoshii OT3. To be Published
- Release Date
- 2006-12-30
- Peptides
- diphthine synthase: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B