- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x ADN: ADENOSINE(Non-covalent)
- 8 x 1Q8: N-(hydroxymethyl)benzamide(Non-covalent)
1Q8.2: 8 residues within 4Å:- Chain A: S.212, F.213, D.216, L.242, S.243, Q.246, T.247, D.248
6 PLIP interactions:6 interactions with chain A- Hydrophobic interactions: A:D.216
- Hydrogen bonds: A:R.219, A:T.247
- Water bridges: A:D.216, A:S.243
- pi-Stacking: A:F.213
1Q8.5: 5 residues within 4Å:- Chain A: R.219, L.244, Y.245, Q.246, R.256
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:Y.245
- Water bridges: A:R.227, A:R.227
1Q8.6: 6 residues within 4Å:- Chain A: L.59, I.60, D.61, L.153, V.157, D.183
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:L.59
- Hydrogen bonds: A:D.183
- Water bridges: A:L.153
1Q8.7: 8 residues within 4Å:- Chain A: Q.107, D.110, I.111
- Chain B: Y.69, L.108, R.136
- Ligands: DMS.12, DMS.13
8 PLIP interactions:4 interactions with chain B, 4 interactions with chain A- Hydrophobic interactions: B:Y.69, B:L.108, A:D.110, A:I.111
- Hydrogen bonds: B:R.136, B:R.136, A:Q.107, A:D.110
1Q8.9: 8 residues within 4Å:- Chain A: Y.69, L.108, R.136
- Chain B: Q.107, D.110, I.111
- Ligands: DMS.3, DMS.4
9 PLIP interactions:5 interactions with chain B, 4 interactions with chain A- Hydrophobic interactions: B:D.110, B:I.111, A:Y.69, A:L.108
- Hydrogen bonds: B:Q.107, B:D.110, A:R.136, A:R.136
- Water bridges: B:Q.107
1Q8.11: 8 residues within 4Å:- Chain B: S.212, F.213, D.216, L.242, S.243, Q.246, T.247, D.248
6 PLIP interactions:6 interactions with chain B- Hydrophobic interactions: B:D.216
- Hydrogen bonds: B:T.247
- Water bridges: B:D.216, B:S.243, B:D.248
- pi-Stacking: B:F.213
1Q8.14: 5 residues within 4Å:- Chain B: R.219, L.244, Y.245, Q.246, R.256
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:Y.245
- Water bridges: B:R.227, B:R.227
1Q8.15: 5 residues within 4Å:- Chain B: L.59, I.60, D.61, L.153, D.183
3 PLIP interactions:3 interactions with chain B- Hydrophobic interactions: B:L.59
- Hydrogen bonds: B:D.183
- Water bridges: B:L.153
- 4 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
DMS.3: 7 residues within 4Å:- Chain A: I.38, A.65, E.66, Y.69, R.136
- Ligands: DMS.4, 1Q8.9
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.136
- Salt bridges: A:E.66
DMS.4: 7 residues within 4Å:- Chain A: A.62, A.65, E.66, P.133, R.136
- Ligands: DMS.3, 1Q8.9
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:R.136
DMS.12: 8 residues within 4Å:- Chain B: I.38, A.65, E.66, Y.69, R.136, M.138
- Ligands: 1Q8.7, DMS.13
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:R.136
- Salt bridges: B:E.66
DMS.13: 7 residues within 4Å:- Chain B: A.62, E.66, P.133, R.136, Y.152
- Ligands: 1Q8.7, DMS.12
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:R.136
- Salt bridges: B:E.66
- 2 x K: POTASSIUM ION(Non-covalent)
K.8: 5 residues within 4Å:- Chain A: D.294, T.296, V.330, Q.333, G.335
5 PLIP interactions:5 interactions with chain A- Metal complexes: A:D.294, A:T.296, A:V.330, A:Q.333, A:G.335
K.16: 5 residues within 4Å:- Chain B: D.294, T.296, V.330, Q.333, G.335
5 PLIP interactions:5 interactions with chain B- Metal complexes: B:D.294, B:T.296, B:V.330, B:Q.333, B:G.335
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Malashkevich, V.N. et al., CRYSTAL STRUCTURE OF probable sugar kinase protein from Rhizobium etli CFN 42 complexed with N-(HYDROXYMETHYL)BENZAMIDE. To be Published
- Release Date
- 2013-05-22
- Peptides
- sugar kinase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.50 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x ADN: ADENOSINE(Non-covalent)
- 8 x 1Q8: N-(hydroxymethyl)benzamide(Non-covalent)
- 4 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
- 2 x K: POTASSIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Malashkevich, V.N. et al., CRYSTAL STRUCTURE OF probable sugar kinase protein from Rhizobium etli CFN 42 complexed with N-(HYDROXYMETHYL)BENZAMIDE. To be Published
- Release Date
- 2013-05-22
- Peptides
- sugar kinase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B