- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.70 Å
- Oligo State
- homo-hexamer
- Ligands
- 3 x MG: MAGNESIUM ION(Non-functional Binders)
- 12 x CL: CHLORIDE ION(Non-functional Binders)
- 3 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)
GDP.4: 13 residues within 4Å:- Chain A: K.15, H.58, F.63, L.67, Y.70, R.91, T.97, R.108, D.117, A.118, I.119, N.121
- Ligands: MG.1
19 PLIP interactions:19 interactions with chain A- Hydrogen bonds: A:K.15, A:T.97, A:D.117, A:I.119, A:N.121, A:N.121
- Water bridges: A:K.15, A:K.61, A:R.91, A:R.91, A:R.91, A:R.108, A:R.108, A:R.108
- Salt bridges: A:H.58, A:R.91, A:R.108
- pi-Stacking: A:F.63, A:F.63
GDP.10: 13 residues within 4Å:- Chain C: K.15, H.58, F.63, L.67, Y.70, R.91, T.97, R.108, D.117, A.118, I.119, N.121
- Ligands: MG.7
19 PLIP interactions:19 interactions with chain C- Hydrogen bonds: C:K.15, C:T.97, C:D.117, C:I.119, C:N.121, C:N.121
- Water bridges: C:K.15, C:K.61, C:R.91, C:R.91, C:R.91, C:R.108, C:R.108, C:R.108
- Salt bridges: C:H.58, C:R.91, C:R.108
- pi-Stacking: C:F.63, C:F.63
GDP.16: 13 residues within 4Å:- Chain E: K.15, H.58, F.63, L.67, Y.70, R.91, T.97, R.108, D.117, A.118, I.119, N.121
- Ligands: MG.13
19 PLIP interactions:19 interactions with chain E- Hydrogen bonds: E:K.15, E:T.97, E:D.117, E:I.119, E:N.121, E:N.121
- Water bridges: E:K.15, E:K.61, E:R.91, E:R.91, E:R.91, E:R.108, E:R.108, E:R.108
- Salt bridges: E:H.58, E:R.91, E:R.108
- pi-Stacking: E:F.63, E:F.63
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Kato-Murayama, M. et al., Crystal structure of nucleoside diphosphate kinase in complex with GDP. To be Published
- Release Date
- 2007-02-25
- Peptides
- Nucleoside diphosphate kinase: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
BE
AF
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.70 Å
- Oligo State
- homo-hexamer
- Ligands
- 3 x MG: MAGNESIUM ION(Non-functional Binders)
- 12 x CL: CHLORIDE ION(Non-functional Binders)
- 3 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Kato-Murayama, M. et al., Crystal structure of nucleoside diphosphate kinase in complex with GDP. To be Published
- Release Date
- 2007-02-25
- Peptides
- Nucleoside diphosphate kinase: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
BE
AF
B