- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.25 Å
- Oligo State
- homo-hexamer
- Ligands
- 21 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)
- 6 x K: POTASSIUM ION(Non-covalent)
K.6: 5 residues within 4Å:- Chain A: D.250, T.252, N.286, I.289, G.291
5 PLIP interactions:4 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:D.250, A:N.286, A:I.289, A:G.291, H2O.2
K.13: 5 residues within 4Å:- Chain B: D.250, T.252, N.286, I.289, G.291
4 PLIP interactions:4 interactions with chain B- Metal complexes: B:D.250, B:T.252, B:N.286, B:I.289
K.19: 5 residues within 4Å:- Chain C: D.250, T.252, N.286, I.289, G.291
5 PLIP interactions:4 interactions with chain C, 1 Ligand-Water interactions- Metal complexes: C:D.250, C:T.252, C:N.286, C:I.289, H2O.12
K.26: 5 residues within 4Å:- Chain D: D.250, T.252, N.286, I.289, G.291
4 PLIP interactions:4 interactions with chain D- Metal complexes: D:D.250, D:T.252, D:N.286, D:I.289
K.32: 5 residues within 4Å:- Chain E: D.250, T.252, N.286, I.289, G.291
5 PLIP interactions:4 interactions with chain E, 1 Ligand-Water interactions- Metal complexes: E:D.250, E:T.252, E:N.286, E:I.289, H2O.27
K.37: 5 residues within 4Å:- Chain F: D.250, T.252, N.286, I.289, G.291
5 PLIP interactions:4 interactions with chain F, 1 Ligand-Water interactions- Metal complexes: F:D.250, F:T.252, F:N.286, F:I.289, H2O.32
- 6 x CKP: 6-O-phosphono-beta-D-psicofuranosonic acid(Non-covalent)
CKP.7: 19 residues within 4Å:- Chain A: L.11, A.33, G.34, S.35, N.38, F.90, Y.106, R.108, I.137, N.164, R.166, T.252, G.253, A.254, G.255, D.256, D.292
- Ligands: MG.1, ADP.8
21 PLIP interactions:21 interactions with chain A- Hydrogen bonds: A:G.34, A:S.35, A:N.38, A:Y.106, A:R.166, A:V.251, A:G.253, A:A.254, A:G.255, A:D.256, A:D.292
- Water bridges: A:S.104, A:Y.106, A:R.108, A:R.108, A:N.164, A:N.164, A:R.166
- Salt bridges: A:R.108, A:R.166, A:R.166
CKP.14: 19 residues within 4Å:- Chain B: L.11, A.33, G.34, S.35, N.38, F.90, Y.106, R.108, I.137, N.164, R.166, T.252, G.253, A.254, G.255, D.256, D.292
- Ligands: MG.9, ADP.15
15 PLIP interactions:15 interactions with chain B- Hydrogen bonds: B:G.34, B:S.35, B:N.38, B:R.166, B:G.253, B:G.255, B:D.292
- Water bridges: B:S.104, B:Y.106, B:R.108, B:R.108, B:N.164
- Salt bridges: B:R.108, B:R.166, B:R.166
CKP.20: 19 residues within 4Å:- Chain C: L.11, A.33, G.34, S.35, N.38, F.90, Y.106, R.108, I.137, N.164, R.166, T.252, G.253, A.254, G.255, D.256, D.292
- Ligands: MG.16, ADP.21
20 PLIP interactions:20 interactions with chain C- Hydrogen bonds: C:G.34, C:S.35, C:N.38, C:Y.106, C:R.166, C:G.253, C:G.255, C:D.256, C:D.292
- Water bridges: C:S.104, C:Y.106, C:R.108, C:R.108, C:N.164, C:R.166, C:A.254, C:A.254
- Salt bridges: C:R.108, C:R.166, C:R.166
CKP.27: 19 residues within 4Å:- Chain D: L.11, A.33, G.34, S.35, N.38, F.90, Y.106, R.108, I.137, N.164, R.166, T.252, G.253, A.254, G.255, D.256, D.292
- Ligands: MG.22, ADP.28
19 PLIP interactions:19 interactions with chain D- Hydrogen bonds: D:G.34, D:S.35, D:N.38, D:R.166, D:G.253, D:G.255, D:D.256, D:D.292
- Water bridges: D:S.104, D:S.104, D:R.108, D:R.108, D:N.164, D:N.164, D:A.254, D:A.254
- Salt bridges: D:R.108, D:R.166, D:R.166
CKP.33: 19 residues within 4Å:- Chain E: L.11, A.33, G.34, S.35, N.38, F.90, Y.106, R.108, I.137, N.164, R.166, T.252, G.253, A.254, G.255, D.256, D.292
- Ligands: MG.29, ADP.34
21 PLIP interactions:21 interactions with chain E- Hydrogen bonds: E:G.34, E:S.35, E:N.38, E:R.166, E:G.253, E:G.255, E:D.256, E:D.292
- Water bridges: E:S.104, E:Y.106, E:R.108, E:R.108, E:R.108, E:N.164, E:N.164, E:A.254, E:A.254, E:D.256
- Salt bridges: E:R.108, E:R.166, E:R.166
CKP.38: 19 residues within 4Å:- Chain F: L.11, A.33, G.34, S.35, N.38, F.90, Y.106, R.108, I.137, N.164, R.166, T.252, G.253, A.254, G.255, D.256, D.292
- Ligands: MG.35, ADP.39
19 PLIP interactions:19 interactions with chain F- Hydrogen bonds: F:G.34, F:S.35, F:N.38, F:Y.106, F:R.166, F:G.253, F:G.255, F:D.256, F:D.292
- Water bridges: F:S.104, F:Y.106, F:R.108, F:R.108, F:N.164, F:A.254, F:A.254
- Salt bridges: F:R.108, F:R.166, F:R.166
- 6 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)
ADP.8: 17 residues within 4Å:- Chain A: D.194, K.224, G.226, P.227, G.229, Y.244, V.248, V.251, A.254, G.255, L.258, I.280, S.283, V.287
- Ligands: MG.1, MG.2, CKP.7
9 PLIP interactions:9 interactions with chain A- Hydrogen bonds: A:G.226, A:G.255, A:S.283
- Water bridges: A:R.166, A:K.224, A:K.224, A:Q.245, A:A.254
- Salt bridges: A:K.224
ADP.15: 18 residues within 4Å:- Chain B: D.194, K.224, L.225, G.226, P.227, G.229, Y.244, V.248, V.251, A.254, G.255, L.258, I.280, S.283, V.287
- Ligands: MG.9, MG.10, CKP.14
8 PLIP interactions:8 interactions with chain B- Hydrogen bonds: B:D.194, B:G.226
- Water bridges: B:K.224, B:K.224, B:G.255, B:G.255
- Salt bridges: B:K.224, B:K.224
ADP.21: 18 residues within 4Å:- Chain C: D.194, K.224, L.225, G.226, P.227, G.229, Y.244, V.248, V.251, A.254, G.255, L.258, I.280, S.283, V.287
- Ligands: MG.16, MG.17, CKP.20
11 PLIP interactions:11 interactions with chain C- Hydrogen bonds: C:D.194, C:D.194, C:G.226, C:G.229, C:T.284
- Water bridges: C:R.166, C:K.224, C:K.224, C:G.255, C:G.255
- Salt bridges: C:K.224
ADP.28: 18 residues within 4Å:- Chain D: D.194, K.224, L.225, G.226, P.227, G.229, Y.244, V.248, V.251, A.254, G.255, L.258, I.280, S.283, V.287
- Ligands: MG.22, MG.23, CKP.27
11 PLIP interactions:11 interactions with chain D- Hydrogen bonds: D:D.194, D:G.226, D:G.229, D:G.255, D:T.284
- Water bridges: D:N.164, D:N.164, D:D.196, D:D.196, D:K.224
- Salt bridges: D:K.224
ADP.34: 19 residues within 4Å:- Chain E: D.194, K.224, L.225, G.226, P.227, G.229, Y.244, V.248, V.251, A.254, G.255, L.258, I.280, S.283, T.284, V.287
- Ligands: MG.29, MG.30, CKP.33
11 PLIP interactions:11 interactions with chain E- Hydrogen bonds: E:G.226, E:G.229, E:T.284
- Water bridges: E:N.164, E:N.164, E:D.194, E:K.224, E:G.255, E:G.255
- Salt bridges: E:K.224, E:K.224
ADP.39: 18 residues within 4Å:- Chain F: D.194, K.224, L.225, G.226, P.227, G.229, Y.244, V.248, V.251, A.254, G.255, L.258, I.280, S.283, V.287
- Ligands: MG.35, MG.36, CKP.38
7 PLIP interactions:7 interactions with chain F- Hydrogen bonds: F:D.194, F:D.194, F:G.226, F:G.229, F:G.255
- Water bridges: F:Y.244
- Salt bridges: F:K.224
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Okazaki, S. et al., Crystal structure of 2-keto-3-deoxygluconate kinase from Sulfolobus tokodaii complexed with 2-keto-6-phosphogluconate. To be Published
- Release Date
- 2006-01-31
- Peptides
- hypothetical fructokinase: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
F
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.25 Å
- Oligo State
- homo-hexamer
- Ligands
- 21 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)
- 6 x K: POTASSIUM ION(Non-covalent)
- 6 x CKP: 6-O-phosphono-beta-D-psicofuranosonic acid(Non-covalent)
- 6 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Okazaki, S. et al., Crystal structure of 2-keto-3-deoxygluconate kinase from Sulfolobus tokodaii complexed with 2-keto-6-phosphogluconate. To be Published
- Release Date
- 2006-01-31
- Peptides
- hypothetical fructokinase: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
F