- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x GLU: GLUTAMIC ACID(Non-covalent)
- 6 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)
NDP.2: 26 residues within 4Å:- Chain A: R.94, K.134, P.167, D.168, M.169, S.170, R.211, T.215, Q.250, G.251, F.252, G.253, N.254, V.255, E.275, S.276, D.277, A.325, A.326, S.327, Q.330, G.347, A.348, N.349, N.374
- Ligands: GLU.1
21 PLIP interactions:21 interactions with chain A- Hydrophobic interactions: A:T.215, A:V.255, A:N.374
- Hydrogen bonds: A:R.94, A:D.168, A:S.170, A:R.211, A:R.211, A:Q.250, A:F.252, A:N.254, A:N.254, A:V.255, A:E.275, A:S.276, A:A.326, A:Q.330, A:N.349, A:N.349
- Salt bridges: A:K.134, A:K.295
NDP.5: 25 residues within 4Å:- Chain B: R.94, P.167, D.168, M.169, S.170, R.211, T.215, Q.250, G.251, F.252, G.253, N.254, V.255, E.275, S.276, D.277, A.325, A.326, S.327, Q.330, G.347, A.348, N.349, N.374
- Ligands: GLU.4
25 PLIP interactions:25 interactions with chain B- Hydrophobic interactions: B:T.215, B:V.255, B:N.374
- Hydrogen bonds: B:R.94, B:D.168, B:D.168, B:S.170, B:R.211, B:R.211, B:Q.250, B:F.252, B:N.254, B:N.254, B:V.255, B:E.275, B:S.276, B:D.277, B:D.277, B:A.326, B:Q.330, B:N.349, B:N.349
- Water bridges: B:T.215, B:G.253, B:G.256
NDP.8: 26 residues within 4Å:- Chain C: R.94, K.134, P.167, D.168, M.169, S.170, R.211, T.215, Q.250, G.251, F.252, G.253, N.254, V.255, E.275, S.276, D.277, A.325, A.326, S.327, Q.330, G.347, A.348, N.349, N.374
- Ligands: GLU.7
23 PLIP interactions:23 interactions with chain C- Hydrophobic interactions: C:T.215, C:V.255, C:N.374
- Hydrogen bonds: C:R.94, C:D.168, C:S.170, C:R.211, C:R.211, C:T.215, C:Q.250, C:F.252, C:N.254, C:N.254, C:V.255, C:E.275, C:S.276, C:D.277, C:D.277, C:A.326, C:Q.330, C:N.349, C:N.349
- Salt bridges: C:K.134
NDP.11: 25 residues within 4Å:- Chain D: R.94, K.134, D.168, M.169, S.170, R.211, T.215, Q.250, G.251, F.252, G.253, N.254, V.255, E.275, S.276, D.277, A.325, A.326, S.327, Q.330, G.347, A.348, N.349, N.374
- Ligands: GLU.10
26 PLIP interactions:26 interactions with chain D- Hydrophobic interactions: D:T.215, D:V.255, D:N.374
- Hydrogen bonds: D:R.94, D:D.168, D:S.170, D:R.211, D:Q.250, D:F.252, D:G.253, D:N.254, D:N.254, D:V.255, D:S.276, D:D.277, D:A.326, D:Q.330, D:N.349
- Water bridges: D:D.168, D:T.215, D:G.256, D:K.295, D:K.295, D:K.295
- Salt bridges: D:K.134, D:K.295
NDP.14: 26 residues within 4Å:- Chain E: R.94, K.134, P.167, D.168, M.169, S.170, R.211, T.215, Q.250, G.251, F.252, G.253, N.254, V.255, E.275, S.276, D.277, A.325, A.326, S.327, Q.330, G.347, A.348, N.349, N.374
- Ligands: GLU.13
25 PLIP interactions:25 interactions with chain E- Hydrophobic interactions: E:T.215, E:V.255, E:N.374
- Hydrogen bonds: E:R.94, E:D.168, E:D.168, E:S.170, E:R.211, E:T.215, E:Q.250, E:F.252, E:N.254, E:N.254, E:V.255, E:S.276, E:S.276, E:D.277, E:A.326, E:Q.330, E:N.349, E:N.349
- Water bridges: E:S.170, E:G.253, E:G.256
- Salt bridges: E:K.134
NDP.17: 26 residues within 4Å:- Chain F: R.94, K.134, D.168, M.169, S.170, R.211, T.215, Q.250, G.251, F.252, G.253, N.254, V.255, E.275, S.276, D.277, K.295, A.325, A.326, S.327, Q.330, G.347, A.348, N.349, N.374
- Ligands: GLU.16
23 PLIP interactions:23 interactions with chain F- Hydrophobic interactions: F:T.215, F:V.255, F:N.374
- Hydrogen bonds: F:R.94, F:D.168, F:S.170, F:R.211, F:T.215, F:Q.250, F:F.252, F:N.254, F:N.254, F:V.255, F:E.275, F:S.276, F:S.276, F:D.277, F:A.326, F:Q.330, F:N.349, F:N.349
- Salt bridges: F:K.134, F:K.295
- 6 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)
GTP.3: 11 residues within 4Å:- Chain A: H.209, G.210, S.213, R.217, L.257, H.258, R.261, Y.262, R.265, E.292, H.450
20 PLIP interactions:20 interactions with chain A- Hydrogen bonds: A:G.210, A:S.213, A:R.217, A:R.261, A:R.261, A:Y.262, A:Y.262, A:Y.262
- Water bridges: A:E.292, A:K.446
- Salt bridges: A:H.209, A:H.209, A:R.217, A:R.261, A:R.265, A:E.292, A:K.446, A:H.450
- pi-Cation interactions: A:R.261, A:R.261
GTP.6: 13 residues within 4Å:- Chain B: H.209, G.210, S.213, R.217, L.257, H.258, R.261, Y.262, R.265, K.289, E.292, K.446, H.450
20 PLIP interactions:20 interactions with chain B- Hydrogen bonds: B:G.210, B:S.213, B:R.261, B:R.261, B:Y.262, B:Y.262, B:Y.262
- Water bridges: B:H.209, B:R.217, B:R.217
- Salt bridges: B:H.209, B:H.209, B:R.217, B:R.261, B:R.265, B:E.292, B:K.446, B:H.450
- pi-Cation interactions: B:R.261, B:R.261
GTP.9: 11 residues within 4Å:- Chain C: H.209, G.210, S.213, R.217, H.258, R.261, Y.262, R.265, E.292, K.446, H.450
17 PLIP interactions:17 interactions with chain C- Hydrogen bonds: C:G.210, C:S.213, C:R.261, C:R.261, C:Y.262, C:Y.262, C:Y.262
- Salt bridges: C:H.209, C:H.209, C:R.217, C:R.261, C:R.265, C:E.292, C:K.446, C:H.450
- pi-Cation interactions: C:R.261, C:R.261
GTP.12: 11 residues within 4Å:- Chain D: H.209, G.210, S.213, R.217, H.258, R.261, Y.262, R.265, K.289, E.292, H.450
18 PLIP interactions:18 interactions with chain D- Hydrogen bonds: D:G.210, D:S.213, D:R.261, D:Y.262, D:Y.262, D:Y.262, D:Y.262
- Water bridges: D:H.258
- Salt bridges: D:H.209, D:H.209, D:R.217, D:R.261, D:R.265, D:E.292, D:K.446, D:H.450
- pi-Cation interactions: D:R.261, D:R.261
GTP.15: 12 residues within 4Å:- Chain E: H.209, G.210, S.213, R.217, H.258, R.261, Y.262, R.265, K.289, E.292, K.446, H.450
16 PLIP interactions:16 interactions with chain E- Hydrogen bonds: E:S.213, E:R.261, E:R.261, E:Y.262, E:Y.262
- Water bridges: E:H.258
- Salt bridges: E:H.209, E:H.209, E:R.217, E:R.261, E:R.265, E:E.292, E:K.446, E:H.450
- pi-Cation interactions: E:R.261, E:R.261
GTP.18: 13 residues within 4Å:- Chain F: H.209, G.210, S.213, R.217, L.257, H.258, R.261, Y.262, R.265, K.289, E.292, K.446, H.450
16 PLIP interactions:16 interactions with chain F- Hydrogen bonds: F:G.210, F:S.213, F:H.258, F:R.261, F:R.261, F:Y.262
- Salt bridges: F:H.209, F:H.209, F:R.217, F:R.261, F:R.265, F:E.292, F:K.446, F:H.450
- pi-Cation interactions: F:R.261, F:R.261
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Smith, T.J. et al., Structures of bovine glutamate dehydrogenase complexes elucidate the mechanism of purine regulation. J. Mol. Biol. (2001)
- Release Date
- 2018-07-25
- Peptides
- Glutamate dehydrogenase 1, mitochondrial: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
F
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- homo-hexamer
- Ligands
- 6 x GLU: GLUTAMIC ACID(Non-covalent)
- 6 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)
- 6 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Smith, T.J. et al., Structures of bovine glutamate dehydrogenase complexes elucidate the mechanism of purine regulation. J. Mol. Biol. (2001)
- Release Date
- 2018-07-25
- Peptides
- Glutamate dehydrogenase 1, mitochondrial: ABCDEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
F