SMTL ID : 1nqt.2 (2 other biounits)

Crystal structure of bovine Glutamate dehydrogenase-ADP complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.50 Å

Oligo State

homo-hexamer

Ligands

6 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 15 residues within 4Å: Chain A: Q.80, R.81, A.111, D.114, V.115, R.454, K.483, V.484, V.487 Chain B: I.198, H.204, K.382, S.388, R.391, E.440 11 PLIP interactions: 6 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:R.81, A:D.114, A:V.115, B:S.388, B:E.440 Salt bridges: A:R.454, B:H.204, B:K.382, B:R.391 pi-Cation interactions: A:R.81, A:R.81 ADP.2: 14 residues within 4Å: Chain B: Q.80, R.81, A.111, D.114, V.115, R.454, K.483, V.484, V.487 Chain F: I.198, H.204, K.382, S.388, R.391 10 PLIP interactions: 3 interactions with chain F, 7 interactions with chain B Salt bridges: F:H.204, F:K.382, F:R.391, B:R.454 Hydrogen bonds: B:D.114, B:D.114, B:V.115 pi-Cation interactions: B:R.81, B:R.81, B:K.483 ADP.3: 14 residues within 4Å: Chain C: Q.80, R.81, A.111, D.114, V.115, R.454, K.483, V.484, V.487 Chain D: I.198, H.204, K.382, S.388, R.391 11 PLIP interactions: 4 interactions with chain D, 7 interactions with chain C Hydrogen bonds: D:S.388, C:R.81, C:D.114, C:D.114, C:V.115 Salt bridges: D:H.204, D:K.382, D:R.391, C:R.454 pi-Cation interactions: C:R.81, C:R.81 ADP.4: 15 residues within 4Å: Chain D: Q.80, R.81, A.111, D.114, V.115, F.117, R.454, K.483, V.484, V.487 Chain E: I.198, H.204, K.382, S.388, R.391 13 PLIP interactions: 4 interactions with chain E, 9 interactions with chain D Hydrogen bonds: E:S.388, D:R.81, D:D.114, D:D.114, D:D.114, D:V.115 Salt bridges: E:H.204, E:K.382, E:R.391, D:R.454 pi-Cation interactions: D:R.81, D:R.81, D:K.483 ADP.5: 16 residues within 4Å: Chain C: I.198, H.204, K.382, S.388, R.391 Chain E: Q.80, R.81, A.111, D.114, V.115, P.116, F.117, R.454, K.483, V.484, V.487 12 PLIP interactions: 4 interactions with chain C, 8 interactions with chain E Hydrogen bonds: C:S.388, E:D.114, E:D.114, E:D.114, E:V.115 Salt bridges: C:H.204, C:K.382, C:R.391, E:R.454 pi-Cation interactions: E:R.81, E:R.81, E:K.483 ADP.6: 16 residues within 4Å: Chain A: I.198, H.204, K.382, S.388, R.391 Chain F: Q.80, R.81, A.111, D.114, V.115, P.116, F.117, R.454, K.483, V.484, V.487 11 PLIP interactions: 6 interactions with chain F, 5 interactions with chain A Hydrogen bonds: F:R.81, F:D.114, F:V.115, A:S.388, A:E.440 Salt bridges: F:R.454, A:H.204, A:K.382, A:R.391 pi-Cation interactions: F:R.81, F:R.81

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Banerjee, S. et al., Structural studies on ADP activation of mammalian glutamate dehydrogenase and the evolution of regulation. Biochemistry (2003)

Release Date

2003-05-06

Peptides

Glutamate dehydrogenase 1: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

C
I

D
J

E
K

F
L

Glutamate dehydrogenase 1

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