SMTL ID : 3o5t.1

Structure of DraG-GlnZ complex with ADP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.09 Å

Oligo State

hetero-3-3-mer

Ligands

6 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: E.28, D.243, D.245, T.246 Ligands: MG.2 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.243, A:D.245, A:T.246, H2O.11, H2O.12 MG.2: 5 residues within 4Å: Chain A: T.59, D.60, D.61, D.245 Ligands: MG.1 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:T.59, A:D.60, A:D.61, A:D.245, H2O.2 MG.4: 5 residues within 4Å: Chain C: E.28, D.243, D.245, T.246 Ligands: MG.5 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.243, C:D.245, C:T.246, H2O.26, H2O.27 MG.5: 5 residues within 4Å: Chain C: T.59, D.60, D.61, D.245 Ligands: MG.4 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:T.59, C:D.60, C:D.61, C:D.245, H2O.17 MG.7: 5 residues within 4Å: Chain E: E.28, D.243, D.245, T.246 Ligands: MG.8 5 PLIP interactions: 3 interactions with chain E, 2 Ligand-Water interactions Metal complexes: E:D.243, E:D.245, E:T.246, H2O.41, H2O.42 MG.8: 5 residues within 4Å: Chain E: T.59, D.60, D.61, D.245 Ligands: MG.7 5 PLIP interactions: 4 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:T.59, E:D.60, E:D.61, E:D.245, H2O.32

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

ADP.3: 21 residues within 4Å: Chain B: G.27, L.28, T.29, E.62, V.63, A.64, R.101, R.103 Chain F: I.7, G.35, F.36, G.37, R.38, Q.39, K.58, I.86, G.87, D.88, G.89, K.90, F.92 19 PLIP interactions: 11 interactions with chain F, 8 interactions with chain B Hydrogen bonds: F:R.38, F:Q.39, F:G.87, F:D.88, F:G.89, F:G.89, B:A.64, B:A.64 Water bridges: F:K.58, F:K.58, B:R.101, B:R.101, B:R.103, B:R.103 Salt bridges: F:K.90, F:K.90, B:R.101, B:R.103 pi-Cation interactions: F:K.90 ADP.6: 21 residues within 4Å: Chain B: I.7, G.35, F.36, G.37, R.38, Q.39, K.58, I.86, G.87, D.88, G.89, K.90, F.92 Chain D: G.27, L.28, T.29, E.62, V.63, A.64, R.101, R.103 19 PLIP interactions: 11 interactions with chain B, 8 interactions with chain D Hydrogen bonds: B:R.38, B:Q.39, B:G.87, B:D.88, B:G.89, B:G.89, D:A.64, D:A.64 Water bridges: B:K.58, B:K.58, D:R.101, D:R.101, D:R.103, D:R.103 Salt bridges: B:K.90, B:K.90, D:R.101, D:R.103 pi-Cation interactions: B:K.90 ADP.9: 21 residues within 4Å: Chain D: I.7, G.35, F.36, G.37, R.38, Q.39, K.58, I.86, G.87, D.88, G.89, K.90, F.92 Chain F: G.27, L.28, T.29, E.62, V.63, A.64, R.101, R.103 19 PLIP interactions: 11 interactions with chain D, 8 interactions with chain F Hydrogen bonds: D:R.38, D:Q.39, D:G.87, D:D.88, D:G.89, D:G.89, F:A.64, F:A.64 Water bridges: D:K.58, D:K.58, F:R.101, F:R.101, F:R.103, F:R.103 Salt bridges: D:K.90, D:K.90, F:R.101, F:R.103 pi-Cation interactions: D:K.90

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rajendran, C. et al., Crystal structure of the GlnZ-DraG complex reveals a different form of PII-target interaction. Proc.Natl.Acad.Sci.USA (2011)

Release Date

2011-10-05

Peptides

Dinitrogenase reductase activacting glicohydrolase: ACE
PII-like protein Pz: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

B
B

D
B

F
B

Dinitrogenase reductase activacting glicohydrolase

PII-like protein Pz

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