SMTL ID : 2xbp.1

A novel signal transduction protein PII variant from Synechococcus elongatus PCC7942 indicates a two-step process for NAGK PII complex formation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.20 Å

Oligo State

homo-trimer

Ligands

3 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 21 residues within 4Å: Chain A: G.27, M.28, T.29, E.62, I.63, V.64, R.101, R.103 Chain B: I.7, G.35, F.36, G.37, Q.39, K.58, N.86, G.87, D.88, G.89, K.90, F.92 Ligands: MG.2 23 PLIP interactions: 10 interactions with chain A, 13 interactions with chain B Hydrogen bonds: A:V.64, A:V.64, B:Q.39, B:G.87, B:G.89 Water bridges: A:G.27, A:R.101, A:I.102, A:R.103, A:A.111, B:G.37, B:Q.39, B:E.44, B:K.58, B:D.88, B:K.90, B:K.90 Salt bridges: A:R.101, A:R.101, A:R.103, B:K.90, B:K.90 pi-Stacking: B:F.92 ATP.4: 21 residues within 4Å: Chain B: G.27, M.28, T.29, E.62, I.63, V.64, R.101, R.103 Chain C: I.7, G.35, F.36, G.37, Q.39, K.58, N.86, G.87, D.88, G.89, K.90, F.92 Ligands: MG.5 24 PLIP interactions: 13 interactions with chain C, 11 interactions with chain B Hydrogen bonds: C:Q.39, C:G.87, C:G.89, B:T.29, B:V.64, B:V.64 Water bridges: C:G.37, C:Q.39, C:E.44, C:K.58, C:D.88, C:K.90, C:K.90, B:G.27, B:R.101, B:I.102, B:R.103, B:A.111 Salt bridges: C:K.90, C:K.90, B:R.101, B:R.101, B:R.103 pi-Stacking: C:F.92 ATP.7: 21 residues within 4Å: Chain A: I.7, G.35, F.36, G.37, Q.39, K.58, N.86, G.87, D.88, G.89, K.90, F.92 Chain C: G.27, M.28, T.29, E.62, I.63, V.64, R.101, R.103 Ligands: MG.8 23 PLIP interactions: 13 interactions with chain A, 10 interactions with chain C Hydrogen bonds: A:Q.39, A:G.87, A:G.89, C:T.29, C:V.64, C:V.64 Water bridges: A:G.37, A:Q.39, A:K.58, A:D.88, A:K.90, A:K.90, A:K.90, C:G.27, C:R.101, C:I.102, C:R.103 Salt bridges: A:K.90, A:K.90, C:R.101, C:R.101, C:R.103 pi-Stacking: A:F.92

3 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain B: G.37, G.87 Ligands: ATP.1 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:G.37, H2O.9, H2O.13 MG.5: 3 residues within 4Å: Chain C: G.37, G.87 Ligands: ATP.4 3 PLIP interactions: 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:G.37, H2O.16, H2O.19 MG.8: 3 residues within 4Å: Chain A: G.37, G.87 Ligands: ATP.7 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:G.37, H2O.3, H2O.6

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 3 residues within 4Å: Chain A: R.82, T.83, G.84 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain B: R.82, T.83, G.84 Ligand excluded by PLIP CL.9: 3 residues within 4Å: Chain C: R.82, T.83, G.84 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fokina, O. et al., A Novel Signal Transduction Protein P(II) Variant from Synechococcus Elongatus Pcc 7942 Indicates a Two-Step Process for Nagk- P(II) Complex Formation. J.Mol.Biol. (2010)

Release Date

2010-08-18

Peptides

NITROGEN REGULATORY PROTEIN P-II: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

NITROGEN REGULATORY PROTEIN P-II