Sodium in PDB 4xgv: Crystal Structure of Escherichia Coli Flavin Trafficking Protein, An Fmn Transferase

All present enzymatic activity of Crystal Structure of Escherichia Coli Flavin Trafficking Protein, An Fmn Transferase:
2.7.1.180;

The structure of Crystal Structure of Escherichia Coli Flavin Trafficking Protein, An Fmn Transferase, PDB code: 4xgv was solved by D.R.Tomchick, C.A.Brautigam, R.K.Deka, M.V.Norgard, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	31.51 / 1.88
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	56.197, 70.645, 85.961, 75.70, 72.45, 69.28
R / Rfree (%)	16.3 / 20.1

The structure of Crystal Structure of Escherichia Coli Flavin Trafficking Protein, An Fmn Transferase also contains other interesting chemical elements:

Calcium

(Ca)

4 atoms

The binding sites of Sodium atom in the Crystal Structure of Escherichia Coli Flavin Trafficking Protein, An Fmn Transferase (pdb code 4xgv). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Escherichia Coli Flavin Trafficking Protein, An Fmn Transferase, PDB code: 4xgv:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Escherichia Coli Flavin Trafficking Protein, An Fmn Transferase


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Escherichia Coli Flavin Trafficking Protein, An Fmn Transferase within 5.0Å range: probe atom residue distance (Å) B Occ A:Na502 b:36.8 occ:1.00 O A:LYS134 2.3 33.0 1.0 O A:HOH746 2.4 47.8 1.0 O A:THR137 2.4 26.3 1.0 O A:HOH685 2.4 25.9 1.0 C A:LYS134 3.3 32.5 1.0 HA A:ALA135 3.4 51.4 1.0 H A:THR137 3.4 32.1 1.0 C A:THR137 3.5 25.6 1.0 HB3 A:LYS134 3.6 41.1 1.0 O A:HOH764 3.7 41.8 1.0 HE22 A:GLN140 3.7 34.0 1.0 HA3 A:GLY138 3.8 25.5 1.0 CA A:ALA135 4.0 42.8 1.0 N A:ALA135 4.0 39.4 1.0 OG1 A:THR137 4.1 21.7 1.0 N A:THR137 4.1 26.7 1.0 C A:ALA135 4.2 37.0 1.0 CA A:LYS134 4.3 30.5 1.0 NE2 A:GLN140 4.3 28.4 1.0 CA A:THR137 4.3 26.1 1.0 HA A:LYS134 4.4 36.6 1.0 N A:GLY138 4.4 25.4 1.0 CB A:LYS134 4.4 34.3 1.0 NE2 A:HIS141 4.4 30.1 1.0 O A:ALA135 4.4 39.1 1.0 CA A:GLY138 4.5 21.3 1.0 HA2 A:GLY138 4.6 25.5 1.0 HE21 A:GLN140 4.6 34.0 1.0 HG1 A:THR137 4.7 26.1 1.0 HD2 A:HIS141 4.7 32.2 1.0 N A:LYS136 4.8 29.0 1.0 H A:ALA135 4.8 47.3 1.0 CB A:THR137 4.9 24.2 1.0 H A:LYS136 4.9 34.8 1.0 CD2 A:HIS141 5.0 26.8 1.0 HB2 A:LYS134 5.0 41.1 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Escherichia Coli Flavin Trafficking Protein, An Fmn Transferase


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Escherichia Coli Flavin Trafficking Protein, An Fmn Transferase within 5.0Å range: probe atom residue distance (Å) B Occ C:Na502 b:31.6 occ:1.00 O C:LYS134 2.2 30.2 1.0 O C:HOH734 2.4 33.6 1.0 O C:THR137 2.4 24.6 1.0 O C:HOH712 2.4 28.4 1.0 O C:HOH755 2.4 30.7 1.0 HA C:ALA135 3.3 46.6 1.0 H C:THR137 3.3 27.6 1.0 C C:LYS134 3.4 34.1 1.0 C C:THR137 3.4 25.4 1.0 HG1 C:THR137 3.6 25.7 1.0 HE22 C:GLN140 3.6 28.6 1.0 HA3 C:GLY138 3.8 23.6 1.0 CA C:ALA135 3.9 38.9 1.0 O C:HOH761 3.9 34.2 1.0 OG1 C:THR137 4.0 21.4 1.0 N C:THR137 4.0 23.0 1.0 O C:HOH788 4.0 36.7 1.0 N C:ALA135 4.1 33.0 1.0 HB2 C:LYS134 4.1 65.7 1.0 C C:ALA135 4.1 36.8 1.0 HG3 C:LYS134 4.1 81.1 1.0 CA C:THR137 4.3 22.1 1.0 NE2 C:GLN140 4.3 23.9 1.0 O C:ALA135 4.3 37.5 1.0 NE2 C:HIS141 4.3 23.2 1.0 N C:GLY138 4.3 21.9 1.0 CA C:GLY138 4.4 19.6 1.0 CA C:LYS134 4.5 44.0 1.0 HA2 C:GLY138 4.6 23.6 1.0 HA C:LYS134 4.6 52.8 1.0 HE21 C:GLN140 4.6 28.6 1.0 CB C:LYS134 4.6 54.7 1.0 N C:LYS136 4.7 31.3 1.0 HD2 C:HIS141 4.7 26.6 1.0 CB C:THR137 4.8 21.8 1.0 CG C:LYS134 4.8 67.6 1.0 H C:ALA135 4.9 39.7 1.0 H C:LYS136 4.9 37.6 1.0 CD2 C:HIS141 4.9 22.1 1.0 HD3 C:LYS134 5.0 90.9 1.0

R.K.Deka, C.A.Brautigam, W.Z.Liu, D.R.Tomchick, M.V.Norgard. Molecular Insights Into the Enzymatic Diversity of Flavin-Trafficking Protein (Ftp; Formerly Apbe) in Flavoprotein Biogenesis in the Bacterial Periplasm. Microbiologyopen V. 5 21 2016.
ISSN: ESSN 2045-8827
PubMed: 26626129
DOI: 10.1002/MBO3.306