Sodium in PDB 7oa7: Pilc Minor Pilin of Streptococcus Sanguinis 2908 Type IV Pili

The structure of Pilc Minor Pilin of Streptococcus Sanguinis 2908 Type IV Pili, PDB code: 7oa7 was solved by D.Sheppard, V.Pelicic, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	83.56 / 1.45
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	96.481, 96.481, 85.078, 90, 90, 120
R / Rfree (%)	18.3 / 20.1

The structure of Pilc Minor Pilin of Streptococcus Sanguinis 2908 Type IV Pili also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Sodium atom in the Pilc Minor Pilin of Streptococcus Sanguinis 2908 Type IV Pili (pdb code 7oa7). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Pilc Minor Pilin of Streptococcus Sanguinis 2908 Type IV Pili, PDB code: 7oa7:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Pilc Minor Pilin of Streptococcus Sanguinis 2908 Type IV Pili


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Pilc Minor Pilin of Streptococcus Sanguinis 2908 Type IV Pili within 5.0Å range: probe atom residue distance (Å) B Occ A:Na402 b:82.6 occ:1.00 O A:HOH855 2.5 36.1 1.0 CD1 A:LEU157 2.7 23.1 1.0 CD A:PRO167 2.7 21.7 1.0 CE1 A:HIS173 2.8 23.9 1.0 CD2 A:LEU157 2.8 25.8 1.0 ND1 A:HIS173 2.9 21.9 1.0 O A:HOH792 3.0 23.5 1.0 CG A:PRO167 3.1 30.9 1.0 NE2 A:HIS173 3.2 22.1 1.0 CG A:LEU157 3.3 22.5 1.0 CG A:HIS173 3.4 17.9 1.0 CD2 A:HIS173 3.6 22.8 1.0 O A:HOH893 4.0 44.6 1.0 N A:PRO167 4.1 20.4 1.0 O A:HOH848 4.3 58.5 1.0 CB A:PRO167 4.4 25.4 1.0 CB A:HIS173 4.4 18.3 1.0 CB A:LEU157 4.4 20.9 1.0 OD1 A:ASN175 4.6 24.3 1.0 CG2 A:ILE166 4.7 21.5 1.0 ND2 A:ASN175 4.8 23.1 1.0 CA A:ILE166 4.8 20.1 1.0 O A:HOH780 4.8 49.8 1.0 C A:ILE166 5.0 19.9 1.0 CA A:PRO167 5.0 21.0 1.0

Sodium binding site 2 out of 3 in the Pilc Minor Pilin of Streptococcus Sanguinis 2908 Type IV Pili


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Pilc Minor Pilin of Streptococcus Sanguinis 2908 Type IV Pili within 5.0Å range: probe atom residue distance (Å) B Occ A:Na403 b:31.4 occ:1.00 OD2 A:ASP151 2.7 25.5 1.0 O A:HOH663 2.8 17.2 1.0 O A:HOH510 2.9 27.2 1.0 NE1 A:TRP136 3.1 17.6 1.0 O A:HOH653 3.2 22.8 1.0 SE A:MSE138 3.4 59.4 1.0 N A:GLY139 3.5 15.1 1.0 CA A:MSE138 3.6 14.7 1.0 CG A:ASP151 3.8 21.3 1.0 CD1 A:TRP136 3.9 16.0 1.0 CB A:MSE138 4.0 18.6 1.0 CB A:ASP151 4.1 18.7 1.0 C A:MSE138 4.1 16.0 1.0 CE2 A:TRP136 4.2 17.5 1.0 OH A:TYR365 4.3 18.5 1.0 CG A:MSE138 4.4 13.7 1.0 CE A:MSE138 4.5 24.3 1.0 CA A:GLY139 4.6 17.0 1.0 CZ2 A:TRP136 4.6 15.9 1.0 OE2 A:GLU346 4.7 18.8 1.0 CD1 A:LEU154 4.8 19.9 1.0 CE1 A:HIS149 4.8 16.9 1.0 N A:MSE138 4.8 15.6 1.0 OD1 A:ASP151 4.8 19.7 1.0 O A:HOH859 4.9 39.1 1.0

Sodium binding site 3 out of 3 in the Pilc Minor Pilin of Streptococcus Sanguinis 2908 Type IV Pili


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Pilc Minor Pilin of Streptococcus Sanguinis 2908 Type IV Pili within 5.0Å range: probe atom residue distance (Å) B Occ A:Na404 b:21.8 occ:1.00 O A:HOH589 2.1 52.8 1.0 O A:HOH878 2.3 58.3 1.0 O A:HOH796 2.4 51.8 1.0 O A:HOH629 2.5 67.3 1.0 O A:SER373 2.7 29.1 1.0 C A:SER373 3.0 28.9 1.0 O A:HOH806 4.2 59.5 1.0 N A:ARG57 4.3 21.3 1.0 O A:HOH539 4.5 28.8 1.0 CA A:SER373 4.5 24.3 1.0 CB A:ASP56 4.7 20.7 1.0 CB A:ARG57 4.8 22.9 1.0 OG A:SER373 4.8 34.0 1.0 N A:ALA58 4.9 21.4 1.0 CA A:ARG57 4.9 20.7 1.0

D.Sheppard, V.Pelicic. Structure of Pilc, Minor Pilin From Type IV Pili in Streptococcus Sanguinis 2908 To Be Published.