Sodium in PDB 4mtm: Crystal Structure of the Tail Fiber GP53 From Acinetobacter Baumannii Bacteriophage AP22

The structure of Crystal Structure of the Tail Fiber GP53 From Acinetobacter Baumannii Bacteriophage AP22, PDB code: 4mtm was solved by L.V.Sycheva, M.M.Shneider, P.G.Leiman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.72 / 1.37
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	51.200, 51.200, 302.030, 90.00, 90.00, 120.00
R / Rfree (%)	9.9 / 13.2

The structure of Crystal Structure of the Tail Fiber GP53 From Acinetobacter Baumannii Bacteriophage AP22 also contains other interesting chemical elements:

Bromine

(Br)

20 atoms

The binding sites of Sodium atom in the Crystal Structure of the Tail Fiber GP53 From Acinetobacter Baumannii Bacteriophage AP22 (pdb code 4mtm). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Crystal Structure of the Tail Fiber GP53 From Acinetobacter Baumannii Bacteriophage AP22, PDB code: 4mtm:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Crystal Structure of the Tail Fiber GP53 From Acinetobacter Baumannii Bacteriophage AP22


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 the Tail Fiber GP53 From Acinetobacter Baumannii Bacteriophage AP22 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na322 b:11.8 occ:0.85 HG1 A:THR142 2.3 17.3 1.0 HG1 A:THR141 2.3 12.0 1.0 O A:HOH534 2.3 17.2 1.0 OG1 A:THR141 2.4 10.0 1.0 OG1 A:THR142 2.4 14.4 1.0 HG1 A:THR139 3.3 12.4 1.0 HB A:THR142 3.3 16.6 1.0 CB A:THR142 3.4 13.9 1.0 HB A:THR141 3.5 10.8 1.0 CB A:THR141 3.5 9.0 1.0 N A:THR142 3.9 10.0 1.0 C A:THR141 3.9 8.7 1.0 OG1 A:THR139 4.0 10.4 1.0 H A:THR142 4.1 12.0 1.0 O A:HOH511 4.2 36.5 1.0 CA A:THR142 4.2 10.6 1.0 O A:THR141 4.2 11.6 1.0 CA A:THR141 4.3 8.1 1.0 H A:THR141 4.5 9.7 1.0 HA A:THR142 4.5 12.7 1.0 HG21 A:THR142 4.6 17.4 1.0 HG21 A:THR141 4.6 11.0 1.0 O A:HOH514 4.6 21.1 0.8 CG2 A:THR142 4.6 14.5 1.0 CG2 A:THR141 4.6 9.2 1.0 N A:THR141 4.9 8.1 1.0 HG21 A:THR139 4.9 15.1 1.0 HG23 A:THR141 5.0 11.0 1.0 HG23 A:THR142 5.0 17.4 1.0

Sodium binding site 2 out of 3 in the Crystal Structure of the Tail Fiber GP53 From Acinetobacter Baumannii Bacteriophage AP22


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 the Tail Fiber GP53 From Acinetobacter Baumannii Bacteriophage AP22 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na323 b:14.6 occ:0.70 O A:HOH474 2.2 25.8 1.0 O A:ALA138 2.4 12.3 1.0 O A:GLY158 2.4 11.8 1.0 O A:HOH470 2.5 16.2 0.7 O A:HOH463 2.5 17.8 0.7 HG22 A:THR137 2.7 45.1 1.0 HA3 A:GLY158 3.3 8.3 1.0 C A:GLY158 3.4 8.2 1.0 CG2 A:THR137 3.4 37.6 1.0 HG23 A:THR137 3.4 45.1 1.0 HG21 A:THR137 3.5 45.1 1.0 C A:ALA138 3.5 9.9 1.0 HB3 A:ALA138 3.6 11.6 1.0 HA2 A:GLY158 3.6 8.3 1.0 CA A:GLY158 3.7 6.9 1.0 O A:HOH518 3.7 40.2 1.0 O A:HOH419 4.0 12.1 1.0 H A:ALA138 4.0 13.0 1.0 N A:ALA138 4.1 10.8 1.0 CA A:ALA138 4.2 9.8 1.0 HG22 A:THR139 4.2 15.1 1.0 HA A:THR139 4.2 13.1 1.0 CB A:ALA138 4.3 9.7 1.0 N A:SER159 4.6 6.4 1.0 N A:THR139 4.6 9.6 1.0 HA A:SER159 4.7 7.0 1.0 O A:HOH459 4.7 19.2 0.9 HA A:THR146 4.7 8.0 1.0 C A:THR137 4.7 15.7 1.0 HB1 A:ALA138 4.7 11.6 1.0 O A:ILE145 4.8 8.4 1.0 CB A:THR137 4.8 31.5 1.0 BR A:BR313 4.8 49.4 0.5 HG23 A:THR139 4.8 15.1 1.0 CA A:THR139 4.9 10.9 1.0 HB A:THR146 4.9 9.3 1.0 CG2 A:THR139 5.0 12.6 1.0 OG1 A:THR146 5.0 11.1 1.0

Sodium binding site 3 out of 3 in the Crystal Structure of the Tail Fiber GP53 From Acinetobacter Baumannii Bacteriophage AP22


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of the Tail Fiber GP53 From Acinetobacter Baumannii Bacteriophage AP22 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na324 b:51.6 occ:0.33 O A:HOH453 2.4 16.9 0.9 O A:HOH502 2.4 17.4 0.3 O A:GLY223 3.4 6.7 1.0 HD21 A:ASN224 3.5 10.1 1.0 OD1 A:ASN224 3.6 7.7 1.0 ND2 A:ASN224 3.9 8.4 1.0 CG A:ASN224 4.0 7.6 1.0 H A:GLY223 4.2 7.5 1.0 O A:HOH526 4.2 16.4 1.0 HA A:ASN224 4.4 7.5 1.0 C A:GLY223 4.4 6.0 1.0 HD22 A:ASN224 4.4 10.1 1.0 HB A:ILE235 4.9 9.1 1.0 N A:GLY223 5.0 6.3 1.0

L.V.Sycheva, M.M.Shneider, A.V.Popova, R.K.Ziganshin, K.A.Miroshnikov, P.G.Leiman. Crystal Structure of the Tail Fiber GP53 From Acinetobacter Baumannii Bacteriophage AP22 To Be Published.