Sodium in PDB 7dcu: Crystal Structure of HSF2 Dna-Binding Domain in Complex with 3-Site Hse Dna (21 Bp)

The structure of Crystal Structure of HSF2 Dna-Binding Domain in Complex with 3-Site Hse Dna (21 Bp), PDB code: 7dcu was solved by F.Na, L.Wei, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	69.83 / 1.75
Space group	P 2 21 21
Cell size a, b, c (Å), α, β, γ (°)	46.64, 67.06, 139.65, 90, 90, 90
R / Rfree (%)	17.2 / 20.5

The binding sites of Sodium atom in the Crystal Structure of HSF2 Dna-Binding Domain in Complex with 3-Site Hse Dna (21 Bp) (pdb code 7dcu). 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 HSF2 Dna-Binding Domain in Complex with 3-Site Hse Dna (21 Bp), PDB code: 7dcu:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Crystal Structure of HSF2 Dna-Binding Domain in Complex with 3-Site Hse Dna (21 Bp)


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 HSF2 Dna-Binding Domain in Complex with 3-Site Hse Dna (21 Bp) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na201 b:18.9 occ:0.54 OD1 A:ASN24 2.3 35.9 1.0 O A:LEU17 2.4 20.3 1.0 O A:GLU20 2.4 33.2 1.0 OG1 A:THR23 2.6 26.9 1.0 O A:VAL18 2.6 25.3 1.0 O A:ILE27 2.6 26.3 1.0 C A:VAL18 3.2 23.2 1.0 CG A:ASN24 3.4 35.0 1.0 N A:ASN24 3.4 32.7 1.0 C A:LEU17 3.5 21.1 1.0 C A:GLU20 3.5 35.8 1.0 C A:THR23 3.6 29.9 1.0 CA A:VAL18 3.7 19.9 1.0 CA A:ASN24 3.7 32.2 1.0 N A:GLU20 3.7 34.5 1.0 CB A:THR23 3.7 29.0 1.0 C A:ILE27 3.8 25.7 1.0 O A:THR23 3.9 29.0 1.0 N A:GLU19 4.0 22.0 1.0 N A:VAL18 4.1 17.5 1.0 C A:GLU19 4.1 27.1 1.0 CA A:THR23 4.1 29.8 1.0 O A:HOH324 4.1 21.8 1.0 CB A:ASN24 4.1 33.4 1.0 CA A:GLU20 4.2 37.5 1.0 CA A:THR28 4.3 24.6 1.0 ND2 A:ASN24 4.4 34.9 1.0 N A:THR23 4.4 32.5 1.0 N A:THR28 4.5 24.1 1.0 CG2 A:ILE27 4.5 23.8 1.0 CA A:GLU19 4.6 26.6 1.0 O A:GLU19 4.6 28.1 1.0 N A:THR21 4.6 33.2 1.0 O A:THR16 4.7 22.3 1.0 CB A:THR28 4.7 27.1 1.0 CA A:LEU17 4.8 19.0 1.0 CB A:GLU20 4.8 47.3 1.0 CA A:THR21 4.8 34.6 1.0 CA A:ILE27 4.9 23.5 1.0 OG1 A:THR28 4.9 30.3 1.0 C A:THR21 5.0 32.9 1.0 CG2 A:THR23 5.0 30.5 1.0

Sodium binding site 2 out of 3 in the Crystal Structure of HSF2 Dna-Binding Domain in Complex with 3-Site Hse Dna (21 Bp)


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 HSF2 Dna-Binding Domain in Complex with 3-Site Hse Dna (21 Bp) within 5.0Å range: probe atom residue distance (Å) B Occ B:Na201 b:23.2 occ:1.00 O B:GLU20 2.3 32.3 1.0 OG1 B:THR23 2.4 27.6 1.0 O B:ILE27 2.5 22.5 1.0 OD1 B:ASN24 2.5 23.6 1.0 O B:VAL18 2.5 22.7 1.0 O B:LEU17 2.6 24.7 1.0 C B:VAL18 3.2 22.8 1.0 C B:GLU20 3.5 34.1 1.0 CG B:ASN24 3.6 26.3 1.0 C B:ILE27 3.6 20.1 1.0 CB B:THR23 3.7 25.2 1.0 N B:ASN24 3.8 26.0 1.0 CA B:VAL18 3.8 20.0 1.0 C B:LEU17 3.8 24.1 1.0 C B:THR23 3.8 24.4 1.0 N B:GLU20 3.8 30.3 1.0 CA B:ASN24 3.9 26.4 1.0 O B:HOH349 4.0 23.9 1.0 CA B:THR28 4.0 19.8 1.0 C B:GLU19 4.1 28.1 1.0 N B:GLU19 4.1 22.6 1.0 CA B:GLU20 4.1 35.5 1.0 CA B:THR23 4.1 24.4 1.0 O B:THR23 4.2 23.3 1.0 N B:VAL18 4.2 19.8 1.0 N B:THR28 4.3 19.1 1.0 N B:THR23 4.3 26.6 1.0 CB B:ASN24 4.4 25.3 1.0 O B:GLU19 4.4 27.6 1.0 N B:THR21 4.5 32.0 1.0 CG2 B:ILE27 4.5 20.0 1.0 CB B:GLU20 4.6 43.8 1.0 ND2 B:ASN24 4.6 25.3 1.0 CA B:GLU19 4.6 26.1 1.0 CB B:THR28 4.6 22.9 1.0 CA B:THR21 4.7 32.5 1.0 CA B:ILE27 4.8 19.0 1.0 C B:THR21 4.8 33.0 1.0 O B:THR21 4.9 33.0 1.0 CG2 B:THR23 4.9 26.3 1.0

Sodium binding site 3 out of 3 in the Crystal Structure of HSF2 Dna-Binding Domain in Complex with 3-Site Hse Dna (21 Bp)


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 HSF2 Dna-Binding Domain in Complex with 3-Site Hse Dna (21 Bp) within 5.0Å range: probe atom residue distance (Å) B Occ C:Na201 b:38.6 occ:1.00 OD1 C:ASN24 2.4 51.2 1.0 O C:GLU20 2.4 53.8 1.0 O C:ILE27 2.4 32.8 1.0 OG1 C:THR23 2.6 39.3 1.0 O C:LEU17 2.7 31.5 1.0 O C:VAL18 2.7 38.4 1.0 C C:VAL18 3.4 36.2 1.0 CG C:ASN24 3.5 51.9 1.0 N C:ASN24 3.5 49.1 1.0 C C:ILE27 3.6 30.1 1.0 C C:THR23 3.6 47.7 1.0 CA C:ASN24 3.6 49.6 1.0 C C:GLU20 3.6 54.8 1.0 CB C:THR23 3.8 44.5 1.0 CA C:VAL18 3.8 30.6 1.0 C C:LEU17 3.8 31.9 1.0 O C:THR23 4.0 45.0 1.0 CA C:THR28 4.0 30.5 1.0 CA C:THR23 4.1 48.3 1.0 O C:HOH315 4.1 35.1 1.0 CB C:ASN24 4.1 51.7 1.0 N C:GLU20 4.1 51.2 1.0 N C:THR28 4.2 30.8 1.0 CG2 C:ILE27 4.3 29.5 1.0 C C:GLU19 4.3 42.7 1.0 N C:VAL18 4.3 28.9 1.0 N C:GLU19 4.3 37.9 1.0 N C:THR23 4.3 52.4 1.0 CA C:GLU20 4.4 54.7 1.0 ND2 C:ASN24 4.5 51.6 1.0 O C:GLU19 4.6 40.6 1.0 CB C:THR28 4.6 34.8 1.0 N C:THR21 4.6 55.3 1.0 CA C:THR21 4.7 55.9 1.0 CA C:ILE27 4.7 29.6 1.0 CA C:GLU19 4.8 42.9 1.0 C C:THR21 4.9 56.6 1.0 CB C:GLU20 4.9 57.7 1.0 O C:THR21 4.9 56.4 1.0 OG1 C:THR28 4.9 35.1 1.0 C C:ASN24 4.9 48.7 1.0 CB C:ILE27 5.0 29.9 1.0

F.Na, L.Wei. Crystal Structure of HSF2 Dna-Binding Domain in Complex with 3-Site Hse Dna (21 Bp) To Be Published.