Sodium in PDB 7a2k: Crystal Structure of the Fyn SH3 Domain in Space Group P1 at pH 7.5

All present enzymatic activity of Crystal Structure of the Fyn SH3 Domain in Space Group P1 at pH 7.5:
2.7.10.2;

The structure of Crystal Structure of the Fyn SH3 Domain in Space Group P1 at pH 7.5, PDB code: 7a2k was solved by A.Camara-Artigas, M.Plaza-Garrido, M.C.Salinas-Garcia, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.49 / 1.50
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	42.811, 43.337, 43.346, 65.27, 83.42, 83.39
R / Rfree (%)	20.2 / 23.6

The binding sites of Sodium atom in the Crystal Structure of the Fyn SH3 Domain in Space Group P1 at pH 7.5 (pdb code 7a2k). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Crystal Structure of the Fyn SH3 Domain in Space Group P1 at pH 7.5, PDB code: 7a2k:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in the Crystal Structure of the Fyn SH3 Domain in Space Group P1 at pH 7.5


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 Fyn SH3 Domain in Space Group P1 at pH 7.5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na201 b:65.1 occ:1.00 O A:HOH325 2.2 36.5 1.0 O A:VAL138 2.3 31.4 1.0 O A:HOH328 2.5 37.1 1.0 O A:SER135 2.5 33.5 1.0 HA A:ASN136 3.4 40.8 1.0 C A:VAL138 3.4 31.1 1.0 HA A:ALA139 3.6 38.0 1.0 H A:VAL138 3.6 36.2 1.0 HG23 A:VAL138 3.6 38.0 1.0 C A:SER135 3.7 33.2 1.0 HG22 A:VAL138 4.0 38.0 1.0 CA A:ASN136 4.2 33.7 1.0 N A:VAL138 4.2 30.0 1.0 HB2 A:SER135 4.2 42.3 1.0 CG2 A:VAL138 4.3 31.4 1.0 N A:ALA139 4.3 31.1 1.0 N A:ASN136 4.4 33.9 1.0 CA A:VAL138 4.4 31.4 1.0 CA A:ALA139 4.4 31.5 1.0 HD3 A:PRO140 4.5 43.6 1.0 C A:ASN136 4.5 33.0 1.0 HE2 A:PHE87 4.6 45.9 1.0 HD2 A:PHE87 4.7 44.1 1.0 CA A:SER135 4.7 33.1 1.0 HA A:SER135 4.7 40.0 1.0 O A:ASN136 4.8 34.6 1.0 HD11 A:LEU90 4.8 41.1 1.0 HB2 A:ALA139 4.9 38.1 1.0 CB A:SER135 4.9 35.0 1.0 CB A:VAL138 5.0 31.0 1.0 HH2 A:TRP120 5.0 45.4 1.0

Sodium binding site 2 out of 4 in the Crystal Structure of the Fyn SH3 Domain in Space Group P1 at pH 7.5


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 Fyn SH3 Domain in Space Group P1 at pH 7.5 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na201 b:62.9 occ:1.00 O B:HOH319 2.2 39.0 1.0 O B:VAL138 2.3 32.8 1.0 O B:HOH320 2.3 36.3 1.0 O B:SER135 2.7 34.1 1.0 C B:VAL138 3.4 32.3 1.0 HA B:ASN136 3.5 41.1 1.0 HA B:ALA139 3.5 38.1 1.0 H B:VAL138 3.7 37.4 1.0 HG23 B:VAL138 3.8 41.4 1.0 C B:SER135 3.9 33.2 1.0 HG22 B:VAL138 4.1 41.4 1.0 CA B:ASN136 4.2 34.1 1.0 N B:VAL138 4.3 30.9 1.0 N B:ALA139 4.3 32.8 1.0 CA B:ALA139 4.3 31.6 1.0 CG2 B:VAL138 4.4 34.3 1.0 CA B:VAL138 4.4 32.6 1.0 HB2 B:SER135 4.5 42.6 1.0 HD3 B:PRO140 4.5 42.2 1.0 N B:ASN136 4.5 32.3 1.0 HE2 B:PHE87 4.6 44.4 1.0 C B:ASN136 4.6 33.9 1.0 HD2 B:PHE87 4.7 43.9 1.0 HB2 B:ALA139 4.7 38.0 1.0 O B:ASN136 4.8 35.8 1.0 HD11 B:LEU90 4.8 39.2 1.0 CA B:SER135 4.9 34.4 1.0 HH2 B:TRP120 5.0 46.2 1.0 HA B:SER135 5.0 41.5 1.0

Sodium binding site 3 out of 4 in the Crystal Structure of the Fyn SH3 Domain in Space Group P1 at pH 7.5


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 Fyn SH3 Domain in Space Group P1 at pH 7.5 within 5.0Å range: probe atom residue distance (Å) B Occ C:Na201 b:73.4 occ:1.00 O C:SER135 2.8 41.3 1.0 O C:VAL138 3.2 39.5 1.0 HH2 C:TRP120 3.2 52.5 1.0 HB2 C:SER135 3.6 49.0 1.0 HA C:ASN136 3.6 45.3 1.0 CH2 C:TRP120 3.7 43.6 1.0 C C:SER135 3.7 40.1 1.0 HG23 C:VAL138 3.9 43.6 1.0 HZ3 C:TRP120 3.9 52.2 1.0 CZ3 C:TRP120 4.0 43.3 1.0 H C:VAL138 4.3 40.8 1.0 HA C:ALA139 4.3 46.3 1.0 C C:VAL138 4.3 37.6 1.0 CB C:SER135 4.3 40.6 1.0 HG22 C:VAL138 4.4 43.6 1.0 CA C:ASN136 4.4 37.6 1.0 CZ2 C:TRP120 4.4 42.9 1.0 N C:ASN136 4.4 38.4 1.0 CA C:SER135 4.5 39.3 1.0 O C:HOH331 4.5 53.9 1.0 CG2 C:VAL138 4.6 36.1 1.0 HA C:SER135 4.6 47.5 1.0 HZ2 C:TRP120 4.6 51.8 1.0 OG C:SER135 4.6 42.8 1.0 HD3 C:PRO140 4.7 49.0 1.0 HE1 C:PHE87 4.8 47.4 1.0 HG C:SER135 4.9 51.6 1.0 N C:VAL138 5.0 33.8 1.0 O C:HOH319 5.0 51.4 1.0 C C:ASN136 5.0 36.1 1.0

Sodium binding site 4 out of 4 in the Crystal Structure of the Fyn SH3 Domain in Space Group P1 at pH 7.5


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Crystal Structure of the Fyn SH3 Domain in Space Group P1 at pH 7.5 within 5.0Å range: probe atom residue distance (Å) B Occ D:Na201 b:76.5 occ:1.00 O D:HOH329 2.6 51.5 1.0 O D:THR130 2.6 33.3 1.0 O D:HOH321 2.8 52.7 1.0 O D:ASP100 2.9 38.2 1.0 O D:HOH325 3.2 56.5 1.0 HA D:LEU101 3.3 42.2 1.0 O D:GLU98 3.4 55.9 1.0 HA3 D:GLY131 3.5 41.6 1.0 C D:ASP100 3.7 36.8 1.0 C D:THR130 3.7 32.6 1.0 O D:HOH304 3.8 52.4 1.0 HB2 D:LEU101 3.9 42.1 1.0 HB3 D:GLU129 3.9 50.1 1.0 HD13 D:LEU101 4.0 43.8 1.0 CA D:LEU101 4.1 35.0 1.0 O D:HOH306 4.1 36.8 1.0 H D:THR130 4.1 39.0 1.0 HD12 D:LEU101 4.1 43.8 1.0 N D:LEU101 4.2 35.6 1.0 CA D:GLY131 4.3 34.4 1.0 C D:ASP99 4.3 42.7 1.0 O D:ASP99 4.3 43.5 1.0 O D:HOH330 4.4 40.9 1.0 C D:GLU98 4.4 54.3 1.0 HA2 D:GLY131 4.4 41.6 1.0 N D:GLY131 4.4 33.5 1.0 HA D:ASP99 4.5 56.2 1.0 CB D:LEU101 4.5 34.9 1.0 CD1 D:LEU101 4.5 36.3 1.0 N D:THR130 4.5 32.2 1.0 N D:ASP100 4.6 39.0 1.0 CA D:ASP100 4.7 38.1 1.0 OE2 D:GLU129 4.7 59.0 1.0 CA D:THR130 4.8 31.6 1.0 CA D:ASP99 4.8 46.6 1.0 CB D:GLU129 4.9 41.6 1.0 H D:ASP100 5.0 47.1 1.0 H D:LEU101 5.0 42.9 1.0

A.Camara-Artigas, M.Plaza-Garrido, M.C.Salinas-Garcia. Crystal Structure of the Fyn SH3 Domain in Space Group P1 at pH 7.5 To Be Published.