Nickel in PDB 4rtx: Crystal Structure of the Src Tyrosine Kinase SH3 Domain T96G/Q128R Mutant

All present enzymatic activity of Crystal Structure of the Src Tyrosine Kinase SH3 Domain T96G/Q128R Mutant:
2.7.10.2;

The structure of Crystal Structure of the Src Tyrosine Kinase SH3 Domain T96G/Q128R Mutant, PDB code: 4rtx was solved by A.Camara-Artigas, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.73 / 1.32
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	40.091, 49.966, 59.845, 90.00, 95.51, 90.00
R / Rfree (%)	17.1 / 20.7

The binding sites of Nickel atom in the Crystal Structure of the Src Tyrosine Kinase SH3 Domain T96G/Q128R Mutant (pdb code 4rtx). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total 4 binding sites of Nickel where determined in the Crystal Structure of the Src Tyrosine Kinase SH3 Domain T96G/Q128R Mutant, PDB code: 4rtx:
Jump to Nickel binding site number: 1; 2; 3; 4;

Nickel binding site 1 out of 4 in the Crystal Structure of the Src Tyrosine Kinase SH3 Domain T96G/Q128R Mutant


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Crystal Structure of the Src Tyrosine Kinase SH3 Domain T96G/Q128R Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni201 b:21.6 occ:1.00 ND1 A:HIS83 1.9 20.1 1.0 N A:HIS83 1.9 24.0 1.0 N A:SER82 2.0 15.4 1.0 N A:GLY81 2.0 21.9 1.0 C A:SER82 2.7 19.3 1.0 CE1 A:HIS83 2.8 20.2 1.0 CA A:SER82 2.8 19.4 1.0 C A:GLY81 2.8 19.7 1.0 CG A:HIS83 2.9 20.6 1.0 CA A:GLY81 3.0 19.6 1.0 CA A:HIS83 3.1 24.6 1.0 H A:MET84 3.2 25.1 1.0 CB A:HIS83 3.3 21.7 1.0 HA3 A:GLY81 3.5 23.5 1.0 HA A:SER82 3.5 23.3 1.0 HB2 A:SER82 3.7 25.9 1.0 HA2 A:GLY81 3.7 23.5 1.0 CB A:SER82 3.8 21.6 1.0 N A:MET84 3.8 20.9 1.0 C A:HIS83 3.9 25.5 1.0 O A:SER82 3.9 17.9 1.0 NE2 A:HIS83 3.9 20.6 1.0 HB3 A:SER82 4.0 25.9 1.0 O A:GLY81 4.0 22.3 1.0 CD2 A:HIS83 4.0 20.4 1.0 O A:ILE110 4.1 11.7 1.0 HG3 A:MET84 4.1 32.9 1.0 HH C:TYR131 4.6 12.2 1.0 HE1 A:MET84 4.6 39.7 1.0 HA A:VAL111 4.7 15.6 1.0 HB2 A:MET84 4.8 26.4 1.0 O A:HIS83 4.9 27.8 1.0 CG A:MET84 5.0 27.4 1.0 OG A:SER82 5.0 22.6 1.0

Nickel binding site 2 out of 4 in the Crystal Structure of the Src Tyrosine Kinase SH3 Domain T96G/Q128R Mutant


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 2 of Crystal Structure of the Src Tyrosine Kinase SH3 Domain T96G/Q128R Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Ni201 b:15.4 occ:1.00 N B:SER82 1.9 22.2 1.0 ND1 B:HIS83 1.9 16.9 1.0 N B:HIS83 1.9 18.5 1.0 N B:GLY81 1.9 20.6 1.0 C B:SER82 2.8 22.4 1.0 C B:GLY81 2.8 23.1 1.0 CA B:SER82 2.8 23.9 1.0 CG B:HIS83 2.9 16.9 1.0 CA B:GLY81 2.9 21.7 1.0 CE1 B:HIS83 2.9 17.8 1.0 CA B:HIS83 3.0 16.3 1.0 H B:MET84 3.1 19.2 1.0 HE1 B:HIS83 3.1 21.3 1.0 CB B:HIS83 3.2 16.6 1.0 HB3 B:HIS83 3.3 19.9 1.0 HA B:SER82 3.4 28.6 1.0 HA3 B:GLY81 3.5 26.1 1.0 HA2 B:GLY81 3.6 26.1 1.0 N B:MET84 3.6 16.0 1.0 HA B:HIS83 3.7 19.6 1.0 O B:HOH328 3.7 28.9 1.0 C B:HIS83 3.8 16.1 1.0 OG B:SER82 3.9 27.8 1.0 O B:GLY81 3.9 25.6 1.0 CB B:SER82 3.9 26.0 1.0 O B:SER82 4.0 25.2 1.0 O B:ILE110 4.0 15.3 1.0 NE2 B:HIS83 4.0 17.4 1.0 CD2 B:HIS83 4.0 18.0 1.0 HB2 B:HIS83 4.2 19.9 1.0 HB3 B:SER82 4.3 31.2 1.0 HG3 B:MET84 4.6 38.0 1.0 HB2 B:SER82 4.7 31.2 1.0 HG B:SER82 4.7 33.4 1.0 HE2 B:HIS83 4.8 20.9 1.0 HE3 B:MET84 4.8 46.4 1.0 HB2 B:MET84 4.8 29.5 1.0 O B:HIS83 4.9 19.0 1.0 HD2 B:HIS83 4.9 21.6 1.0 HH D:TYR131 4.9 19.4 1.0 CA B:MET84 5.0 17.4 1.0

Nickel binding site 3 out of 4 in the Crystal Structure of the Src Tyrosine Kinase SH3 Domain T96G/Q128R Mutant


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 3 of Crystal Structure of the Src Tyrosine Kinase SH3 Domain T96G/Q128R Mutant within 5.0Å range: probe atom residue distance (Å) B Occ C:Ni201 b:9.7 occ:1.00 N C:SER82 1.8 11.9 1.0 N C:HIS83 1.9 10.7 1.0 N C:GLY81 1.9 12.3 1.0 ND1 C:HIS83 1.9 10.5 1.0 C C:SER82 2.7 12.6 1.0 C C:GLY81 2.7 12.9 1.0 CA C:SER82 2.8 12.7 1.0 CA C:GLY81 2.8 13.2 1.0 CG C:HIS83 2.9 11.2 1.0 CE1 C:HIS83 2.9 11.3 1.0 CA C:HIS83 3.0 11.3 1.0 H C:MET84 3.0 14.9 1.0 HE1 C:HIS83 3.2 13.5 1.0 CB C:HIS83 3.2 10.6 1.0 HB3 C:HIS83 3.3 12.7 1.0 HA3 C:GLY81 3.4 15.8 1.0 HA C:SER82 3.4 15.2 1.0 HA2 C:GLY81 3.5 15.8 1.0 N C:MET84 3.6 12.4 1.0 HA C:HIS83 3.7 13.6 1.0 C C:HIS83 3.8 13.0 1.0 OG C:SER82 3.8 17.2 1.0 CB C:SER82 3.9 14.7 1.0 O C:SER82 3.9 13.7 1.0 O C:GLY81 3.9 13.0 1.0 O C:HOH328 4.0 20.6 1.0 NE2 C:HIS83 4.0 12.1 1.0 CD2 C:HIS83 4.1 12.3 1.0 O C:ILE110 4.1 10.8 1.0 HB2 C:HIS83 4.2 12.7 1.0 HB3 C:SER82 4.3 17.7 1.0 HG3 C:MET84 4.4 31.1 1.0 HB2 C:SER82 4.6 17.7 1.0 HG C:SER82 4.6 20.7 1.0 HB2 C:MET84 4.7 22.0 1.0 HE3 C:MET84 4.7 41.9 1.0 HH A:TYR131 4.8 13.1 1.0 HE2 C:HIS83 4.8 14.6 1.0 O C:HIS83 4.9 14.5 1.0 HD2 C:HIS83 4.9 14.7 1.0 CA C:MET84 4.9 12.5 1.0

Nickel binding site 4 out of 4 in the Crystal Structure of the Src Tyrosine Kinase SH3 Domain T96G/Q128R Mutant


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 4 of Crystal Structure of the Src Tyrosine Kinase SH3 Domain T96G/Q128R Mutant within 5.0Å range: probe atom residue distance (Å) B Occ D:Ni201 b:18.2 occ:1.00 N D:SER82 1.7 10.1 1.0 N D:HIS83 1.9 18.4 1.0 ND1 D:HIS83 1.9 21.3 1.0 N D:GLY81 1.9 18.1 1.0 C D:GLY81 2.6 17.2 1.0 C D:SER82 2.7 17.9 1.0 CA D:SER82 2.8 16.2 1.0 CA D:GLY81 2.8 18.2 1.0 H D:MET84 2.8 23.7 1.0 CG D:HIS83 2.9 21.0 1.0 CE1 D:HIS83 2.9 22.0 1.0 CA D:HIS83 3.0 20.6 1.0 HE1 D:HIS83 3.1 26.4 1.0 CB D:HIS83 3.2 21.0 1.0 HB3 D:HIS83 3.3 25.2 1.0 HA3 D:GLY81 3.4 21.9 1.0 HA D:SER82 3.4 19.5 1.0 HA2 D:GLY81 3.5 21.9 1.0 N D:MET84 3.5 19.8 1.0 HB2 D:SER82 3.6 24.3 1.0 C D:HIS83 3.7 20.8 1.0 HA D:HIS83 3.8 24.7 1.0 CB D:SER82 3.8 20.2 1.0 O D:GLY81 3.8 21.3 1.0 O D:ILE110 3.9 15.2 1.0 O D:SER82 3.9 20.3 1.0 NE2 D:HIS83 4.0 22.7 1.0 CD2 D:HIS83 4.0 22.1 1.0 HB2 D:HIS83 4.2 25.2 1.0 O D:HOH349 4.4 28.6 1.0 HB2 D:MET84 4.5 29.7 1.0 HB3 D:SER82 4.5 24.3 1.0 HG3 D:MET84 4.6 35.5 1.0 OG D:SER82 4.6 23.7 1.0 CA D:MET84 4.7 20.2 1.0 HE2 D:HIS83 4.8 27.2 1.0 HA D:VAL111 4.8 25.3 1.0 O D:MET84 4.9 18.3 1.0 HE1 D:MET84 4.9 42.2 1.0 HD2 D:HIS83 4.9 26.6 1.0 O D:HIS83 4.9 22.5 1.0 HB3 D:GLN109 4.9 20.9 1.0 HE2 D:MET84 4.9 42.2 1.0 CB D:MET84 5.0 24.8 1.0

A.Camara-Artigas, A.Camara-Artigas. N/A N/A.