Sodium in PDB 2gig: Alteration of Sequence Specificity of the Type II Restriction Endonuclease Hincii Through An Indirect Readout Mechanism

All present enzymatic activity of Alteration of Sequence Specificity of the Type II Restriction Endonuclease Hincii Through An Indirect Readout Mechanism:
3.1.21.4;

The structure of Alteration of Sequence Specificity of the Type II Restriction Endonuclease Hincii Through An Indirect Readout Mechanism, PDB code: 2gig was solved by N.C.Horton, H.K.Joshi, C.Etzkorn, L.Chatwell, J.Bitinaite, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 1.83
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	50.420, 90.990, 67.330, 90.00, 104.10, 90.00
R / Rfree (%)	17.7 / 22

The binding sites of Sodium atom in the Alteration of Sequence Specificity of the Type II Restriction Endonuclease Hincii Through An Indirect Readout Mechanism (pdb code 2gig). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Alteration of Sequence Specificity of the Type II Restriction Endonuclease Hincii Through An Indirect Readout Mechanism, PDB code: 2gig:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Alteration of Sequence Specificity of the Type II Restriction Endonuclease Hincii Through An Indirect Readout Mechanism


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Alteration of Sequence Specificity of the Type II Restriction Endonuclease Hincii Through An Indirect Readout Mechanism within 5.0Å range: probe atom residue distance (Å) B Occ A:Na501 b:11.2 occ:1.00 OP1 F:DG8 2.2 18.0 1.0 O A:VAL128 2.3 23.9 1.0 O A:HOH568 2.4 26.4 1.0 OD1 A:ASP114 2.4 23.9 1.0 OP2 F:DA9 2.4 21.4 1.0 OD1 A:ASP127 2.5 28.7 1.0 O A:HOH605 2.6 34.8 1.0 CG A:ASP114 3.4 23.1 1.0 P F:DG8 3.4 20.7 1.0 C A:VAL128 3.5 21.9 1.0 OD2 A:ASP114 3.6 24.3 1.0 CG A:ASP127 3.6 30.4 1.0 P F:DA9 3.7 22.1 1.0 N A:VAL128 3.8 20.7 1.0 O5' F:DG8 3.9 19.1 1.0 O F:HOH29 3.9 20.2 1.0 OP2 F:DG8 4.0 20.1 1.0 O A:HOH686 4.1 53.0 1.0 NZ A:LYS129 4.1 22.5 1.0 CA A:VAL128 4.2 20.1 1.0 OP1 F:DA9 4.2 22.6 1.0 C5' F:DG8 4.2 21.7 1.0 OD2 A:ASP127 4.3 31.7 1.0 CE A:LYS129 4.4 24.8 1.0 C A:ASP127 4.4 23.0 1.0 O3' F:DG8 4.4 23.5 1.0 O A:HOH628 4.5 28.0 1.0 N A:LYS129 4.6 22.2 1.0 CB A:VAL128 4.6 21.2 1.0 CA A:ASP127 4.7 22.3 1.0 O3' F:DC7 4.7 20.3 1.0 CB A:ASP114 4.7 20.3 1.0 C3' F:DG8 4.8 24.9 1.0 CD A:LYS129 4.8 23.7 1.0 CB A:ASP127 4.8 24.7 1.0 CA A:LYS129 4.8 20.2 1.0 O5' F:DA9 4.9 22.6 1.0 C4' F:DG8 5.0 23.0 1.0

Sodium binding site 2 out of 2 in the Alteration of Sequence Specificity of the Type II Restriction Endonuclease Hincii Through An Indirect Readout Mechanism


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Alteration of Sequence Specificity of the Type II Restriction Endonuclease Hincii Through An Indirect Readout Mechanism within 5.0Å range: probe atom residue distance (Å) B Occ A:Na502 b:22.3 occ:1.00 O A:ILE142 2.2 17.2 1.0 O F:HOH21 2.4 19.7 1.0 OP2 F:DG8 2.4 20.1 1.0 O A:HOH571 2.4 21.5 1.0 OD2 A:ASP127 2.6 31.7 1.0 C A:ILE142 3.3 19.2 1.0 O A:HOH578 3.4 24.7 1.0 P F:DG8 3.6 20.7 1.0 CG A:ASP127 3.8 30.4 1.0 NZ A:LYS129 3.8 22.5 1.0 O F:HOH34 3.8 29.3 1.0 C3' F:DC7 3.8 20.7 1.0 O5' F:DC7 3.9 16.5 1.0 O3' F:DC7 3.9 20.3 1.0 CA A:ILE143 4.0 16.9 1.0 N A:ILE143 4.1 16.2 1.0 O A:HOH628 4.3 28.0 1.0 CE A:LYS129 4.3 24.8 1.0 OD1 A:ASP127 4.4 28.7 1.0 CA A:ILE142 4.4 18.3 1.0 C5' F:DC7 4.4 18.4 1.0 OP1 F:DG8 4.4 18.0 1.0 OP1 F:DC7 4.5 17.9 1.0 CB A:ILE143 4.5 18.1 1.0 O A:THR112 4.5 19.7 1.0 P F:DC7 4.6 17.8 1.0 OE1 A:GLN207 4.7 16.2 1.0 OP2 F:DC7 4.7 17.1 1.0 C4' F:DC7 4.7 20.0 1.0 O5' F:DG8 4.8 19.1 1.0 O A:ASN141 4.8 21.2 1.0 CG1 A:ILE143 4.8 16.3 1.0 CB A:ASP127 4.9 24.7 1.0 C2' F:DC7 4.9 22.8 1.0 CE1 A:TYR168 5.0 19.2 1.0 N A:ILE142 5.0 17.6 1.0

H.K.Joshi, C.Etzkorn, L.Chatwell, J.Bitinaite, N.C.Horton. Alteration of Sequence Specificity of the Type II Restriction Endonuclease Hincii Through An Indirect Readout Mechanism. J.Biol.Chem. V. 281 23852 2006.
ISSN: ISSN 0021-9258
PubMed: 16675462
DOI: 10.1074/JBC.M512339200