Sodium in PDB 6riv: Crystal Structure of Alopecurus Myosuroides Gstf

All present enzymatic activity of Crystal Structure of Alopecurus Myosuroides Gstf:
2.5.1.18;

The structure of Crystal Structure of Alopecurus Myosuroides Gstf, PDB code: 6riv was solved by A.C.Papageorgiou, N.Poudel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.20 / 1.33
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	50.289, 50.708, 51.603, 97.74, 110.24, 110.96
R / Rfree (%)	13.1 / 16.3

The binding sites of Sodium atom in the Crystal Structure of Alopecurus Myosuroides Gstf (pdb code 6riv). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 6 binding sites of Sodium where determined in the Crystal Structure of Alopecurus Myosuroides Gstf, PDB code: 6riv:
Jump to Sodium binding site number: 1; 2; 3; 4; 5; 6;

Sodium binding site 1 out of 6 in the Crystal Structure of Alopecurus Myosuroides Gstf


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 Alopecurus Myosuroides Gstf within 5.0Å range: probe atom residue distance (Å) B Occ B:Na504 b:32.3 occ:1.00 O B:HOH650 2.8 33.3 1.0 N B:ASN33 3.0 20.9 1.0 CA B:VAL32 3.6 19.9 1.0 O B:VAL31 3.8 22.5 1.0 C B:VAL32 3.8 18.7 1.0 CB B:ASN33 3.8 24.6 1.0 O B:HOH686 3.9 31.6 1.0 CA B:ASN33 4.0 22.2 1.0 CG1 B:VAL32 4.3 21.3 1.0 CB B:VAL32 4.5 21.1 1.0 N B:VAL32 4.6 19.5 1.0 C B:VAL31 4.6 18.4 1.0 O B:HOH752 4.8 37.9 1.0 O B:ASN33 4.8 27.4 1.0 C B:ASN33 4.9 24.6 1.0

Sodium binding site 2 out of 6 in the Crystal Structure of Alopecurus Myosuroides Gstf


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 Alopecurus Myosuroides Gstf within 5.0Å range: probe atom residue distance (Å) B Occ B:Na505 b:38.0 occ:1.00 O B:HOH638 2.3 28.3 1.0 OE2 B:GLU89 2.7 33.1 1.0 O B:HOH679 2.9 21.4 1.0 NH2 A:ARG77 3.3 20.1 1.0 NH2 B:ARG77 3.5 19.2 1.0 CD B:GLU89 3.6 29.1 1.0 CD2 B:LEU87 3.7 15.6 1.0 CD1 B:LEU87 3.8 16.1 1.0 CG B:GLU89 3.8 23.2 1.0 OD1 B:ASP99 3.9 17.8 1.0 CB B:LEU87 3.9 14.0 1.0 CD B:LYS73 4.0 16.4 1.0 CG B:LEU87 4.0 14.7 1.0 O A:HOH617 4.2 28.0 1.0 OE2 A:GLU89 4.4 34.2 1.0 CZ A:ARG77 4.4 17.8 1.0 CZ B:ARG77 4.5 18.1 1.0 O B:HOH695 4.7 23.6 1.0 O A:HOH603 4.7 31.8 1.0 NE B:ARG77 4.7 18.6 1.0 OE1 B:GLU89 4.7 37.6 1.0 CG B:LYS73 4.7 14.3 1.0 OD2 B:ASP99 4.8 16.4 1.0 CG B:ASP99 4.8 15.0 1.0 NH1 A:ARG77 4.9 17.5 1.0 O B:LEU87 4.9 15.5 1.0 CA B:LEU87 5.0 14.0 1.0

Sodium binding site 3 out of 6 in the Crystal Structure of Alopecurus Myosuroides Gstf


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 Alopecurus Myosuroides Gstf within 5.0Å range: probe atom residue distance (Å) B Occ B:Na506 b:36.9 occ:1.00 O B:HOH710 2.5 25.4 1.0 O B:HOH786 2.8 25.1 1.0 NH1 B:ARG153 3.1 19.6 1.0 O B:HOH742 3.4 23.5 1.0 O A:HOH802 3.5 26.8 1.0 CD B:ARG153 3.5 15.2 1.0 CD B:LYS156 3.7 23.5 1.0 CE B:LYS156 3.9 21.3 1.0 CZ B:ARG153 4.0 16.5 1.0 NZ B:LYS156 4.0 23.8 1.0 NE B:ARG153 4.2 15.8 1.0 O B:HOH734 4.5 19.4 1.0 CA B:ARG153 4.8 14.2 1.0 CG B:ARG153 4.8 14.2 1.0 CG B:LYS156 4.9 22.3 1.0 CB B:ARG153 4.9 13.7 1.0

Sodium binding site 4 out of 6 in the Crystal Structure of Alopecurus Myosuroides Gstf


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 Alopecurus Myosuroides Gstf within 5.0Å range: probe atom residue distance (Å) B Occ A:Na503 b:33.0 occ:1.00 O A:HOH704 2.7 24.1 1.0 O A:HOH683 2.8 21.6 1.0 O A:HOH708 3.2 24.7 1.0 CB A:ALA211 4.0 15.8 1.0 CG A:LYS208 4.1 16.9 1.0 CE A:MET202 4.1 26.3 1.0 CA A:LYS208 4.2 15.5 1.0 CB A:LYS208 4.4 16.7 1.0 NZ A:LYS208 4.6 26.8 1.0 NA A:NA504 4.6 31.4 1.0 O A:HOH769 4.6 39.9 1.0 O A:LYS208 4.6 16.5 1.0 O A:MET202 4.7 17.6 1.0 CD A:LYS208 4.8 21.2 1.0 C A:LYS208 4.9 15.2 1.0

Sodium binding site 5 out of 6 in the Crystal Structure of Alopecurus Myosuroides Gstf


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of Crystal Structure of Alopecurus Myosuroides Gstf within 5.0Å range: probe atom residue distance (Å) B Occ A:Na504 b:31.4 occ:1.00 O A:HOH825 2.8 22.9 1.0 CE A:MET202 3.8 26.3 1.0 O A:HOH804 4.0 32.9 1.0 CE1 A:PHE177 4.2 18.2 1.0 O A:HOH834 4.3 35.9 1.0 O A:HOH818 4.5 32.0 1.0 NA A:NA503 4.6 33.0 1.0 CZ A:PHE177 4.6 19.5 1.0 O A:HOH716 4.6 19.6 1.0 O A:HOH769 4.7 39.9 1.0 O A:HOH756 4.7 21.9 1.0

Sodium binding site 6 out of 6 in the Crystal Structure of Alopecurus Myosuroides Gstf


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 6 of Crystal Structure of Alopecurus Myosuroides Gstf within 5.0Å range: probe atom residue distance (Å) B Occ A:Na505 b:36.5 occ:1.00 O A:HOH790 2.8 31.7 1.0 O A:HOH840 2.8 33.9 1.0 CD A:LYS208 4.1 21.2 1.0 O A:HOH823 4.2 25.1 1.0 CB A:LYS208 4.2 16.7 1.0 O A:HOH838 4.4 29.0 1.0 O A:HOH704 4.5 24.1 1.0 O A:HOH687 4.6 23.4 1.0 O A:HOH816 4.6 32.4 1.0 CG A:LYS208 4.7 16.9 1.0 O A:HOH809 4.9 32.8 1.0 O A:HOH708 4.9 24.7 1.0

N.Georgakis, N.Poudel, A.C.Papageorgiou, N.E.Labrou. Comparative Structural and Functional Analysis of Phi Class Glutathione Transferases Involved in Multiple-Herbicide Resistance of Grass Weeds and Crops. Plant Physiol Biochem. V. 149 266 2020.
ISSN: ESSN 1873-2690
PubMed: 32088578
DOI: 10.1016/J.PLAPHY.2020.02.012