Arsenic in PDB 8hmn: Crystal Structure of Gapdh Complexed with Arsenate From Lactiplantibacillus Plantarum

The structure of Crystal Structure of Gapdh Complexed with Arsenate From Lactiplantibacillus Plantarum, PDB code: 8hmn was solved by K.Yoneda, H.Kinoshita, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.59 / 2.16
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	77.85, 123.964, 132.859, 90, 90, 90
R / Rfree (%)	21.6 / 26.1

The binding sites of Arsenic atom in the Crystal Structure of Gapdh Complexed with Arsenate From Lactiplantibacillus Plantarum (pdb code 8hmn). This binding sites where shown within 5.0 Angstroms radius around Arsenic atom.
In total 4 binding sites of Arsenic where determined in the Crystal Structure of Gapdh Complexed with Arsenate From Lactiplantibacillus Plantarum, PDB code: 8hmn:
Jump to Arsenic binding site number: 1; 2; 3; 4;

Arsenic binding site 1 out of 4 in the Crystal Structure of Gapdh Complexed with Arsenate From Lactiplantibacillus Plantarum


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 1 of Crystal Structure of Gapdh Complexed with Arsenate From Lactiplantibacillus Plantarum within 5.0Å range: probe atom residue distance (Å) B Occ A:As401 b:36.6 occ:1.00 AS A:ART401 0.0 36.6 1.0 O4 A:ART401 1.7 34.4 1.0 O2 A:ART401 1.7 43.1 1.0 O1 A:ART401 1.7 35.1 1.0 O3 A:ART401 1.8 38.3 1.0 O2D A:NAD400 3.4 23.2 1.0 OG1 A:THR186 3.6 18.7 1.0 O A:HOH505 3.8 31.5 1.0 O A:HOH548 3.8 23.8 1.0 OG1 A:THR188 3.9 27.4 1.0 C2D A:NAD400 4.0 24.6 1.0 CB A:THR186 4.2 19.5 1.0 CG2 A:THR188 4.2 27.6 1.0 NH2 A:ARG239 4.2 24.7 1.0 O A:HOH645 4.2 39.1 1.0 CG2 A:THR186 4.4 19.4 1.0 C2N A:NAD400 4.7 26.9 1.0 CB A:THR188 4.7 25.9 1.0 NH1 A:ARG239 4.9 24.1 1.0

Arsenic binding site 2 out of 4 in the Crystal Structure of Gapdh Complexed with Arsenate From Lactiplantibacillus Plantarum


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 2 of Crystal Structure of Gapdh Complexed with Arsenate From Lactiplantibacillus Plantarum within 5.0Å range: probe atom residue distance (Å) B Occ B:As401 b:42.1 occ:1.00 AS B:ART401 0.0 42.1 1.0 O4 B:ART401 1.7 40.9 1.0 O2 B:ART401 1.7 45.2 1.0 O3 B:ART401 1.8 46.1 1.0 O1 B:ART401 1.8 46.6 1.0 O2D B:NAD400 3.5 25.0 1.0 OG1 B:THR186 3.7 25.2 1.0 OG1 B:THR188 4.0 21.9 1.0 O B:HOH563 4.0 29.3 1.0 C2D B:NAD400 4.1 28.5 1.0 CB B:THR186 4.1 25.7 1.0 NH2 B:ARG239 4.3 33.9 1.0 CG2 B:THR188 4.3 24.1 1.0 CG2 B:THR186 4.4 27.4 1.0 C2N B:NAD400 4.5 34.4 1.0 CB B:THR188 4.8 23.9 1.0 N1N B:NAD400 4.9 36.7 1.0

Arsenic binding site 3 out of 4 in the Crystal Structure of Gapdh Complexed with Arsenate From Lactiplantibacillus Plantarum


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 3 of Crystal Structure of Gapdh Complexed with Arsenate From Lactiplantibacillus Plantarum within 5.0Å range: probe atom residue distance (Å) B Occ C:As401 b:36.6 occ:1.00 AS C:ART401 0.0 36.6 1.0 O2 C:ART401 1.7 45.9 1.0 O1 C:ART401 1.7 41.6 1.0 O4 C:ART401 1.8 39.6 1.0 O3 C:ART401 1.8 42.2 1.0 O2D C:NAD400 3.5 23.4 1.0 OG1 C:THR186 3.6 23.8 1.0 OG1 C:THR188 3.9 31.7 1.0 CB C:THR186 4.1 20.7 1.0 O C:HOH592 4.1 33.2 1.0 C2D C:NAD400 4.1 26.7 1.0 NH2 C:ARG239 4.2 25.1 1.0 CG2 C:THR188 4.3 30.9 1.0 CG2 C:THR186 4.3 19.8 1.0 CB C:THR188 4.8 30.5 1.0 C2N C:NAD400 4.8 31.9 1.0 NH1 C:ARG239 4.9 20.8 1.0

Arsenic binding site 4 out of 4 in the Crystal Structure of Gapdh Complexed with Arsenate From Lactiplantibacillus Plantarum


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 4 of Crystal Structure of Gapdh Complexed with Arsenate From Lactiplantibacillus Plantarum within 5.0Å range: probe atom residue distance (Å) B Occ D:As401 b:33.2 occ:1.00 AS D:ART401 0.0 33.2 1.0 O4 D:ART401 1.7 33.4 1.0 O1 D:ART401 1.7 29.9 1.0 O2 D:ART401 1.7 32.7 1.0 O3 D:ART401 1.8 34.1 1.0 O2D D:NAD400 3.5 20.4 1.0 O D:HOH508 3.6 31.0 1.0 OG1 D:THR186 3.6 22.5 1.0 OG1 D:THR188 3.8 20.3 1.0 O D:HOH610 3.8 21.9 1.0 CB D:THR186 4.1 22.5 1.0 C2D D:NAD400 4.2 21.6 1.0 CG2 D:THR188 4.2 24.8 1.0 NH2 D:ARG239 4.2 23.7 1.0 O D:HOH654 4.2 35.0 1.0 CG2 D:THR186 4.5 23.1 1.0 O D:HOH505 4.5 45.7 1.0 CB D:THR188 4.7 24.0 1.0 C2N D:NAD400 4.7 25.1 1.0 NH1 D:ARG239 4.9 23.9 1.0

K.Yoneda, H.Kinoshita. Crystal Structure of Gapdh Complexed with Arsenate From Lactiplantibacillus Plantarum To Be Published.