Arsenic in PDB 3h6n: Crystal Structure of the Ubiquitin-Like Domain of Plexin D1

The structure of Crystal Structure of the Ubiquitin-Like Domain of Plexin D1, PDB code: 3h6n was solved by Y.Tong, L.Nedyalkova, W.Tempel, F.Mackenzie, C.H.Arrowsmith, A.M.Edwards, C.Bountra, J.Weigelt, A.Bochkarev, M.Buck, H.Park, Structural Genomicsconsortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 2.00
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	81.777, 27.051, 52.653, 90.00, 114.06, 90.00
R / Rfree (%)	24.3 / 27.6

The binding sites of Arsenic atom in the Crystal Structure of the Ubiquitin-Like Domain of Plexin D1 (pdb code 3h6n). This binding sites where shown within 5.0 Angstroms radius around Arsenic atom.
In total 2 binding sites of Arsenic where determined in the Crystal Structure of the Ubiquitin-Like Domain of Plexin D1, PDB code: 3h6n:
Jump to Arsenic binding site number: 1; 2;

Arsenic binding site 1 out of 2 in the Crystal Structure of the Ubiquitin-Like Domain of Plexin D1


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 the Ubiquitin-Like Domain of Plexin D1 within 5.0Å range: probe atom residue distance (Å) B Occ A:As1 b:38.0 occ:1.00 SG A:CYS1592 2.3 27.1 1.0 CB A:CYS1592 3.1 26.9 1.0 CA A:CYS1592 3.5 28.0 1.0 O A:PHE1591 4.1 29.4 1.0 N A:CYS1592 4.1 27.8 1.0 CG2 A:VAL1595 4.2 33.7 1.0 C A:PHE1591 4.3 29.1 1.0 CB A:VAL1595 4.6 32.5 1.0 O A:HOH7 4.6 29.8 1.0 C A:CYS1592 4.7 30.8 1.0 CD A:PRO1601 4.7 27.2 1.0 CG1 A:VAL1595 4.9 33.1 1.0 O A:CYS1592 5.0 30.9 1.0

Arsenic binding site 2 out of 2 in the Crystal Structure of the Ubiquitin-Like Domain of Plexin D1


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 the Ubiquitin-Like Domain of Plexin D1 within 5.0Å range: probe atom residue distance (Å) B Occ A:As2 b:67.1 occ:1.00 SG A:CYS1565 2.3 55.0 1.0 CB A:CYS1565 3.9 57.1 1.0 N A:CYS1565 3.9 53.6 1.0 CD2 A:PHE1562 4.2 35.0 1.0 O A:GLN1563 4.3 42.8 1.0 CE2 A:PHE1562 4.3 35.0 1.0 C A:GLY1564 4.4 52.3 1.0 CA A:CYS1565 4.6 57.4 1.0 CD1 A:LEU1654 4.6 32.2 1.0 CA A:GLY1564 4.6 49.9 1.0 CG A:PHE1562 4.8 34.8 1.0 SE A:MSE1567 4.8 64.0 1.0 O A:PHE1562 4.8 39.4 1.0 C A:GLN1563 4.8 44.8 1.0 CZ A:PHE1562 4.9 33.9 1.0

Y.Tong, L.Nedyalkova, W.Tempel, F.Mackenzie, C.H.Arrowsmith, A.M.Edwards, C.Bountra, J.Weigelt, A.Bochkarev, M.Buck, H.Park. Crystal Structure of the Ubiquitin-Like Domain of Plexin D1 To Be Published.