Magnesium in PDB 8a4i: Crystal Structure of SALL4 Zinc Finger Cluster 4 with at-Rich Dna

The structure of Crystal Structure of SALL4 Zinc Finger Cluster 4 with at-Rich Dna, PDB code: 8a4i was solved by J.A.Watson, R.Pantier, U.Jayachandran, K.Chhatbar, B.Alexander-Howden, V.Kruusvee, M.Prendecki, A.Bird, A.G.Cook, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	73.37 / 2.76
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	39.026, 66.111, 77.938, 73.04, 76.43, 76.14
R / Rfree (%)	24.7 / 25.4

The structure of Crystal Structure of SALL4 Zinc Finger Cluster 4 with at-Rich Dna also contains other interesting chemical elements:

Zinc

(Zn)

8 atoms

The binding sites of Magnesium atom in the Crystal Structure of SALL4 Zinc Finger Cluster 4 with at-Rich Dna (pdb code 8a4i). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Crystal Structure of SALL4 Zinc Finger Cluster 4 with at-Rich Dna, PDB code: 8a4i:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Crystal Structure of SALL4 Zinc Finger Cluster 4 with at-Rich Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of SALL4 Zinc Finger Cluster 4 with at-Rich Dna within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg101 b:5.0 occ:1.00 O4' C:DT9 2.7 55.8 1.0 C1' C:DA8 2.7 57.8 1.0 N3 C:DA8 3.1 57.7 1.0 C5' C:DT9 3.2 55.8 1.0 O4' C:DA8 3.2 57.8 1.0 C4' C:DT9 3.2 55.8 1.0 O3' C:DA8 3.4 57.8 1.0 C4' C:DA8 3.5 57.8 1.0 C2' C:DA8 3.6 57.8 1.0 N9 C:DA8 3.6 57.7 1.0 C4 C:DA8 3.7 57.7 1.0 C3' C:DA8 3.7 57.8 1.0 C1' C:DT9 3.9 55.8 1.0 O5' C:DT9 4.1 55.8 1.0 C2 C:DA8 4.2 57.7 1.0 N1 C:DT9 4.3 56.7 1.0 C2 C:DA7 4.5 57.6 1.0 P C:DT9 4.5 55.8 1.0 N3 C:DA7 4.6 57.6 1.0 C6 C:DT9 4.6 56.7 1.0 O2 D:DT6 4.7 66.0 1.0 C3' C:DT9 4.7 55.8 1.0 C5' C:DA8 4.9 57.8 1.0 C2' C:DT9 4.9 55.8 1.0 C8 C:DA8 4.9 57.7 1.0 C2 C:DT9 5.0 56.7 1.0

Magnesium binding site 2 out of 3 in the Crystal Structure of SALL4 Zinc Finger Cluster 4 with at-Rich Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of SALL4 Zinc Finger Cluster 4 with at-Rich Dna within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg102 b:5.0 occ:1.00 OP1 C:DT5 3.2 63.8 1.0 CB L:THR929 3.5 59.2 1.0 O5' C:DT5 4.1 63.8 1.0 C5' C:DT5 4.1 63.8 1.0 O L:THR929 4.2 62.0 1.0 P C:DT5 4.2 63.8 1.0 C L:THR929 4.5 63.3 1.0 CA L:THR929 4.6 59.5 1.0 ND1 L:HIS930 4.6 63.5 1.0 CE1 L:HIS930 4.7 58.8 1.0 C4' C:DT5 5.0 63.8 1.0 C3' C:DT5 5.0 63.8 1.0

Magnesium binding site 3 out of 3 in the Crystal Structure of SALL4 Zinc Finger Cluster 4 with at-Rich Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of SALL4 Zinc Finger Cluster 4 with at-Rich Dna within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg101 b:5.0 occ:1.00 OP1 D:DA2 2.9 51.9 1.0 CG2 I:VAL909 3.5 47.9 1.0 P D:DA2 4.1 51.9 1.0 OP2 D:DA2 4.5 51.9 1.0 O I:VAL909 4.7 43.1 1.0 N I:VAL909 4.7 43.1 1.0 NZ L:LYS920 4.8 48.6 1.0 O5' D:DA2 4.8 51.9 1.0 CD L:LYS920 4.9 48.6 1.0 CB I:VAL909 4.9 47.9 1.0

J.A.Watson, R.Pantier, U.Jayachandran, K.Chhatbar, B.Alexander-Howden, V.Kruusvee, M.Prendecki, A.Bird, A.G.Cook. Structural Analysis of SALL4 Zinc-Finger Domain Reveals A Link Between at-Rich Dna Binding and Okihiro Syndrome To Be Published.