Magnesium in PDB 9l9x: Structure of Sparta in Complex with Guide Dna and A 20NT Target Dna

The structure of Structure of Sparta in Complex with Guide Dna and A 20NT Target Dna, PDB code: 9l9x was solved by R.Hu, C.Guo, X.Liu, J.Chen, L.Liu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.50 / 6.70
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	140.42, 140.42, 176.71, 90, 90, 120
R / Rfree (%)	24.7 / 31.9

The binding sites of Magnesium atom in the Structure of Sparta in Complex with Guide Dna and A 20NT Target Dna (pdb code 9l9x). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Structure of Sparta in Complex with Guide Dna and A 20NT Target Dna, PDB code: 9l9x:

Magnesium binding site 1 out of 1 in the Structure of Sparta in Complex with Guide Dna and A 20NT Target Dna


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Sparta in Complex with Guide Dna and A 20NT Target Dna within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg101 b:30.0 occ:1.00 C3' D:DC19 2.9 534.1 1.0 O3' D:DC19 3.0 536.2 1.0 O3' D:DT21 3.2 523.2 1.0 C5' D:DC19 3.5 539.7 1.0 C3' D:DT21 3.5 521.8 1.0 C2' D:DT21 3.6 519.9 1.0 C4' D:DC19 3.7 530.9 1.0 NZ A:LYS485 4.0 545.6 1.0 C6 D:DC19 4.0 524.6 1.0 C2' D:DC19 4.1 533.7 1.0 P D:DA20 4.5 545.5 1.0 C5 D:DC19 4.6 531.2 1.0 OP2 D:DA20 4.6 538.6 1.0 O4' D:DC19 4.7 533.5 1.0 N1 D:DC19 4.7 529.2 1.0 C1' D:DC19 4.7 528.2 1.0 OP2 D:DC19 4.8 538.0 1.0 O5' D:DC19 4.8 546.6 1.0 C5' D:DA20 4.8 533.8 1.0 C1' D:DT21 4.9 523.9 1.0 C4' D:DT21 5.0 522.2 1.0

R.Hu, C.Guo, X.Liu, Y.Lin, Z.Yang, Z.Li, Y.Yang, E.Ma, Y.Li, J.Chen, L.Liu. Structural Basis of Ssdna-Guided Nadase Activation of Prokaryotic Sparta System. Nucleic Acids Res. V. 53 2025.
ISSN: ESSN 1362-4962
PubMed: 39997222
DOI: 10.1093/NAR/GKAF110