Arsenic in PDB 7a9x: Structure of Yeast RMD9P in Complex with 16NT Target Rna

The structure of Structure of Yeast RMD9P in Complex with 16NT Target Rna, PDB code: 7a9x was solved by H.S.Hillen, D.A.Markov, W.D.Ireneusz, K.B.Hofmann, A.T.Cowan, J.L.Jones, D.Temiakov, P.Cramer, M.Anikin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.01 / 2.45
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	106.25, 106.25, 128.52, 90, 90, 120
R / Rfree (%)	19.9 / 23.3

The structure of Structure of Yeast RMD9P in Complex with 16NT Target Rna also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Arsenic atom in the Structure of Yeast RMD9P in Complex with 16NT Target Rna (pdb code 7a9x). This binding sites where shown within 5.0 Angstroms radius around Arsenic atom.
In total 3 binding sites of Arsenic where determined in the Structure of Yeast RMD9P in Complex with 16NT Target Rna, PDB code: 7a9x:
Jump to Arsenic binding site number: 1; 2; 3;

Arsenic binding site 1 out of 3 in the Structure of Yeast RMD9P in Complex with 16NT Target Rna


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 1 of Structure of Yeast RMD9P in Complex with 16NT Target Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:As93 b:198.5 occ:1.00 AS A:CAS93 0.0 198.5 1.0 CE1 A:CAS93 2.0 197.2 1.0 CE2 A:CAS93 2.0 198.3 1.0 SG A:CAS93 2.2 122.1 1.0 CB A:CAS93 3.3 106.9 1.0 CA A:CAS93 3.7 98.3 1.0 OG A:SER129 4.0 94.9 1.0 CG A:ARG132 4.1 98.2 1.0 N A:CAS93 4.4 97.0 1.0 CB A:SER129 4.5 88.0 1.0 CA A:SER129 4.5 82.5 1.0 CB A:ARG132 4.7 94.1 1.0 O A:SER89 4.8 106.6 1.0 C A:CAS93 4.9 96.9 1.0

Arsenic binding site 2 out of 3 in the Structure of Yeast RMD9P in Complex with 16NT Target Rna


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 2 of Structure of Yeast RMD9P in Complex with 16NT Target Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:As192 b:128.5 occ:1.00 AS A:CAS192 0.0 128.5 1.0 CE1 A:CAS192 2.0 134.8 1.0 CE2 A:CAS192 2.0 136.6 1.0 SG A:CAS192 2.2 82.7 1.0 CB A:CAS192 3.3 76.4 1.0 OD1 A:ASN193 4.0 102.7 1.0 C A:CAS192 4.3 81.3 1.0 CA A:CAS192 4.4 76.0 1.0 N A:ASN193 4.5 79.9 1.0 CE2 A:PHE226 4.5 76.0 1.0 CZ A:PHE226 4.6 77.8 1.0 O A:CAS192 4.7 84.4 1.0 CG A:ASN193 4.7 96.4 1.0

Arsenic binding site 3 out of 3 in the Structure of Yeast RMD9P in Complex with 16NT Target Rna


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 3 of Structure of Yeast RMD9P in Complex with 16NT Target Rna within 5.0Å range: probe atom residue distance (Å) B Occ A:As315 b:118.3 occ:1.00 AS A:CAS315 0.0 118.3 1.0 CE2 A:CAS315 2.0 116.0 1.0 CE1 A:CAS315 2.0 122.9 1.0 SG A:CAS315 2.2 108.2 1.0 CB A:CAS315 3.3 98.9 1.0 CG A:PRO356 4.4 77.8 1.0 CD A:PRO356 4.6 77.0 1.0 CA A:CAS315 4.6 92.4 1.0 CE2 A:TYR357 4.9 82.1 1.0

H.S.Hillen, D.A.Markov, W.D.Ireneusz, K.B.Hofmann, A.T.Cowan, J.L.Jones, D.Temiakov, P.Cramer, M.Anikin. The Pentatricopeptide Repeat Protein RMD9 Recognizes the Dodecameric Element in the 3'-Utrs of Yeast Mitochondrial Mrnas Proc.Natl.Acad.Sci.Usa 2021.
ISSN: ESSN 1091-6490