Zinc in PDB 1xnq: Structure of An Inosine-Adenine Wobble Base Pair Complex in the Context of the Decoding Center

The structure of Structure of An Inosine-Adenine Wobble Base Pair Complex in the Context of the Decoding Center, PDB code: 1xnq was solved by F.V.Murphy, V.Ramakrishnan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	99.00 / 3.05
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	401.135, 401.135, 175.193, 90.00, 90.00, 90.00
R / Rfree (%)	22.8 / 27

The structure of Structure of An Inosine-Adenine Wobble Base Pair Complex in the Context of the Decoding Center also contains other interesting chemical elements:

Magnesium

(Mg)

107 atoms

The binding sites of Zinc atom in the Structure of An Inosine-Adenine Wobble Base Pair Complex in the Context of the Decoding Center (pdb code 1xnq). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of An Inosine-Adenine Wobble Base Pair Complex in the Context of the Decoding Center, PDB code: 1xnq:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of An Inosine-Adenine Wobble Base Pair Complex in the Context of the Decoding Center


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of An Inosine-Adenine Wobble Base Pair Complex in the Context of the Decoding Center within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn306 b:67.7 occ:1.00 SG D:CYS31 2.2 56.3 1.0 SG D:CYS9 2.3 51.0 1.0 SG D:CYS26 2.4 55.8 1.0 SG D:CYS12 2.9 79.7 1.0 O D:LEU19 3.4 0.2 1.0 CB D:CYS9 3.7 51.0 1.0 O D:CYS31 3.8 0.9 1.0 CB D:CYS31 3.9 56.3 1.0 CB D:CYS26 3.9 55.8 1.0 CA D:CYS9 4.0 1.0 1.0 CB D:CYS12 4.1 79.7 1.0 CG D:LYS22 4.2 0.5 1.0 CA D:CYS31 4.4 0.9 1.0 CB D:LYS22 4.5 0.5 1.0 C D:CYS31 4.5 0.9 1.0 CA D:CYS26 4.6 0.9 1.0 C D:LEU19 4.6 0.2 1.0 N D:CYS9 4.9 1.0 1.0 N D:LYS22 5.0 0.4 1.0

Zinc binding site 2 out of 2 in the Structure of An Inosine-Adenine Wobble Base Pair Complex in the Context of the Decoding Center


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of An Inosine-Adenine Wobble Base Pair Complex in the Context of the Decoding Center within 5.0Å range: probe atom residue distance (Å) B Occ N:Zn307 b:67.7 occ:0.98 SG N:CYS27 2.0 74.9 1.0 SG N:CYS43 2.1 46.5 1.0 SG N:CYS24 2.5 81.1 1.0 SG N:CYS40 2.5 62.6 1.0 CB N:CYS27 2.7 74.9 1.0 CB N:CYS24 3.3 81.1 1.0 CB N:CYS40 3.5 62.6 1.0 N N:CYS27 3.6 78.1 1.0 CA N:CYS27 3.7 78.1 1.0 CB N:CYS43 3.7 46.5 1.0 CB N:ARG29 4.2 0.6 1.0 C N:ARG26 4.3 92.0 1.0 N N:CYS40 4.3 79.4 1.0 N2 A:G1202 4.3 71.3 1.0 N N:CYS43 4.3 56.5 1.0 C N:CYS27 4.5 78.1 1.0 CA N:CYS40 4.5 79.4 1.0 CB N:ARG26 4.6 74.4 1.0 CA N:CYS43 4.7 56.5 1.0 N N:GLY28 4.7 0.8 1.0 N3 A:G1202 4.7 71.3 1.0 CA N:CYS24 4.7 99.9 1.0 N N:ARG29 4.8 0.9 1.0 CA N:ARG26 4.8 92.0 1.0 O N:ARG26 5.0 92.0 1.0 C2 A:G1202 5.0 71.3 1.0 CB N:ILE42 5.0 50.8 1.0

F.V.Murphy, V.Ramakrishnan. Structure of A Purine-Purine Wobble Base Pair in the Decoding Center of the Ribosome. Nat.Struct.Mol.Biol. V. 11 1251 2004.
ISSN: ISSN 1545-9993
PubMed: 15558050
DOI: 10.1038/NSMB866