Zinc in PDB 5kl8: Crystal Structure of the Pumilio-Nos-Cyclinb Rna Complex

The structure of Crystal Structure of the Pumilio-Nos-Cyclinb Rna Complex, PDB code: 5kl8 was solved by C.Qiu, T.M.T.Hall, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.00 / 4.00
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	135.102, 135.102, 220.402, 90.00, 90.00, 120.00
R / Rfree (%)	28.3 / 31.2

The binding sites of Zinc atom in the Crystal Structure of the Pumilio-Nos-Cyclinb Rna Complex (pdb code 5kl8). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of the Pumilio-Nos-Cyclinb Rna Complex, PDB code: 5kl8:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of the Pumilio-Nos-Cyclinb Rna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the Pumilio-Nos-Cyclinb Rna Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn601 b:99.4 occ:1.00 NE2 B:HIS335 2.2 0.1 1.0 SG B:CYS346 2.3 0.2 1.0 SG B:CYS322 2.4 0.8 1.0 SG B:CYS319 2.7 0.9 1.0 CB B:CYS346 3.0 0.2 1.0 CD2 B:HIS335 3.0 0.1 1.0 CB B:CYS322 3.2 0.8 1.0 CE1 B:HIS335 3.2 0.1 1.0 N B:CYS322 3.4 0.8 1.0 CB B:CYS319 3.5 0.9 1.0 CA B:CYS322 3.9 0.8 1.0 CA B:CYS346 3.9 0.2 1.0 CG B:HIS335 4.2 0.1 1.0 CB B:PHE321 4.3 0.0 1.0 ND1 B:HIS335 4.3 0.1 1.0 C B:PHE321 4.4 0.0 1.0 C B:CYS346 4.7 0.2 1.0 CD B:PRO347 4.7 0.9 1.0 CA B:PHE321 4.7 0.0 1.0 N B:PHE321 4.8 0.0 1.0 CD B:LYS348 4.9 0.1 1.0 CA B:CYS319 5.0 0.9 1.0 CD1 B:PHE321 5.0 0.0 1.0 N B:PRO347 5.0 0.9 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of the Pumilio-Nos-Cyclinb Rna Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the Pumilio-Nos-Cyclinb Rna Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn602 b:0.5 occ:1.00 NE2 B:HIS365 2.1 0.7 1.0 SG B:CYS354 2.2 0.9 1.0 SG B:CYS370 2.3 0.8 1.0 SG B:CYS357 2.4 0.1 1.0 CD2 B:HIS365 2.9 0.7 1.0 CB B:CYS357 3.1 0.1 1.0 CB B:CYS354 3.2 0.9 1.0 CB B:CYS370 3.2 0.8 1.0 CE1 B:HIS365 3.3 0.7 1.0 N B:CYS357 3.4 0.1 1.0 CA B:CYS357 3.8 0.1 1.0 CA B:CYS370 3.9 0.8 1.0 CD B:PRO371 4.0 0.9 1.0 CG B:HIS365 4.1 0.7 1.0 ND1 B:HIS365 4.3 0.7 1.0 CB B:ILE356 4.3 0.3 1.0 C B:CYS357 4.5 0.1 1.0 C B:ILE356 4.5 0.3 1.0 N B:PRO371 4.6 0.9 1.0 N B:GLY358 4.6 0.6 1.0 CA B:CYS354 4.6 0.9 1.0 C B:CYS370 4.7 0.8 1.0 CA B:ILE356 4.8 0.3 1.0 N B:ILE356 4.9 0.3 1.0 CG2 B:ILE356 4.9 0.3 1.0

C.A.Weidmann, C.Qiu, R.M.Arvola, T.F.Lou, J.Killingsworth, Z.T.Campbell, T.M.Tanaka Hall, A.C.Goldstrohm. Drosophila Nanos Acts As A Molecular Clamp That Modulates the Rna-Binding and Repression Activities of Pumilio. Elife V. 5 2016.
ISSN: ESSN 2050-084X
PubMed: 27482653
DOI: 10.7554/ELIFE.17096