Zinc in PDB 2a1k: RB69 Single-Stranded Dna Binding Protein Core Domain

The structure of RB69 Single-Stranded Dna Binding Protein Core Domain, PDB code: 2a1k was solved by S.Sun, L.Geng, Y.Shamoo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.87 / 2.00
Space group	P 43
Cell size a, b, c (Å), α, β, γ (°)	67.700, 67.700, 123.750, 90.00, 90.00, 90.00
R / Rfree (%)	23.6 / 25.9

The binding sites of Zinc atom in the RB69 Single-Stranded Dna Binding Protein Core Domain (pdb code 2a1k). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the RB69 Single-Stranded Dna Binding Protein Core Domain, PDB code: 2a1k:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the RB69 Single-Stranded Dna Binding Protein Core Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of RB69 Single-Stranded Dna Binding Protein Core Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1 b:26.8 occ:1.00 NE2 A:HIS64 2.2 20.0 1.0 SG A:CYS77 2.3 20.4 1.0 SG A:CYS87 2.3 23.3 1.0 SG A:CYS90 2.3 21.4 1.0 CD2 A:HIS64 3.1 20.3 1.0 CB A:CYS87 3.2 21.5 1.0 CE1 A:HIS64 3.3 20.5 1.0 CB A:CYS90 3.3 22.0 1.0 CB A:CYS77 3.4 20.9 1.0 N A:CYS90 3.7 21.9 1.0 CA A:CYS90 4.0 22.8 1.0 CG A:HIS64 4.3 19.1 1.0 CA A:CYS77 4.3 21.5 1.0 ND1 A:HIS64 4.3 19.8 1.0 CB A:VAL89 4.5 17.2 1.0 CA A:CYS87 4.7 25.2 1.0 O A:HOH259 4.7 21.9 1.0 CD A:ARG111 4.7 25.8 1.0 C A:VAL89 4.7 20.9 1.0 CB A:ARG111 4.9 25.3 1.0

Zinc binding site 2 out of 2 in the RB69 Single-Stranded Dna Binding Protein Core Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of RB69 Single-Stranded Dna Binding Protein Core Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn2 b:24.5 occ:1.00 NE2 B:HIS64 2.1 16.5 1.0 SG B:CYS87 2.3 19.1 1.0 SG B:CYS90 2.4 18.8 1.0 SG B:CYS77 2.4 18.6 1.0 CD2 B:HIS64 2.8 17.2 1.0 CE1 B:HIS64 3.2 19.9 1.0 CB B:CYS87 3.2 19.3 1.0 CB B:CYS77 3.4 22.7 1.0 CB B:CYS90 3.5 18.9 1.0 N B:CYS90 3.7 17.6 1.0 CG B:HIS64 4.0 17.4 1.0 CA B:CYS90 4.1 17.8 1.0 ND1 B:HIS64 4.2 17.6 1.0 CA B:CYS77 4.3 20.1 1.0 CB B:VAL89 4.4 16.0 1.0 O B:HOH259 4.5 17.9 1.0 C B:VAL89 4.6 16.6 1.0 CA B:CYS87 4.6 20.5 1.0 CA B:VAL89 4.9 18.6 1.0 CB B:ARG111 4.9 26.2 1.0 OG B:SER79 4.9 22.9 1.0 C B:CYS87 4.9 20.5 1.0 N B:VAL89 5.0 16.5 1.0 O B:CYS87 5.0 21.9 1.0 CB B:SER79 5.0 21.3 1.0 C B:CYS77 5.0 20.4 1.0

S.Sun, L.Geng, Y.Shamoo. Structure and Enzymatic Properties of A Chimeric Bacteriophage RB69 Dna Polymerase and Single-Stranded Dna Binding Protein with Increased Processivity. Proteins V. 65 231 2006.
ISSN: ISSN 0887-3585
PubMed: 16881051
DOI: 10.1002/PROT.21088