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Zinc in PDB 2izo: Structure of An Archaeal PCNA1-PCNA2-FEN1 Complex

Protein crystallography data

The structure of Structure of An Archaeal PCNA1-PCNA2-FEN1 Complex, PDB code: 2izo was solved by A.S.Dore, M.L.Kilkenny, S.M.Roe, L.H.Pearl, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.90
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 93.986, 99.774, 99.958, 90.00, 90.00, 90.00
R / Rfree (%) 25 / 31.2

Other elements in 2izo:

The structure of Structure of An Archaeal PCNA1-PCNA2-FEN1 Complex also contains other interesting chemical elements:

Magnesium (Mg) 4 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of An Archaeal PCNA1-PCNA2-FEN1 Complex (pdb code 2izo). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Structure of An Archaeal PCNA1-PCNA2-FEN1 Complex, PDB code: 2izo:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 2izo

Go back to Zinc Binding Sites List in 2izo
Zinc binding site 1 out of 4 in the Structure of An Archaeal PCNA1-PCNA2-FEN1 Complex


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 Archaeal PCNA1-PCNA2-FEN1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1347

b:83.9
occ:1.00
OD1 A:ASP170 2.2 46.3 1.0
O A:HOH2014 3.0 32.1 1.0
CG A:ASP170 3.0 46.3 1.0
OD2 A:ASP170 3.3 46.8 1.0
CB A:ASP170 4.4 45.9 1.0
N A:ASP170 4.5 45.7 1.0
ND2 A:ASN27 4.6 45.4 1.0
NE2 A:GLN31 4.6 47.7 1.0
CA A:ASP170 4.6 45.8 1.0
CB A:GLN169 4.6 45.9 1.0
C A:GLN169 4.7 45.8 1.0
O A:GLN169 4.8 46.0 1.0

Zinc binding site 2 out of 4 in 2izo

Go back to Zinc Binding Sites List in 2izo
Zinc binding site 2 out of 4 in the Structure of An Archaeal PCNA1-PCNA2-FEN1 Complex


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 Archaeal PCNA1-PCNA2-FEN1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1246

b:87.1
occ:1.00
OE1 B:GLU160 3.3 50.5 1.0
O B:LYS159 3.6 50.0 1.0
NZ B:LYS159 4.0 49.1 1.0
CD B:GLU160 4.1 50.3 1.0
CE B:LYS159 4.3 49.5 1.0
C B:LYS159 4.4 50.0 1.0
CG B:GLU160 4.7 50.2 1.0
OE2 B:GLU160 4.8 50.1 1.0

Zinc binding site 3 out of 4 in 2izo

Go back to Zinc Binding Sites List in 2izo
Zinc binding site 3 out of 4 in the Structure of An Archaeal PCNA1-PCNA2-FEN1 Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of An Archaeal PCNA1-PCNA2-FEN1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn1251

b:74.4
occ:1.00
OD1 C:ASP207 2.6 51.3 1.0
OD2 C:ASP207 2.7 51.5 1.0
CG C:ASP207 3.0 51.2 1.0
OE1 C:GLU203 3.0 52.5 1.0
NZ C:LYS206 3.6 51.4 1.0
CD C:GLU203 4.3 51.8 1.0
CB C:ASP207 4.5 51.0 1.0
O C:GLU203 4.7 49.8 1.0
CB C:GLU203 4.7 49.4 1.0
CE C:MET204 4.8 51.3 1.0
O C:HOH2003 4.9 34.2 1.0
CG C:GLU203 4.9 50.5 1.0
CE C:LYS206 4.9 51.5 1.0

Zinc binding site 4 out of 4 in 2izo

Go back to Zinc Binding Sites List in 2izo
Zinc binding site 4 out of 4 in the Structure of An Archaeal PCNA1-PCNA2-FEN1 Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of An Archaeal PCNA1-PCNA2-FEN1 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn1252

b:75.3
occ:1.00
O C:HOH2029 2.8 31.7 1.0
CE1 C:HIS240 2.8 46.5 1.0
ND1 C:HIS240 3.0 46.1 1.0
OE1 C:GLU234 3.0 50.2 1.0
OE2 C:GLU234 3.2 49.5 1.0
O C:HOH2026 3.2 45.3 1.0
CD C:GLU234 3.3 49.7 1.0
NE2 C:HIS240 4.1 46.7 1.0
O C:GLY238 4.3 47.1 1.0
CG C:HIS240 4.3 46.2 1.0
CG C:GLU234 4.4 49.0 1.0
CD2 C:HIS240 4.9 46.6 1.0

Reference:

A.S.Dore, M.L.Kilkenny, S.A.Jones, A.W.Oliver, S.M.Roe, S.D.Bell, L.H.Pearl. Structure of An Archaeal PCNA1-PCNA2-FEN1 Complex: Elucidating Pcna Subunit and Client Enzyme Specificity. Nucleic Acids Res. V. 34 4515 2006.
ISSN: ISSN 0305-1048
PubMed: 16945955
DOI: 10.1093/NAR/GKL623
Page generated: Wed Dec 16 03:31:33 2020

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