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Zinc in PDB 4hif: Ultrahigh-Resolution Crystal Structure of Z-Dna in Complex with ZN2+ Ions

Protein crystallography data

The structure of Ultrahigh-Resolution Crystal Structure of Z-Dna in Complex with ZN2+ Ions, PDB code: 4hif was solved by P.Drozdzal, M.Gilski, R.Kierzek, L.Lomozik, M.Jaskolski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 17.98 / 0.85
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 17.791, 30.907, 44.196, 90.00, 90.00, 90.00
R / Rfree (%) 9.2 / 11.3

Other elements in 4hif:

The structure of Ultrahigh-Resolution Crystal Structure of Z-Dna in Complex with ZN2+ Ions also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Ultrahigh-Resolution Crystal Structure of Z-Dna in Complex with ZN2+ Ions (pdb code 4hif). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Ultrahigh-Resolution Crystal Structure of Z-Dna in Complex with ZN2+ Ions, PDB code: 4hif:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 4hif

Go back to Zinc Binding Sites List in 4hif
Zinc binding site 1 out of 2 in the Ultrahigh-Resolution Crystal Structure of Z-Dna in Complex with ZN2+ Ions


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Ultrahigh-Resolution Crystal Structure of Z-Dna in Complex with ZN2+ Ions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn101

b:6.7
occ:1.00
O A:HOH205 2.1 7.1 1.0
O A:HOH234 2.1 7.4 1.0
N7 A:DG6 2.1 5.4 1.0
O A:HOH235 2.1 11.9 1.0
O A:HOH201 2.1 6.8 1.0
O A:HOH210 2.1 9.5 1.0
C8 A:DG6 3.0 5.5 1.0
C5 A:DG6 3.2 5.2 1.0
O6 A:DG6 3.6 6.0 1.0
C6 A:DG6 3.8 5.5 1.0
OP1 A:DC5 4.1 7.3 1.0
N9 A:DG6 4.3 5.2 1.0
C4 A:DG6 4.4 5.1 1.0
OP2 A:DC5 4.4 8.1 1.0
P A:DC5 4.8 6.1 1.0
C5' A:DC5 4.9 5.7 1.0

Zinc binding site 2 out of 2 in 4hif

Go back to Zinc Binding Sites List in 4hif
Zinc binding site 2 out of 2 in the Ultrahigh-Resolution Crystal Structure of Z-Dna in Complex with ZN2+ Ions


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Ultrahigh-Resolution Crystal Structure of Z-Dna in Complex with ZN2+ Ions within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn101

b:5.2
occ:1.00
O B:HOH233 1.9 6.1 1.0
N7 B:DG10 2.0 5.2 1.0
CL B:CL102 2.2 7.0 1.0
C5 B:DG10 3.0 4.8 1.0
C8 B:DG10 3.0 5.3 1.0
O6 B:DG10 3.3 5.6 1.0
C6 B:DG10 3.5 4.8 1.0
O B:HOH206 4.0 13.2 1.0
N9 B:DG10 4.2 5.1 1.0
C4 B:DG10 4.2 4.8 1.0
N1 B:DG10 4.8 4.7 1.0
O B:HOH227 4.8 9.5 1.0
C5' B:DC9 4.9 6.0 1.0

Reference:

P.Drozdzal, M.Gilski, R.Kierzek, L.Lomozik, M.Jaskolski. Ultrahigh-Resolution Crystal Structures of Z-Dna in Complex with Mn(2+) and Zn(2+) Ions. Acta Crystallogr.,Sect.D V. 69 1180 2013.
ISSN: ISSN 0907-4449
PubMed: 23695262
DOI: 10.1107/S0907444913007798
Page generated: Wed Dec 16 05:22:14 2020

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