Zinc in PDB 3dfv: Adjacent Gata Dna Binding

The structure of Adjacent Gata Dna Binding, PDB code: 3dfv was solved by D.L.Bates, G.K.Kim, L.Guo, L.Chen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 3.10
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	137.977, 35.756, 54.487, 90.00, 113.25, 90.00
R / Rfree (%)	27.6 / 28.9

The binding sites of Zinc atom in the Adjacent Gata Dna Binding (pdb code 3dfv). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Adjacent Gata Dna Binding, PDB code: 3dfv:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Adjacent Gata Dna Binding


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Adjacent Gata Dna Binding within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn30 b:28.2 occ:1.00 SG D:CYS341 2.3 24.5 1.0 SG D:CYS317 2.4 26.5 1.0 SG D:CYS320 2.4 34.1 1.0 SG D:CYS338 2.5 35.2 1.0 CB D:CYS320 2.5 35.5 1.0 CB D:CYS341 2.9 21.2 1.0 N D:CYS320 3.0 33.7 1.0 CA D:CYS320 3.3 35.4 1.0 CB D:CYS317 3.7 34.8 1.0 NH1 D:ARG352 3.7 15.1 1.0 CB D:CYS338 4.0 32.9 1.0 N D:CYS341 4.0 19.8 1.0 CA D:CYS341 4.0 19.4 1.0 O D:CYS338 4.1 31.0 1.0 C D:ASN319 4.2 33.5 1.0 N D:CYS338 4.3 35.0 1.0 C D:CYS320 4.3 36.0 1.0 CD D:ARG352 4.4 12.1 1.0 CB D:ASN319 4.4 31.4 1.0 CA D:CYS338 4.6 32.2 1.0 N D:GLN321 4.6 37.4 1.0 CA D:ASN319 4.7 33.1 1.0 C D:CYS338 4.8 30.4 1.0 N D:ASN319 4.8 34.0 1.0 CZ D:ARG352 4.9 14.2 1.0 OD1 D:ASN319 5.0 29.9 1.0

Zinc binding site 2 out of 2 in the Adjacent Gata Dna Binding


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Adjacent Gata Dna Binding within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn30 b:29.5 occ:1.00 SG C:CYS320 2.3 35.4 1.0 SG C:CYS317 2.3 27.5 1.0 CB C:CYS320 2.4 34.5 1.0 SG C:CYS338 2.4 34.1 1.0 SG C:CYS341 2.4 22.2 1.0 N C:CYS320 3.0 33.4 1.0 CB C:CYS341 3.1 19.5 1.0 CA C:CYS320 3.2 34.8 1.0 CB C:CYS317 3.6 34.9 1.0 NH1 C:ARG352 3.7 13.2 1.0 CB C:CYS338 3.9 31.8 1.0 C C:CYS320 4.1 35.9 1.0 N C:CYS341 4.1 20.6 1.0 CA C:CYS341 4.1 19.4 1.0 C C:ASN319 4.1 33.5 1.0 O C:CYS338 4.2 30.5 1.0 N C:GLN321 4.2 37.6 1.0 N C:CYS338 4.3 35.8 1.0 CD C:ARG352 4.5 15.2 1.0 CB C:ASN319 4.5 31.1 1.0 CA C:CYS338 4.6 31.2 1.0 CA C:ASN319 4.7 32.5 1.0 C C:CYS338 4.8 29.3 1.0 N C:ASN319 4.8 34.4 1.0 CZ C:ARG352 4.9 13.8 1.0 CA C:CYS317 5.0 37.0 1.0 O C:CYS320 5.0 36.3 1.0

D.L.Bates, Y.Chen, G.Kim, L.Guo, L.Chen. Crystal Structures of Multiple Gata Zinc Fingers Bound to Dna Reveal New Insights Into Dna Recognition and Self-Association By Gata. J.Mol.Biol. V. 381 1292 2008.
ISSN: ISSN 0022-2836
PubMed: 18621058
DOI: 10.1016/J.JMB.2008.06.072