Zinc in PDB 1a1f: Dsnr (ZIF268 Variant) Zinc Finger-Dna Complex (Gacc Site)

The structure of Dsnr (ZIF268 Variant) Zinc Finger-Dna Complex (Gacc Site), PDB code: 1a1f was solved by M.Elrod-Erickson, T.E.Benson, C.O.Pabo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.10
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	43.000, 55.900, 128.400, 90.00, 90.00, 90.00
R / Rfree (%)	22.5 / 27

The binding sites of Zinc atom in the Dsnr (ZIF268 Variant) Zinc Finger-Dna Complex (Gacc Site) (pdb code 1a1f). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Dsnr (ZIF268 Variant) Zinc Finger-Dna Complex (Gacc Site), PDB code: 1a1f:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Dsnr (ZIF268 Variant) Zinc Finger-Dna Complex (Gacc Site)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Dsnr (ZIF268 Variant) Zinc Finger-Dna Complex (Gacc Site) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn201 b:44.2 occ:1.00 SG A:CYS107 2.1 38.6 1.0 NE2 A:HIS129 2.2 37.2 1.0 NE2 A:HIS125 2.2 28.5 1.0 SG A:CYS112 2.7 63.9 1.0 CB A:CYS107 2.9 43.0 1.0 CD2 A:HIS125 3.1 28.1 1.0 CD2 A:HIS129 3.1 36.2 1.0 CE1 A:HIS129 3.2 37.8 1.0 CE1 A:HIS125 3.3 30.1 1.0 CB A:CYS112 3.5 60.0 1.0 ND1 A:HIS129 4.2 37.1 1.0 CG A:HIS129 4.2 36.4 1.0 CG A:HIS125 4.3 30.0 1.0 CA A:CYS107 4.4 46.2 1.0 ND1 A:HIS125 4.4 32.5 1.0 CB A:VAL109 4.6 48.1 1.0 O A:CYS112 4.6 57.7 1.0 CB A:ARG114 4.7 56.8 1.0 CG A:ARG114 4.8 58.1 1.0 CA A:CYS112 4.8 58.9 1.0 C A:CYS107 4.9 48.0 1.0 C A:CYS112 5.0 57.8 1.0 CG2 A:VAL109 5.0 47.9 1.0

Zinc binding site 2 out of 3 in the Dsnr (ZIF268 Variant) Zinc Finger-Dna Complex (Gacc Site)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Dsnr (ZIF268 Variant) Zinc Finger-Dna Complex (Gacc Site) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn202 b:35.4 occ:1.00 NE2 A:HIS153 2.1 26.1 1.0 NE2 A:HIS157 2.1 35.5 1.0 SG A:CYS140 2.3 34.6 1.0 SG A:CYS137 2.3 28.2 1.0 CD2 A:HIS157 3.0 33.6 1.0 CD2 A:HIS153 3.0 25.9 1.0 CE1 A:HIS153 3.1 25.2 1.0 CE1 A:HIS157 3.1 35.5 1.0 CB A:CYS140 3.2 33.5 1.0 CB A:CYS137 3.2 32.8 1.0 N A:CYS140 3.5 36.2 1.0 CA A:CYS140 3.9 34.3 1.0 ND1 A:HIS153 4.1 28.8 1.0 CG A:HIS153 4.1 27.0 1.0 CG A:HIS157 4.2 33.8 1.0 ND1 A:HIS157 4.2 36.0 1.0 CB A:ILE139 4.5 33.6 1.0 C A:ILE139 4.6 36.3 1.0 C A:CYS140 4.6 33.7 1.0 CA A:CYS137 4.6 34.9 1.0 N A:MET141 4.8 33.1 1.0 CB A:ARG142 4.9 38.2 1.0 CA A:ILE139 4.9 35.8 1.0 N A:ILE139 5.0 37.1 1.0 C A:CYS137 5.0 35.7 1.0

Zinc binding site 3 out of 3 in the Dsnr (ZIF268 Variant) Zinc Finger-Dna Complex (Gacc Site)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Dsnr (ZIF268 Variant) Zinc Finger-Dna Complex (Gacc Site) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn203 b:30.3 occ:1.00 NE2 A:HIS185 2.0 24.7 1.0 NE2 A:HIS181 2.1 24.1 1.0 SG A:CYS168 2.2 30.6 1.0 SG A:CYS165 2.2 27.3 1.0 CD2 A:HIS181 3.0 25.0 1.0 CE1 A:HIS185 3.0 22.5 1.0 CD2 A:HIS185 3.1 23.7 1.0 CB A:CYS165 3.1 30.3 1.0 CE1 A:HIS181 3.2 25.0 1.0 CB A:CYS168 3.5 29.8 1.0 N A:CYS168 3.6 33.1 1.0 CA A:CYS168 4.1 31.7 1.0 ND1 A:HIS185 4.1 24.5 1.0 CG A:HIS181 4.2 27.6 1.0 CG A:HIS185 4.2 23.9 1.0 ND1 A:HIS181 4.2 26.3 1.0 CB A:ILE167 4.4 28.2 1.0 CA A:CYS165 4.6 30.4 1.0 N A:GLY169 4.7 30.4 1.0 C A:ILE167 4.7 32.3 1.0 CB A:ARG170 4.7 31.1 1.0 C A:CYS168 4.8 32.6 1.0 N A:ILE167 4.8 30.7 1.0 CA A:ILE167 4.8 30.4 1.0 N A:ARG170 4.9 30.2 1.0 C A:CYS165 5.0 31.4 1.0

M.Elrod-Erickson, T.E.Benson, C.O.Pabo. High-Resolution Structures of Variant ZIF268-Dna Complexes: Implications For Understanding Zinc Finger-Dna Recognition. Structure V. 6 451 1998.
ISSN: ISSN 0969-2126
PubMed: 9562555
DOI: 10.1016/S0969-2126(98)00047-1