Zinc in PDB 1a1j: Radr (ZIF268 Variant) Zinc Finger-Dna Complex (Gcgt Site)

The structure of Radr (ZIF268 Variant) Zinc Finger-Dna Complex (Gcgt Site), PDB code: 1a1j 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 / 2.00
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	42.300, 55.900, 133.600, 90.00, 90.00, 90.00
R / Rfree (%)	21 / 26.2

The binding sites of Zinc atom in the Radr (ZIF268 Variant) Zinc Finger-Dna Complex (Gcgt Site) (pdb code 1a1j). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Radr (ZIF268 Variant) Zinc Finger-Dna Complex (Gcgt Site), PDB code: 1a1j:
Jump to Zinc binding site number: 1; 2; 3;

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


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Radr (ZIF268 Variant) Zinc Finger-Dna Complex (Gcgt Site) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn201 b:38.7 occ:1.00 NE2 A:HIS129 2.0 32.3 1.0 NE2 A:HIS125 2.1 34.7 1.0 SG A:CYS107 2.4 39.4 1.0 SG A:CYS112 2.4 40.3 1.0 CE1 A:HIS129 2.9 33.0 1.0 CD2 A:HIS129 3.0 33.5 1.0 CB A:CYS112 3.0 43.2 1.0 CE1 A:HIS125 3.0 34.6 1.0 CD2 A:HIS125 3.1 34.3 1.0 CB A:CYS107 3.4 40.7 1.0 ND1 A:HIS129 4.0 33.3 1.0 CG A:HIS129 4.1 33.2 1.0 ND1 A:HIS125 4.1 35.0 1.0 CG A:HIS125 4.2 34.2 1.0 CA A:CYS112 4.5 43.6 1.0 CB A:VAL109 4.6 42.6 1.0 CB A:ARG114 4.8 42.8 1.0 CA A:CYS107 4.8 41.1 1.0 CG2 A:VAL109 4.9 41.4 1.0

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


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Radr (ZIF268 Variant) Zinc Finger-Dna Complex (Gcgt Site) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn202 b:35.5 occ:1.00 SG A:CYS137 2.2 28.4 1.0 NE2 A:HIS157 2.2 27.9 1.0 NE2 A:HIS153 2.3 26.5 1.0 SG A:CYS140 2.3 28.7 1.0 CD2 A:HIS153 2.9 26.1 1.0 CD2 A:HIS157 3.1 28.4 1.0 CB A:CYS137 3.1 32.1 1.0 CE1 A:HIS157 3.2 28.0 1.0 CB A:CYS140 3.3 30.6 1.0 CE1 A:HIS153 3.4 26.1 1.0 N A:CYS140 3.6 31.8 1.0 CA A:CYS140 4.0 31.4 1.0 CG A:HIS153 4.2 26.0 1.0 CG A:HIS157 4.2 27.5 1.0 ND1 A:HIS157 4.3 27.7 1.0 ND1 A:HIS153 4.4 25.9 1.0 CB A:ILE139 4.4 30.9 0.5 CB A:ILE139 4.5 30.7 0.5 CA A:CYS137 4.5 32.4 1.0 C A:CYS140 4.6 31.5 1.0 C A:ILE139 4.6 32.2 1.0 N A:MET141 4.9 31.8 1.0 CB A:ARG142 4.9 28.7 1.0 CG2 A:ILE139 4.9 30.3 0.5 CA A:ILE139 4.9 31.5 1.0 CG2 A:ILE139 5.0 30.4 0.5 C A:CYS137 5.0 32.5 1.0

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


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Radr (ZIF268 Variant) Zinc Finger-Dna Complex (Gcgt Site) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn203 b:30.6 occ:1.00 NE2 A:HIS185 1.9 25.6 1.0 NE2 A:HIS181 2.1 27.4 1.0 SG A:CYS168 2.3 25.3 1.0 SG A:CYS165 2.4 28.2 1.0 CE1 A:HIS185 2.7 26.9 1.0 CD2 A:HIS181 3.0 26.9 1.0 CD2 A:HIS185 3.1 26.2 1.0 CB A:CYS165 3.1 25.6 1.0 CE1 A:HIS181 3.2 26.9 1.0 CB A:CYS168 3.4 26.4 1.0 N A:CYS168 3.7 28.0 1.0 ND1 A:HIS185 3.9 26.7 1.0 CA A:CYS168 4.1 26.9 1.0 CG A:HIS185 4.1 26.4 1.0 CG A:HIS181 4.2 26.0 1.0 ND1 A:HIS181 4.2 25.9 1.0 CB A:ILE167 4.5 27.8 1.0 CA A:CYS165 4.6 26.1 1.0 N A:GLY169 4.6 25.6 1.0 C A:CYS168 4.7 27.1 1.0 C A:ILE167 4.7 28.1 1.0 CB A:ARG170 4.8 26.7 1.0 N A:ARG170 4.8 24.9 1.0 N A:ILE167 4.9 28.5 1.0 CA A:ILE167 5.0 28.1 1.0 O A:HOH396 5.0 31.6 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