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Zinc in PDB 1a1i: Radr (ZIF268 Variant) Zinc Finger-Dna Complex (Gcac Site)

Protein crystallography data

The structure of Radr (ZIF268 Variant) Zinc Finger-Dna Complex (Gcac Site), PDB code: 1a1i 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 / 1.60
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 43.200, 56.300, 133.800, 90.00, 90.00, 90.00
R / Rfree (%) 19.1 / 21.6

Zinc Binding Sites:

The binding sites of Zinc atom in the Radr (ZIF268 Variant) Zinc Finger-Dna Complex (Gcac Site) (pdb code 1a1i). 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 (Gcac Site), PDB code: 1a1i:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 1a1i

Go back to Zinc Binding Sites List in 1a1i
Zinc binding site 1 out of 3 in the Radr (ZIF268 Variant) Zinc Finger-Dna Complex (Gcac 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 (Gcac Site) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn201

b:15.8
occ:1.00
NE2 A:HIS129 2.0 14.8 1.0
NE2 A:HIS125 2.1 13.8 1.0
SG A:CYS112 2.3 18.3 1.0
SG A:CYS107 2.3 13.9 1.0
CB A:CYS112 3.0 21.0 1.0
CD2 A:HIS129 3.0 15.0 1.0
CE1 A:HIS129 3.0 14.2 1.0
CE1 A:HIS125 3.1 12.9 1.0
CD2 A:HIS125 3.1 12.8 1.0
CB A:CYS107 3.1 14.0 1.0
ND1 A:HIS129 4.1 16.1 1.0
CG A:HIS129 4.2 14.7 1.0
ND1 A:HIS125 4.2 12.8 1.0
CG A:HIS125 4.2 12.4 1.0
O A:HOH539 4.3 35.4 1.0
CA A:CYS112 4.4 21.8 1.0
CA A:CYS107 4.5 15.5 1.0
CB A:VAL109 4.6 17.6 1.0
CG A:ARG114 4.7 28.7 1.0
CB A:ARG114 4.7 23.8 1.0
CG2 A:VAL109 4.8 17.1 1.0
C A:CYS112 4.9 22.1 1.0

Zinc binding site 2 out of 3 in 1a1i

Go back to Zinc Binding Sites List in 1a1i
Zinc binding site 2 out of 3 in the Radr (ZIF268 Variant) Zinc Finger-Dna Complex (Gcac 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 (Gcac Site) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn202

b:12.2
occ:1.00
NE2 A:HIS157 2.0 11.0 1.0
NE2 A:HIS153 2.1 9.2 1.0
SG A:CYS137 2.3 10.3 1.0
SG A:CYS140 2.3 10.9 1.0
CD2 A:HIS157 2.9 10.9 1.0
CD2 A:HIS153 3.1 9.2 1.0
CE1 A:HIS157 3.1 11.0 1.0
CB A:CYS137 3.1 9.8 1.0
CE1 A:HIS153 3.2 9.2 1.0
CB A:CYS140 3.3 11.3 1.0
N A:CYS140 3.6 11.7 1.0
CA A:CYS140 4.0 11.6 1.0
CG A:HIS157 4.1 11.9 1.0
ND1 A:HIS157 4.2 10.5 1.0
CG A:HIS153 4.2 8.5 1.0
ND1 A:HIS153 4.2 8.2 1.0
O A:HOH337 4.3 22.5 1.0
CB A:ILE139 4.5 8.7 0.5
CB A:ILE139 4.5 11.1 0.5
CA A:CYS137 4.6 9.7 1.0
C A:ILE139 4.6 11.5 1.0
C A:CYS140 4.7 12.8 1.0
N A:MET141 4.8 13.2 1.0
CA A:ILE139 4.9 10.2 1.0
CB A:ARG142 4.9 11.5 1.0
N A:ILE139 5.0 11.2 1.0
C A:CYS137 5.0 9.6 1.0

Zinc binding site 3 out of 3 in 1a1i

Go back to Zinc Binding Sites List in 1a1i
Zinc binding site 3 out of 3 in the Radr (ZIF268 Variant) Zinc Finger-Dna Complex (Gcac 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 (Gcac Site) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn203

b:10.7
occ:1.00
NE2 A:HIS185 1.9 7.9 1.0
NE2 A:HIS181 2.0 8.5 1.0
SG A:CYS165 2.3 8.5 1.0
SG A:CYS168 2.4 9.7 1.0
CD2 A:HIS181 2.9 7.9 1.0
CD2 A:HIS185 2.9 8.9 1.0
CE1 A:HIS185 3.0 9.4 1.0
CB A:CYS165 3.1 8.5 1.0
CE1 A:HIS181 3.1 8.5 1.0
CB A:CYS168 3.4 8.2 1.0
N A:CYS168 3.7 8.9 1.0
ND1 A:HIS185 4.1 10.0 1.0
CA A:CYS168 4.1 8.8 1.0
CG A:HIS185 4.1 9.8 1.0
CG A:HIS181 4.1 7.2 1.0
ND1 A:HIS181 4.2 6.8 1.0
CB A:ILE167 4.4 8.2 1.0
CA A:CYS165 4.6 7.1 1.0
C A:ILE167 4.7 8.4 1.0
CB A:ARG170 4.7 7.8 1.0
C A:CYS168 4.7 9.2 1.0
N A:GLY169 4.8 8.7 1.0
CA A:ILE167 4.9 8.1 1.0
N A:ILE167 4.9 8.9 1.0
N A:ARG170 4.9 7.9 1.0

Reference:

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
Page generated: Wed Dec 16 02:44:20 2020

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