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Zinc in PDB 1a1l: ZIF268 Zinc Finger-Dna Complex (Gcac Site)

Protein crystallography data

The structure of ZIF268 Zinc Finger-Dna Complex (Gcac Site), PDB code: 1a1l 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 / 2.30
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 43.300, 55.900, 132.500, 90.00, 90.00, 90.00
R / Rfree (%) 19.6 / 26.7

Zinc Binding Sites:

The binding sites of Zinc atom in the ZIF268 Zinc Finger-Dna Complex (Gcac Site) (pdb code 1a1l). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the ZIF268 Zinc Finger-Dna Complex (Gcac Site), PDB code: 1a1l:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 1a1l

Go back to Zinc Binding Sites List in 1a1l
Zinc binding site 1 out of 3 in the ZIF268 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 ZIF268 Zinc Finger-Dna Complex (Gcac Site) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn201

b:38.9
occ:1.00
NE2 A:HIS129 1.9 33.5 1.0
SG A:CYS112 2.2 43.9 1.0
NE2 A:HIS125 2.2 35.5 1.0
SG A:CYS107 2.2 33.5 1.0
CD2 A:HIS129 2.8 30.2 1.0
CB A:CYS112 2.9 50.0 1.0
CE1 A:HIS129 3.0 32.4 1.0
CE1 A:HIS125 3.1 34.0 1.0
CB A:CYS107 3.2 39.2 1.0
CD2 A:HIS125 3.2 34.6 1.0
CG A:HIS129 4.0 29.2 1.0
ND1 A:HIS129 4.0 30.0 1.0
ND1 A:HIS125 4.2 35.2 1.0
CA A:CYS112 4.3 51.6 1.0
CG A:HIS125 4.3 35.6 1.0
CB A:ARG114 4.5 53.2 1.0
CA A:CYS107 4.6 43.9 1.0
CD1 A:ILE128 4.6 37.1 1.0
CB A:VAL109 4.7 41.1 1.0
CG A:ARG114 4.7 54.9 1.0
C A:CYS112 4.8 52.5 1.0
CG1 A:ILE128 4.9 35.7 1.0

Zinc binding site 2 out of 3 in 1a1l

Go back to Zinc Binding Sites List in 1a1l
Zinc binding site 2 out of 3 in the ZIF268 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 ZIF268 Zinc Finger-Dna Complex (Gcac Site) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn202

b:30.0
occ:1.00
NE2 A:HIS157 1.9 22.2 1.0
NE2 A:HIS153 2.1 21.9 1.0
SG A:CYS137 2.2 25.4 1.0
SG A:CYS140 2.2 25.0 1.0
CE1 A:HIS157 2.9 22.4 1.0
CD2 A:HIS153 3.0 23.9 1.0
CD2 A:HIS157 3.0 20.8 1.0
CE1 A:HIS153 3.1 21.1 1.0
CB A:CYS137 3.2 30.1 1.0
CB A:CYS140 3.3 27.4 1.0
N A:CYS140 3.7 30.3 1.0
O A:HOH365 4.0 42.4 1.0
ND1 A:HIS157 4.0 22.6 1.0
CA A:CYS140 4.0 28.4 1.0
CG A:HIS157 4.1 20.0 1.0
CG A:HIS153 4.1 23.7 1.0
ND1 A:HIS153 4.2 23.5 1.0
CB A:ILE139 4.6 28.1 1.0
CA A:CYS137 4.6 32.2 1.0
C A:ILE139 4.7 31.4 1.0
C A:CYS140 4.7 30.1 1.0
CB A:ARG142 4.9 27.3 1.0
O A:CYS137 4.9 35.4 1.0
N A:MET141 5.0 32.5 1.0
C A:CYS137 5.0 35.5 1.0

Zinc binding site 3 out of 3 in 1a1l

Go back to Zinc Binding Sites List in 1a1l
Zinc binding site 3 out of 3 in the ZIF268 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 ZIF268 Zinc Finger-Dna Complex (Gcac Site) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn203

b:25.5
occ:1.00
NE2 A:HIS185 2.0 19.1 1.0
NE2 A:HIS181 2.2 13.0 1.0
SG A:CYS165 2.2 21.7 1.0
SG A:CYS168 2.5 23.1 1.0
CE1 A:HIS185 2.8 19.5 1.0
CD2 A:HIS181 3.0 15.8 1.0
CD2 A:HIS185 3.1 21.3 1.0
CB A:CYS165 3.1 18.9 1.0
CE1 A:HIS181 3.2 14.8 1.0
CB A:CYS168 3.3 19.7 1.0
N A:CYS168 3.6 22.8 1.0
CA A:CYS168 4.0 20.3 1.0
ND1 A:HIS185 4.0 21.6 1.0
CG A:HIS185 4.1 21.0 1.0
CG A:HIS181 4.2 15.8 1.0
ND1 A:HIS181 4.2 15.2 1.0
CB A:ILE167 4.5 20.1 1.0
CA A:CYS165 4.6 19.9 1.0
N A:GLY169 4.6 19.2 1.0
C A:CYS168 4.6 20.0 1.0
C A:ILE167 4.6 22.2 1.0
CB A:ARG170 4.6 21.9 1.0
N A:ARG170 4.7 23.1 1.0
N A:ILE167 4.9 22.2 1.0
CA A:ILE167 4.9 20.3 1.0
C A:CYS165 5.0 21.0 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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