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Cadmium in PDB 1d66: Dna Recognition By GAL4: Structure of A Protein/Dna Complex

Protein crystallography data

The structure of Dna Recognition By GAL4: Structure of A Protein/Dna Complex, PDB code: 1d66 was solved by R.Marmorstein, M.Carey, M.Ptashne, S.C.Harrison, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 2.70
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 80.850, 80.850, 73.700, 90.00, 90.00, 90.00
R / Rfree (%) n/a / n/a

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Dna Recognition By GAL4: Structure of A Protein/Dna Complex (pdb code 1d66). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 4 binding sites of Cadmium where determined in the Dna Recognition By GAL4: Structure of A Protein/Dna Complex, PDB code: 1d66:
Jump to Cadmium binding site number: 1; 2; 3; 4;

Cadmium binding site 1 out of 4 in 1d66

Go back to Cadmium Binding Sites List in 1d66
Cadmium binding site 1 out of 4 in the Dna Recognition By GAL4: Structure of A Protein/Dna Complex


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Dna Recognition By GAL4: Structure of A Protein/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd67

b:34.7
occ:1.00
SG A:CYS38 2.5 40.3 1.0
SG A:CYS31 2.5 44.3 1.0
SG A:CYS11 2.5 43.6 1.0
SG A:CYS28 2.6 42.7 1.0
CB A:CYS11 3.3 37.8 1.0
CB A:CYS38 3.4 31.8 1.0
CB A:CYS31 3.4 39.8 1.0
CD A:CD68 3.5 39.6 1.0
CB A:CYS28 3.6 41.3 1.0
CA A:CYS38 3.7 31.3 1.0
N A:CYS28 3.9 38.6 1.0
O A:HOH325 4.2 16.3 1.0
CA A:CYS28 4.3 38.6 1.0
CG2 A:ILE13 4.6 37.6 1.0
CA A:CYS31 4.6 36.3 1.0
N A:CYS31 4.7 36.2 1.0
O A:GLU37 4.7 30.2 1.0
CA A:CYS11 4.8 39.1 1.0
C A:CYS38 4.8 32.9 1.0
N A:CYS38 4.8 30.1 1.0
OH A:TYR40 4.8 31.5 1.0
O A:CYS28 4.9 36.4 1.0
O A:HOH329 4.9 17.7 1.0
N A:ARG39 5.0 33.5 1.0
C A:CYS28 5.0 36.7 1.0

Cadmium binding site 2 out of 4 in 1d66

Go back to Cadmium Binding Sites List in 1d66
Cadmium binding site 2 out of 4 in the Dna Recognition By GAL4: Structure of A Protein/Dna Complex


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Dna Recognition By GAL4: Structure of A Protein/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd68

b:39.6
occ:1.00
SG A:CYS21 2.5 37.4 1.0
SG A:CYS14 2.5 37.3 1.0
SG A:CYS28 2.5 42.7 1.0
SG A:CYS11 2.5 43.6 1.0
CB A:CYS14 3.4 33.1 1.0
CB A:CYS28 3.5 41.3 1.0
CD A:CD67 3.5 34.7 1.0
CB A:CYS21 3.6 32.2 1.0
CB A:CYS11 3.6 37.8 1.0
CA A:CYS21 4.0 30.2 1.0
N A:CYS11 4.1 40.4 1.0
N A:CYS14 4.2 31.9 1.0
CA A:CYS11 4.4 39.1 1.0
CA A:CYS14 4.4 34.5 1.0
N A:SER22 4.8 31.4 1.0
O A:CYS11 4.8 38.0 1.0
CG2 A:ILE13 4.8 37.6 1.0
C A:CYS21 4.9 27.1 1.0
CA A:CYS28 5.0 38.6 1.0
C A:CYS11 5.0 38.6 1.0

Cadmium binding site 3 out of 4 in 1d66

Go back to Cadmium Binding Sites List in 1d66
Cadmium binding site 3 out of 4 in the Dna Recognition By GAL4: Structure of A Protein/Dna Complex


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Dna Recognition By GAL4: Structure of A Protein/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd67

b:33.0
occ:1.00
SG B:CYS31 2.5 26.0 1.0
SG B:CYS38 2.5 33.4 1.0
SG B:CYS28 2.5 32.3 1.0
SG B:CYS11 2.5 33.5 1.0
CB B:CYS31 3.4 36.1 1.0
CD B:CD68 3.4 27.8 1.0
CB B:CYS11 3.4 27.6 1.0
CB B:CYS38 3.5 35.8 1.0
CB B:CYS28 3.7 20.7 1.0
CA B:CYS38 3.9 35.4 1.0
N B:CYS28 4.3 23.1 1.0
N B:CYS31 4.4 35.7 1.0
O B:CYS28 4.5 25.3 1.0
CA B:CYS28 4.6 23.1 1.0
CA B:CYS31 4.6 37.4 1.0
CE1 B:TYR40 4.7 11.7 1.0
C B:CYS28 4.9 23.1 1.0
CA B:CYS11 4.9 23.2 1.0
N B:ARG39 4.9 35.5 1.0
N B:CYS38 4.9 33.1 1.0
CB B:ILE13 5.0 11.7 1.0
C B:CYS38 5.0 35.1 1.0

Cadmium binding site 4 out of 4 in 1d66

Go back to Cadmium Binding Sites List in 1d66
Cadmium binding site 4 out of 4 in the Dna Recognition By GAL4: Structure of A Protein/Dna Complex


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Dna Recognition By GAL4: Structure of A Protein/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd68

b:27.8
occ:1.00
SG B:CYS21 2.5 26.7 1.0
SG B:CYS14 2.5 32.8 1.0
SG B:CYS11 2.5 33.5 1.0
SG B:CYS28 2.5 32.3 1.0
CB B:CYS14 3.3 26.9 1.0
CD B:CD67 3.4 33.0 1.0
CB B:CYS28 3.5 20.7 1.0
CB B:CYS21 3.5 31.4 1.0
CB B:CYS11 3.6 27.6 1.0
CA B:CYS21 4.0 30.4 1.0
N B:CYS11 4.2 22.7 1.0
CA B:CYS11 4.4 23.2 1.0
N B:CYS14 4.5 27.1 1.0
CA B:CYS14 4.6 27.6 1.0
N B:SER22 4.7 29.9 1.0
O B:CYS11 4.7 27.0 1.0
O B:LYS20 4.8 27.1 1.0
OH B:TYR40 4.9 10.3 1.0
C B:CYS11 4.9 22.8 1.0
C B:CYS21 4.9 29.2 1.0
CE B:LYS30 4.9 22.8 1.0
CA B:CYS28 5.0 23.1 1.0
N B:CYS21 5.0 25.3 1.0

Reference:

R.Marmorstein, M.Carey, M.Ptashne, S.C.Harrison. Dna Recognition By GAL4: Structure of A Protein-Dna Complex. Nature V. 356 408 1992.
ISSN: ISSN 0028-0836
PubMed: 1557122
DOI: 10.1038/356408A0
Page generated: Sat Dec 12 08:08:39 2020

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