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Cadmium in PDB 1g8f: Atp Sulfurylase From S. Cerevisiae

Enzymatic activity of Atp Sulfurylase From S. Cerevisiae

All present enzymatic activity of Atp Sulfurylase From S. Cerevisiae:
2.7.7.4;

Protein crystallography data

The structure of Atp Sulfurylase From S. Cerevisiae, PDB code: 1g8f was solved by T.C.Ullrich, M.Blaesse, R.Huber, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.68 / 1.95
Space group H 3 2
Cell size a, b, c (Å), α, β, γ (°) 187.094, 187.094, 115.999, 90.00, 90.00, 120.00
R / Rfree (%) 19.6 / 23.1

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Atp Sulfurylase From S. Cerevisiae (pdb code 1g8f). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 5 binding sites of Cadmium where determined in the Atp Sulfurylase From S. Cerevisiae, PDB code: 1g8f:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5;

Cadmium binding site 1 out of 5 in 1g8f

Go back to Cadmium Binding Sites List in 1g8f
Cadmium binding site 1 out of 5 in the Atp Sulfurylase From S. Cerevisiae


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Atp Sulfurylase From S. Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd512

b:28.0
occ:0.50
OD2 A:ASP168 2.2 33.1 1.0
O A:ACY535 2.2 33.8 1.0
OXT A:ACY535 2.4 33.0 1.0
NE2 A:HIS235 2.4 34.6 1.0
NE2 A:HIS236 2.4 32.2 1.0
O2 A:SO4525 2.5 60.2 1.0
C A:ACY535 2.6 36.7 1.0
CE1 A:HIS236 2.6 33.4 1.0
CE1 A:HIS235 3.2 37.3 1.0
CG A:ASP168 3.2 33.6 1.0
CD2 A:HIS235 3.4 36.1 1.0
CD2 A:HIS236 3.6 30.2 1.0
OD1 A:ASP168 3.7 34.6 1.0
S A:SO4525 3.8 58.3 1.0
ND1 A:HIS236 3.8 32.4 1.0
O4 A:SO4525 4.1 60.1 1.0
CH3 A:ACY535 4.1 37.0 1.0
O3 A:SO4525 4.2 61.8 1.0
CG A:HIS236 4.3 29.3 1.0
ND1 A:HIS235 4.4 37.7 1.0
CB A:ASP168 4.4 30.0 1.0
O A:HOH733 4.4 46.2 1.0
CG A:HIS235 4.5 34.2 1.0
NH1 A:ARG173 4.8 28.7 1.0
O1 A:SO4525 4.9 58.5 1.0

Cadmium binding site 2 out of 5 in 1g8f

Go back to Cadmium Binding Sites List in 1g8f
Cadmium binding site 2 out of 5 in the Atp Sulfurylase From S. Cerevisiae


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Atp Sulfurylase From S. Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd513

b:38.7
occ:0.50
O A:HOH1094 2.2 41.8 1.0
O A:HOH895 2.3 45.3 1.0
O A:HOH1102 2.4 64.4 1.0
O A:PRO39 2.4 32.9 1.0
SG A:CYS43 2.4 27.9 1.0
O A:HOH1021 3.0 58.6 1.0
C A:PRO39 3.3 32.1 1.0
N A:CYS43 3.8 24.8 1.0
CB A:CYS43 3.8 25.5 1.0
CA A:PRO39 4.0 34.0 1.0
CA A:CYS43 4.2 25.9 1.0
CB A:PRO39 4.3 35.7 1.0
CG A:LEU227 4.3 40.1 1.0
N A:ARG40 4.3 30.1 1.0
CB A:LEU42 4.4 25.6 1.0
CA A:ARG40 4.5 30.8 1.0
C A:LEU42 4.6 26.3 1.0
CD1 A:LEU227 4.7 40.8 1.0
CD2 A:LEU227 4.7 43.0 1.0
O A:HOH641 4.8 32.7 1.0
CA A:GLY226 4.9 32.2 1.0
CA A:LEU42 4.9 27.1 1.0
C A:GLY226 5.0 35.4 1.0

Cadmium binding site 3 out of 5 in 1g8f

Go back to Cadmium Binding Sites List in 1g8f
Cadmium binding site 3 out of 5 in the Atp Sulfurylase From S. Cerevisiae


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Atp Sulfurylase From S. Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd514

b:32.3
occ:1.00
OE2 A:GLU22 2.3 34.3 1.0
O A:HOH1033 2.4 35.5 1.0
O A:ACY526 2.4 30.7 1.0
O A:LEU18 2.4 31.1 1.0
OE1 A:GLU22 2.5 29.8 1.0
OXT A:ACY526 2.5 29.9 1.0
C A:ACY526 2.8 28.8 1.0
CD A:GLU22 2.8 32.6 1.0
C A:LEU18 3.4 31.5 1.0
N A:LYS19 4.2 30.3 1.0
CA A:LEU18 4.2 29.9 1.0
O A:HOH777 4.2 38.0 1.0
CG A:GLU22 4.3 32.4 1.0
CA A:LYS19 4.3 31.2 1.0
OD1 A:ASN21 4.3 39.0 1.0
CH3 A:ACY526 4.3 29.2 1.0
CB A:ASN21 4.4 33.4 1.0
C A:LYS19 4.6 29.5 1.0
N A:ASN21 4.6 31.2 1.0
N A:LYS20 4.7 29.6 1.0
CG A:ASN21 4.7 36.1 1.0
CB A:LEU18 4.7 30.7 1.0
N A:GLU22 4.8 32.9 1.0

Cadmium binding site 4 out of 5 in 1g8f

Go back to Cadmium Binding Sites List in 1g8f
Cadmium binding site 4 out of 5 in the Atp Sulfurylase From S. Cerevisiae


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Atp Sulfurylase From S. Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd515

b:40.8
occ:0.50
O A:ACY533 2.4 17.5 1.0
OXT A:ACY533 2.5 15.1 1.0
OE1 A:GLU182 2.6 16.9 1.0
C A:ACY533 2.7 14.1 1.0
OE2 A:GLU182 2.8 17.4 1.0
CD A:GLU182 3.0 15.2 1.0
CH3 A:ACY533 4.3 19.6 1.0
NZ A:LYS174 4.3 19.4 1.0
CG A:GLU182 4.5 17.9 1.0
CE A:LYS174 4.5 18.9 1.0
NH1 A:ARG186 4.6 17.5 1.0
O A:HOH561 4.7 20.8 1.0
CE1 A:PHE255 4.7 19.0 1.0
OXT A:ACY529 4.9 31.9 1.0
CZ A:PHE255 4.9 19.3 1.0
NH2 A:ARG186 5.0 17.3 1.0

Cadmium binding site 5 out of 5 in 1g8f

Go back to Cadmium Binding Sites List in 1g8f
Cadmium binding site 5 out of 5 in the Atp Sulfurylase From S. Cerevisiae


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Atp Sulfurylase From S. Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd516

b:27.9
occ:0.70
O A:ACY527 2.0 37.6 1.0
OXT A:ACY527 2.1 40.3 1.0
C A:ACY527 2.3 40.0 1.0
O A:ACY534 2.3 44.8 1.0
OD1 A:ASP189 2.3 33.2 1.0
OD2 A:ASP189 2.5 30.3 1.0
OXT A:ACY534 2.5 45.6 1.0
C A:ACY534 2.7 45.6 1.0
CG A:ASP189 2.7 31.1 1.0
CH3 A:ACY527 3.8 39.7 1.0
O A:HOH692 4.2 40.6 1.0
CH3 A:ACY534 4.2 46.2 1.0
CB A:ASP189 4.2 28.8 1.0
CD A:ARG190 4.8 24.8 1.0
CG A:ARG190 4.9 25.4 1.0
O A:HOH1007 4.9 56.2 1.0

Reference:

T.C.Ullrich, M.Blaesse, R.Huber. Crystal Structure of Atp Sulfurylase From Saccharomyces Cerevisiae, A Key Enzyme in Sulfate Activation. Embo J. V. 20 316 2001.
ISSN: ISSN 0261-4189
PubMed: 11157739
DOI: 10.1093/EMBOJ/20.3.316
Page generated: Fri Aug 28 11:51:31 2020
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