Chlorine in PDB 7zd8: Crystal Structure of the R24E Mutant of S-Adenosyl-L-Homocysteine Hydrolase From Synechocystis Sp. Pcc 6803 Cocrystallized with Adenosine in the Presence of Rb+ Cations

Enzymatic activity of Crystal Structure of the R24E Mutant of S-Adenosyl-L-Homocysteine Hydrolase From Synechocystis Sp. Pcc 6803 Cocrystallized with Adenosine in the Presence of Rb+ Cations

All present enzymatic activity of Crystal Structure of the R24E Mutant of S-Adenosyl-L-Homocysteine Hydrolase From Synechocystis Sp. Pcc 6803 Cocrystallized with Adenosine in the Presence of Rb+ Cations:
3.3.1.1;

Protein crystallography data

The structure of Crystal Structure of the R24E Mutant of S-Adenosyl-L-Homocysteine Hydrolase From Synechocystis Sp. Pcc 6803 Cocrystallized with Adenosine in the Presence of Rb+ Cations, PDB code: 7zd8 was solved by P.H.Malecki, B.Imiolczyk, K.Wozniak, K.Brzezinski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 62.84 / 2.03
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 120.31, 195.837, 81.943, 90, 90, 90
R / Rfree (%) 16.8 / 20.3

Other elements in 7zd8:

The structure of Crystal Structure of the R24E Mutant of S-Adenosyl-L-Homocysteine Hydrolase From Synechocystis Sp. Pcc 6803 Cocrystallized with Adenosine in the Presence of Rb+ Cations also contains other interesting chemical elements:

Rubidium (Rb) 4 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of the R24E Mutant of S-Adenosyl-L-Homocysteine Hydrolase From Synechocystis Sp. Pcc 6803 Cocrystallized with Adenosine in the Presence of Rb+ Cations (pdb code 7zd8). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the Crystal Structure of the R24E Mutant of S-Adenosyl-L-Homocysteine Hydrolase From Synechocystis Sp. Pcc 6803 Cocrystallized with Adenosine in the Presence of Rb+ Cations, PDB code: 7zd8:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in 7zd8

Go back to Chlorine Binding Sites List in 7zd8
Chlorine binding site 1 out of 3 in the Crystal Structure of the R24E Mutant of S-Adenosyl-L-Homocysteine Hydrolase From Synechocystis Sp. Pcc 6803 Cocrystallized with Adenosine in the Presence of Rb+ Cations


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of the R24E Mutant of S-Adenosyl-L-Homocysteine Hydrolase From Synechocystis Sp. Pcc 6803 Cocrystallized with Adenosine in the Presence of Rb+ Cations within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl505

b:58.4
occ:0.60
 CL A:CL505 0.0 58.4 0.6
CL A:CL505 2.0 50.4 0.4
NE A:ARG41 3.8 54.3 1.0
NH2 A:ARG41 4.0 48.9 1.0
CZ A:ARG41 4.3 53.5 1.0
CG1 A:ILE38 4.4 43.3 1.0
CD2 A:LEU368 4.6 41.1 1.0
CD A:ARG41 4.8 50.8 1.0
CD1 A:LEU398 4.8 48.3 1.0
CD1 A:LEU368 4.9 42.2 1.0

Chlorine binding site 2 out of 3 in 7zd8

Go back to Chlorine Binding Sites List in 7zd8
Chlorine binding site 2 out of 3 in the Crystal Structure of the R24E Mutant of S-Adenosyl-L-Homocysteine Hydrolase From Synechocystis Sp. Pcc 6803 Cocrystallized with Adenosine in the Presence of Rb+ Cations


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of the R24E Mutant of S-Adenosyl-L-Homocysteine Hydrolase From Synechocystis Sp. Pcc 6803 Cocrystallized with Adenosine in the Presence of Rb+ Cations within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl505

b:50.4
occ:0.40
 CL A:CL505 0.0 50.4 0.4
CL A:CL505 2.0 58.4 0.6
NE A:ARG41 3.0 54.3 1.0
CD A:ARG41 3.8 50.8 1.0
CZ A:ARG41 4.0 53.5 1.0
NH2 A:ARG41 4.0 48.9 1.0
CG1 A:ILE38 4.0 43.3 1.0
CA A:ILE38 4.1 45.3 1.0
O A:GLN37 4.2 50.0 1.0
CB A:ARG41 4.2 49.9 1.0
CG A:GLN37 4.4 58.6 1.0
N A:ILE38 4.4 46.0 1.0
C A:GLN37 4.5 48.2 1.0
CG A:ARG41 4.6 53.1 1.0
CB A:ILE38 4.6 46.5 1.0
NE2 A:GLN37 4.8 65.9 1.0
CD A:GLN37 5.0 63.4 1.0

Chlorine binding site 3 out of 3 in 7zd8

Go back to Chlorine Binding Sites List in 7zd8
Chlorine binding site 3 out of 3 in the Crystal Structure of the R24E Mutant of S-Adenosyl-L-Homocysteine Hydrolase From Synechocystis Sp. Pcc 6803 Cocrystallized with Adenosine in the Presence of Rb+ Cations


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of the R24E Mutant of S-Adenosyl-L-Homocysteine Hydrolase From Synechocystis Sp. Pcc 6803 Cocrystallized with Adenosine in the Presence of Rb+ Cations within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl505

b:71.7
occ:1.00
 O C:HOH613 3.5 60.8 1.0
NE C:ARG41 3.5 55.0 1.0
O C:HOH629 3.5 54.7 1.0
NH2 C:ARG41 3.9 52.1 1.0
CG1 C:ILE38 4.1 43.8 1.0
CZ C:ARG41 4.2 53.3 1.0
NE2 C:GLN37 4.4 48.1 0.5
CD C:ARG41 4.5 47.6 1.0
CD1 C:LEU398 4.7 44.2 1.0
CD C:GLN37 4.7 48.1 0.5
CA C:ILE38 4.7 46.9 1.0
CG C:GLN37 4.8 49.9 0.5
N C:ILE38 4.9 45.9 1.0
CB C:ILE38 5.0 47.9 1.0

Reference:

P.H.Malecki, B.Imiolczyk, J.Barciszewski, J.Czyrko-Horczak, J.Sliwiak, M.Gawel, K.Wozniak, M.Jaskolski, K.Brzezinski. Biochemical and Structural Insights Into An Unusual, Alkali-Metal-Independent S-Adenosyl-L-Homocysteine Hydrolase From Synechocystis Sp. Pcc 6803. Acta Crystallogr D Struct V. 78 865 2022BIOL.
ISSN: ISSN 2059-7983
PubMed: 35775986
DOI: 10.1107/S2059798322005605
Page generated: Tue Jul 30 06:12:42 2024

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