Atomistry » Bromine » PDB 5i74-5l3j » 5jsp
Atomistry »
  Bromine »
    PDB 5i74-5l3j »
      5jsp »

Bromine in PDB 5jsp: New Mechanistic Insight From Substrate and Product Bound Structures of the Metal-Dependent Dimethylsulfoniopropionate Lyase Dddq

Enzymatic activity of New Mechanistic Insight From Substrate and Product Bound Structures of the Metal-Dependent Dimethylsulfoniopropionate Lyase Dddq

All present enzymatic activity of New Mechanistic Insight From Substrate and Product Bound Structures of the Metal-Dependent Dimethylsulfoniopropionate Lyase Dddq:
4.4.1.3;

Protein crystallography data

The structure of New Mechanistic Insight From Substrate and Product Bound Structures of the Metal-Dependent Dimethylsulfoniopropionate Lyase Dddq, PDB code: 5jsp was solved by A.E.Brummett, M.Dey, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.77 / 2.20
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 48.745, 88.101, 92.998, 90.00, 90.00, 90.00
R / Rfree (%) 19 / 22.8

Other elements in 5jsp:

The structure of New Mechanistic Insight From Substrate and Product Bound Structures of the Metal-Dependent Dimethylsulfoniopropionate Lyase Dddq also contains other interesting chemical elements:

Iron (Fe) 2 atoms
Chlorine (Cl) 6 atoms

Bromine Binding Sites:

The binding sites of Bromine atom in the New Mechanistic Insight From Substrate and Product Bound Structures of the Metal-Dependent Dimethylsulfoniopropionate Lyase Dddq (pdb code 5jsp). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total 2 binding sites of Bromine where determined in the New Mechanistic Insight From Substrate and Product Bound Structures of the Metal-Dependent Dimethylsulfoniopropionate Lyase Dddq, PDB code: 5jsp:
Jump to Bromine binding site number: 1; 2;

Bromine binding site 1 out of 2 in 5jsp

Go back to Bromine Binding Sites List in 5jsp
Bromine binding site 1 out of 2 in the New Mechanistic Insight From Substrate and Product Bound Structures of the Metal-Dependent Dimethylsulfoniopropionate Lyase Dddq


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of New Mechanistic Insight From Substrate and Product Bound Structures of the Metal-Dependent Dimethylsulfoniopropionate Lyase Dddq within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br303

b:21.0
occ:1.00
 N A:GLY53 3.3 15.6 1.0
O A:HOH540 3.3 26.5 1.0
N A:GLY136 3.5 11.5 1.0
O A:HOH415 3.5 13.0 1.0
CA A:GLY53 3.5 11.9 1.0
O A:HOH522 3.8 36.5 1.0
CA A:ALA135 3.9 12.1 1.0
CD A:PRO52 3.9 14.8 1.0
C A:GLY53 4.0 18.4 1.0
CB A:GLN51 4.0 15.1 1.0
N A:PRO52 4.1 14.8 1.0
CB A:ALA135 4.1 15.5 1.0
C A:ALA135 4.2 11.1 1.0
O A:GLY53 4.3 18.3 1.0
C A:GLN51 4.4 11.5 1.0
CA A:GLY136 4.4 13.3 1.0
C A:PRO52 4.5 16.2 1.0
CB A:ALA151 4.5 15.9 1.0
CA A:GLN51 4.5 14.3 1.0
CG A:PRO52 4.7 13.9 1.0
CG A:GLN51 4.7 13.9 1.0
N A:SER54 4.7 17.9 1.0
O A:GLY136 4.8 12.2 1.0
O A:HOH419 4.8 19.3 1.0
O A:LEU134 4.8 9.4 1.0
CA A:PRO52 4.9 7.5 1.0

Bromine binding site 2 out of 2 in 5jsp

Go back to Bromine Binding Sites List in 5jsp
Bromine binding site 2 out of 2 in the New Mechanistic Insight From Substrate and Product Bound Structures of the Metal-Dependent Dimethylsulfoniopropionate Lyase Dddq


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of New Mechanistic Insight From Substrate and Product Bound Structures of the Metal-Dependent Dimethylsulfoniopropionate Lyase Dddq within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Br303

b:19.3
occ:1.00
 O B:HOH545 3.1 28.6 1.0
N B:GLY53 3.3 13.5 1.0
O B:HOH413 3.3 19.7 1.0
N B:GLY136 3.4 10.4 1.0
CA B:GLY53 3.6 12.6 1.0
CD B:PRO52 3.8 13.9 1.0
CA B:ALA135 3.9 12.5 1.0
CB B:GLN51 3.9 17.2 1.0
N B:PRO52 4.0 16.7 1.0
C B:GLY53 4.1 14.6 1.0
C B:ALA135 4.1 10.2 1.0
CA B:GLY136 4.3 11.1 1.0
CB B:ALA135 4.3 10.6 1.0
C B:GLN51 4.3 15.7 1.0
CB B:ALA151 4.3 11.0 1.0
O B:GLY53 4.4 13.0 1.0
C B:PRO52 4.5 16.6 1.0
CA B:GLN51 4.5 15.4 1.0
CG B:GLN51 4.6 13.6 1.0
CG B:PRO52 4.6 14.6 1.0
O B:GLY136 4.6 11.6 1.0
N B:SER54 4.7 12.1 1.0
O B:HOH418 4.8 13.2 1.0
O B:LEU134 4.8 8.7 1.0
CA B:PRO52 4.8 16.0 1.0
C B:GLY136 5.0 14.6 1.0

Reference:

A.E.Brummett, M.Dey. New Mechanistic Insight From Substrate- and Product-Bound Structures of the Metal-Dependent Dimethylsulfoniopropionate Lyase Dddq. Biochemistry V. 55 6162 2016.
ISSN: ISSN 1520-4995
PubMed: 27755868
DOI: 10.1021/ACS.BIOCHEM.6B00585
Page generated: Mon Jul 7 08:32:47 2025

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy