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Bromine in PDB 5m65: Crystal Structure of S-Adenosyl-L-Homocysteine Hydrolase From Bradyrhizobium Elkanii in Complex with Adenine

Enzymatic activity of Crystal Structure of S-Adenosyl-L-Homocysteine Hydrolase From Bradyrhizobium Elkanii in Complex with Adenine

All present enzymatic activity of Crystal Structure of S-Adenosyl-L-Homocysteine Hydrolase From Bradyrhizobium Elkanii in Complex with Adenine:
3.3.1.1;

Protein crystallography data

The structure of Crystal Structure of S-Adenosyl-L-Homocysteine Hydrolase From Bradyrhizobium Elkanii in Complex with Adenine, PDB code: 5m65 was solved by T.Manszewski, M.Jaskolski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.87 / 1.95
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 100.665, 103.051, 90.654, 90.00, 90.00, 90.00
R / Rfree (%) 17.7 / 21.3

Other elements in 5m65:

The structure of Crystal Structure of S-Adenosyl-L-Homocysteine Hydrolase From Bradyrhizobium Elkanii in Complex with Adenine also contains other interesting chemical elements:

Sodium (Na) 2 atoms

Bromine Binding Sites:

The binding sites of Bromine atom in the Crystal Structure of S-Adenosyl-L-Homocysteine Hydrolase From Bradyrhizobium Elkanii in Complex with Adenine (pdb code 5m65). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total 2 binding sites of Bromine where determined in the Crystal Structure of S-Adenosyl-L-Homocysteine Hydrolase From Bradyrhizobium Elkanii in Complex with Adenine, PDB code: 5m65:
Jump to Bromine binding site number: 1; 2;

Bromine binding site 1 out of 2 in 5m65

Go back to Bromine Binding Sites List in 5m65
Bromine binding site 1 out of 2 in the Crystal Structure of S-Adenosyl-L-Homocysteine Hydrolase From Bradyrhizobium Elkanii in Complex with Adenine


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of Crystal Structure of S-Adenosyl-L-Homocysteine Hydrolase From Bradyrhizobium Elkanii in Complex with Adenine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Br504

b:49.3
occ:1.00
 OD2 A:ASP371 3.5 37.2 1.0
CG A:ASP371 3.7 39.2 1.0
CE1 A:HIS373 4.0 31.6 1.0
CD A:PRO370 4.0 34.2 1.0
OD1 A:ASP371 4.1 36.3 1.0
CB A:PHE369 4.1 27.6 1.0
N A:ASP371 4.2 32.9 1.0
O A:HOH648 4.2 40.3 1.0
CD2 A:PHE369 4.3 31.9 1.0
CG A:PRO370 4.3 34.4 1.0
N A:PRO370 4.4 37.6 1.0
CB A:ASP371 4.4 38.2 1.0
ND1 A:HIS373 4.4 25.4 1.0
CB A:ARG329 4.4 33.9 1.0
O A:ARG329 4.5 25.1 1.0
CD A:ARG329 4.5 35.5 1.0
CB A:PRO370 4.6 32.6 1.0
CG A:ARG329 4.6 36.8 1.0
CG A:PHE369 4.6 30.6 1.0
CA A:ARG329 4.8 29.9 1.0
CA A:PRO370 4.9 39.2 1.0
CA A:ASP371 4.9 34.2 1.0
C A:PHE369 5.0 36.3 1.0

Bromine binding site 2 out of 2 in 5m65

Go back to Bromine Binding Sites List in 5m65
Bromine binding site 2 out of 2 in the Crystal Structure of S-Adenosyl-L-Homocysteine Hydrolase From Bradyrhizobium Elkanii in Complex with Adenine


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of Crystal Structure of S-Adenosyl-L-Homocysteine Hydrolase From Bradyrhizobium Elkanii in Complex with Adenine within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Br504

b:29.7
occ:1.00
 CG B:ASP371 3.5 41.3 1.0
OD2 B:ASP371 3.6 40.6 1.0
OD1 B:ASP371 3.7 32.0 1.0
CB B:ASP371 4.1 35.0 1.0
N B:ASP371 4.2 44.0 1.0
CB B:ARG329 4.2 33.5 1.0
CE1 B:HIS373 4.3 38.7 1.0
O B:ARG329 4.4 34.0 1.0
CG B:ARG329 4.4 39.9 1.0
CD B:ARG329 4.5 41.9 1.0
CD B:PRO370 4.6 40.0 1.0
ND1 B:HIS373 4.6 37.9 1.0
CB B:PHE369 4.6 34.3 1.0
CA B:ARG329 4.7 29.4 1.0
CD2 B:PHE369 4.7 29.5 1.0
CA B:ASP371 4.8 35.7 1.0
N B:PRO370 4.8 39.6 1.0
CB B:PRO370 4.9 40.1 1.0
C B:ARG329 5.0 31.3 1.0

Reference:

T.Manszewski, K.Szpotkowski, M.Jaskolski. Crystallographic and Saxs Studies Ofs-Adenosyl-L-Homocysteine Hydrolase Frombradyrhizobium Elkanii. Iucrj V. 4 271 2017.
ISSN: ESSN 2052-2525
PubMed: 28512574
DOI: 10.1107/S2052252517002433
Page generated: Thu Jul 11 00:16:24 2024

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