Atomistry » Chlorine » PDB 5f6x-5fdg » 5faj
Atomistry »
  Chlorine »
    PDB 5f6x-5fdg »
      5faj »

Chlorine in PDB 5faj: Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine

Enzymatic activity of Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine

All present enzymatic activity of Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine:
5.1.1.1;

Protein crystallography data

The structure of Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine, PDB code: 5faj was solved by R.Tassoni, N.S.Pannu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 106.60 / 1.64
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 79.740, 88.710, 109.140, 90.00, 102.25, 90.00
R / Rfree (%) 20.8 / 24.1

Other elements in 5faj:

The structure of Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine also contains other interesting chemical elements:

Sodium (Na) 6 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine (pdb code 5faj). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 5 binding sites of Chlorine where determined in the Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine, PDB code: 5faj:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5;

Chlorine binding site 1 out of 5 in 5faj

Go back to Chlorine Binding Sites List in 5faj
Chlorine binding site 1 out of 5 in the Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl403

b:18.0
occ:1.00
 N A:GLY150 3.1 24.9 1.0
NA A:NA402 3.1 32.0 1.0
NZ A:KCX141 3.4 46.7 1.0
N A:ARG148 3.5 23.4 1.0
N A:GLY149 3.5 20.4 1.0
CG A:ASP143 3.7 24.5 1.0
OD1 A:ASP143 3.7 25.8 1.0
CA A:GLY150 3.8 25.8 1.0
C A:ARG148 3.8 24.9 1.0
CB A:LEU146 3.8 22.3 1.0
CA A:ASP143 3.9 23.9 1.0
CB A:ASP143 3.9 25.5 1.0
N A:GLY147 4.0 24.4 1.0
CA A:ARG148 4.0 24.0 0.5
CA A:ARG148 4.0 25.5 0.5
C A:GLY149 4.1 28.1 1.0
CE A:KCX141 4.1 36.7 1.0
CB A:ARG148 4.1 25.4 0.5
CB A:ARG148 4.1 29.5 0.5
OD2 A:ASP143 4.2 22.8 1.0
CD2 A:LEU146 4.2 20.9 1.0
CA A:GLY149 4.3 23.1 1.0
CG A:LEU146 4.3 22.1 1.0
CX A:KCX141 4.4 54.5 1.0
O A:ALA142 4.4 27.1 1.0
OQ2 A:KCX141 4.4 56.6 1.0
C A:LEU146 4.5 24.5 1.0
O A:ARG148 4.5 22.9 1.0
NZ B:LYS273 4.5 28.1 1.0
CA A:LEU146 4.5 24.3 1.0
C A:GLY147 4.6 23.5 1.0
N A:ASP143 4.7 23.8 1.0
N A:LEU146 4.7 24.0 1.0
CA A:GLY147 4.7 24.4 1.0
CD A:KCX141 4.7 31.5 1.0
C A:GLY150 4.9 25.6 1.0
C A:ALA142 4.9 25.9 1.0
C A:ASP143 4.9 28.7 1.0
N A:THR144 5.0 27.2 1.0

Chlorine binding site 2 out of 5 in 5faj

Go back to Chlorine Binding Sites List in 5faj
Chlorine binding site 2 out of 5 in the Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl403

b:20.8
occ:1.00
 NA B:NA402 3.1 31.4 1.0
N B:GLY150 3.3 28.4 1.0
N B:ARG148 3.4 32.9 1.0
CG B:ASP143 3.5 24.3 1.0
N B:GLY149 3.6 28.9 1.0
NZ B:KCX141 3.6 49.0 1.0
OD1 B:ASP143 3.6 26.1 1.0
CB B:LEU146 3.7 27.7 1.0
C B:ARG148 3.8 31.4 1.0
CB B:ASP143 3.8 25.7 1.0
CA B:ASP143 3.8 28.3 1.0
N B:GLY147 3.9 29.4 1.0
CA B:GLY150 3.9 29.4 1.0
CA B:ARG148 3.9 32.7 1.0
OD2 B:ASP143 4.0 25.3 1.0
CB B:ARG148 4.1 33.1 1.0
CD2 B:LEU146 4.2 29.0 1.0
CG B:LEU146 4.2 28.6 1.0
C B:GLY149 4.3 29.3 1.0
CE B:KCX141 4.3 40.5 1.0
CA B:GLY149 4.4 28.9 1.0
C B:LEU146 4.4 30.2 1.0
CA B:LEU146 4.4 30.3 1.0
C B:GLY147 4.5 33.2 1.0
O B:ALA142 4.5 30.3 1.0
NZ A:LYS273 4.5 31.0 1.0
CX B:KCX141 4.5 61.1 1.0
N B:LEU146 4.5 28.5 1.0
O B:ARG148 4.6 27.0 1.0
OQ1 B:KCX141 4.6 55.5 1.0
CA B:GLY147 4.6 30.0 1.0
N B:ASP143 4.7 29.0 1.0
C B:ASP143 4.8 27.9 1.0
N B:THR144 4.9 27.6 1.0
CD B:KCX141 4.9 34.0 1.0
C B:GLY150 5.0 33.4 1.0

Chlorine binding site 3 out of 5 in 5faj

Go back to Chlorine Binding Sites List in 5faj
Chlorine binding site 3 out of 5 in the Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl404

b:29.0
occ:1.00
 OG B:SER312 2.9 29.4 1.0
CB B:SER311 3.6 18.4 1.0
CB B:HIS286 3.6 34.9 1.0
NE B:ARG328 3.8 36.4 1.0
C B:GLY327 3.8 22.3 1.0
CD B:ARG328 3.9 33.7 1.0
CB B:SER312 3.9 27.4 1.0
CA B:GLY327 4.0 23.5 1.0
N B:ARG328 4.0 20.9 1.0
O B:GLY327 4.0 23.1 1.0
CG B:ARG328 4.0 26.7 1.0
C B:SER311 4.1 20.9 1.0
CG B:HIS286 4.1 40.3 1.0
N B:SER312 4.2 20.6 1.0
CA B:ARG328 4.4 21.5 1.0
O B:SER311 4.4 24.6 1.0
CA B:SER311 4.4 20.4 1.0
OG B:SER311 4.6 18.8 1.0
CA B:SER312 4.6 25.4 1.0
ND1 B:HIS286 4.7 43.8 1.0
CD2 B:HIS286 4.7 42.2 1.0
CZ B:ARG328 4.8 38.3 1.0
O B:HOH540 4.8 45.1 1.0
CB B:ARG328 4.8 24.5 1.0
N B:GLY327 5.0 21.1 1.0
O B:HOH585 5.0 22.4 1.0

Chlorine binding site 4 out of 5 in 5faj

Go back to Chlorine Binding Sites List in 5faj
Chlorine binding site 4 out of 5 in the Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl405

b:15.7
occ:1.00
 NA C:NA402 3.1 28.2 1.0
N C:GLY150 3.2 23.6 1.0
N C:ARG148 3.4 22.3 1.0
NZ C:KCX141 3.6 47.3 1.0
CG C:ASP143 3.6 23.1 1.0
N C:GLY149 3.6 23.8 1.0
OD1 C:ASP143 3.6 24.5 1.0
CB C:LEU146 3.7 21.3 1.0
CB C:ASP143 3.8 21.8 1.0
CA C:ASP143 3.8 23.6 1.0
C C:ARG148 3.8 24.0 1.0
CA C:GLY150 3.8 27.3 1.0
N C:GLY147 3.9 22.2 1.0
CA C:ARG148 3.9 23.5 1.0
OD2 C:ASP143 4.1 22.6 1.0
CB C:ARG148 4.1 24.7 1.0
CD2 C:LEU146 4.2 22.6 1.0
C C:GLY149 4.2 28.2 1.0
CG C:LEU146 4.2 21.7 1.0
CE C:KCX141 4.2 36.1 1.0
CA C:GLY149 4.4 24.9 1.0
C C:LEU146 4.4 23.8 1.0
O C:ALA142 4.4 26.3 1.0
C C:GLY147 4.5 23.9 1.0
CA C:LEU146 4.5 21.9 1.0
NZ D:LYS273 4.5 25.0 1.0
CX C:KCX141 4.5 51.2 1.0
O C:ARG148 4.5 23.4 1.0
OQ1 C:KCX141 4.6 50.3 1.0
CA C:GLY147 4.6 25.6 1.0
N C:LEU146 4.6 25.0 1.0
N C:ASP143 4.6 22.4 1.0
CD C:KCX141 4.8 31.2 1.0
C C:ASP143 4.9 29.2 1.0
C C:GLY150 4.9 25.4 1.0
C C:ALA142 4.9 26.1 1.0
N C:THR144 4.9 25.2 1.0

Chlorine binding site 5 out of 5 in 5faj

Go back to Chlorine Binding Sites List in 5faj
Chlorine binding site 5 out of 5 in the Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Alanine Racemase From Streptomyces Coelicolor A3(2) in Complex with D- Cycloserine within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl403

b:35.5
occ:1.00
 N D:GLY150 2.9 37.8 1.0
N D:GLY149 3.4 43.9 1.0
NZ D:KCX141 3.4 66.4 1.0
N D:ARG148 3.4 41.9 1.0
CA D:GLY150 3.6 49.0 1.0
C D:ARG148 3.7 46.0 1.0
CG D:ASP143 3.7 49.0 1.0
OQ2 D:KCX141 3.8 84.3 1.0
OD1 D:ASP143 3.8 47.2 1.0
CB D:ASP143 3.9 50.3 1.0
CA D:ARG148 3.9 45.9 1.0
CA D:ASP143 3.9 50.1 1.0
C D:GLY149 3.9 44.5 1.0
CB D:LEU146 4.0 47.5 1.0
N D:GLY147 4.1 45.6 1.0
CB D:ARG148 4.1 50.5 1.0
CE D:KCX141 4.1 51.7 1.0
CA D:GLY149 4.1 41.5 1.0
CX D:KCX141 4.1 75.5 1.0
OD2 D:ASP143 4.1 53.0 1.0
CD2 D:LEU146 4.3 45.1 1.0
NZ C:LYS273 4.3 57.6 1.0
O D:ARG148 4.4 40.9 1.0
O D:ALA142 4.4 57.3 1.0
CG D:LEU146 4.5 47.1 1.0
C D:GLY147 4.5 49.1 1.0
CD D:KCX141 4.6 46.5 1.0
C D:LEU146 4.6 48.6 1.0
N D:ASP143 4.7 48.0 1.0
CA D:GLY147 4.7 49.1 1.0
C D:GLY150 4.7 51.9 1.0
CA D:LEU146 4.7 50.5 1.0
C D:ALA142 4.9 48.8 1.0
N D:LEU146 4.9 57.9 1.0
O D:GLY150 4.9 41.5 1.0
C D:ASP143 5.0 49.8 1.0

Reference:

R.Tassoni, L.T.Van Der Aart, M.Ubbink, G.P.Van Wezel, N.S.Pannu. Structural and Functional Characterization of the Alanine Racemase From Streptomyces Coelicolor A3(2). Biochem. Biophys. Res. V. 483 122 2017COMMUN..
ISSN: ESSN 1090-2104
PubMed: 28042035
DOI: 10.1016/J.BBRC.2016.12.183
Page generated: Fri Jul 26 07:43:30 2024

Last articles

Zn in 9J0N
Zn in 9J0O
Zn in 9J0P
Zn in 9FJX
Zn in 9EKB
Zn in 9C0F
Zn in 9CAH
Zn in 9CH0
Zn in 9CH3
Zn in 9CH1
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy