Atomistry » Chlorine » PDB 8k8j-8okf » 8oi4
Atomistry »
  Chlorine »
    PDB 8k8j-8okf »
      8oi4 »

Chlorine in PDB 8oi4: Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154

Enzymatic activity of Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154

All present enzymatic activity of Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154:
3.2.1.23;

Protein crystallography data

The structure of Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154, PDB code: 8oi4 was solved by T.Pijning, L.Hameleers, E.Jurak, A.Guskov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.40 / 1.76
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 96.316, 94.581, 108.264, 90, 105.45, 90
R / Rfree (%) 15.2 / 17.1

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154 (pdb code 8oi4). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 6 binding sites of Chlorine where determined in the Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154, PDB code: 8oi4:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6;

Chlorine binding site 1 out of 6 in 8oi4

Go back to Chlorine Binding Sites List in 8oi4
Chlorine binding site 1 out of 6 in the Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl503

b:29.2
occ:1.00
 O A:HOH698 3.1 30.5 1.0
O A:HOH710 3.1 25.3 1.0
NH2 A:ARG292 3.2 27.4 1.0
NE1 A:TRP177 3.2 27.4 1.0
NH1 A:ARG292 3.4 24.4 1.0
ND2 A:ASN176 3.6 23.7 1.0
C3 A:GOL501 3.7 37.6 1.0
CD1 A:TRP177 3.7 25.0 1.0
CZ A:ARG292 3.7 30.2 1.0
CE2 A:TYR228 4.0 23.2 1.0
C1 A:GOL501 4.0 36.7 1.0
OH A:TYR228 4.2 24.8 1.0
CZ A:TYR228 4.3 22.8 1.0
OD1 A:ASN176 4.3 26.1 1.0
C2 A:GOL501 4.4 34.3 1.0
CG A:ASN176 4.4 27.7 1.0
O A:HOH720 4.5 37.6 1.0
CE2 A:TRP177 4.5 26.1 1.0
O3 A:GOL501 4.6 40.1 1.0
CD2 A:TYR228 4.7 22.9 1.0

Chlorine binding site 2 out of 6 in 8oi4

Go back to Chlorine Binding Sites List in 8oi4
Chlorine binding site 2 out of 6 in the Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl502

b:30.2
occ:1.00
 NH2 B:ARG292 3.1 26.4 1.0
O B:HOH655 3.1 31.1 1.0
O B:HOH686 3.2 27.4 1.0
NE1 B:TRP177 3.2 26.6 1.0
NH1 B:ARG292 3.4 25.6 1.0
ND2 B:ASN176 3.6 25.5 1.0
CZ B:ARG292 3.7 29.1 1.0
CD1 B:TRP177 3.7 26.4 1.0
C3 B:GOL501 3.8 37.7 1.0
C1 B:GOL501 3.9 34.4 1.0
CE2 B:TYR228 4.0 25.6 1.0
OH B:TYR228 4.2 25.4 1.0
CZ B:TYR228 4.3 24.1 1.0
OD1 B:ASN176 4.3 26.4 1.0
C2 B:GOL501 4.3 35.8 1.0
CG B:ASN176 4.4 24.2 1.0
CE2 B:TRP177 4.5 24.9 1.0
O B:HOH724 4.5 36.4 1.0
O3 B:GOL501 4.6 36.5 1.0
CD2 B:TYR228 4.7 26.7 1.0
NE B:ARG292 5.0 28.2 1.0

Chlorine binding site 3 out of 6 in 8oi4

Go back to Chlorine Binding Sites List in 8oi4
Chlorine binding site 3 out of 6 in the Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl503

b:41.5
occ:1.00
 O B:ARG292 2.7 23.0 1.0
O B:PHE290 2.8 23.3 1.0
N B:TYR227 2.9 21.0 1.0
CB B:ASP226 3.4 24.4 1.0
C B:GLY291 3.5 25.2 1.0
CD2 B:TYR227 3.5 21.6 1.0
CB B:TYR227 3.6 24.0 1.0
CA B:GLY291 3.6 23.6 1.0
CA B:ASP226 3.7 22.2 1.0
C B:ASP226 3.7 24.2 1.0
O B:GLY291 3.8 25.2 1.0
N B:ARG292 3.8 24.6 1.0
CA B:TYR227 3.8 21.7 1.0
C B:ARG292 3.8 23.2 1.0
C B:PHE290 3.8 21.4 1.0
OH B:TYR231 3.9 23.6 1.0
CG B:TYR227 4.0 20.8 1.0
CE2 B:TYR231 4.2 22.8 1.0
N B:GLY291 4.2 24.4 1.0
SD B:MET294 4.3 28.4 1.0
CG B:ASP226 4.4 25.8 1.0
CA B:ARG292 4.4 25.2 1.0
CZ B:TYR231 4.4 21.9 1.0
CE2 B:TYR227 4.6 20.1 1.0
C B:TYR227 4.6 24.7 1.0
C B:SER293 4.7 23.4 1.0
OD1 B:ASP226 4.8 27.3 1.0
O B:SER293 4.8 24.8 1.0
N B:TYR228 4.9 23.1 1.0
N B:MET294 4.9 23.0 1.0
N B:SER293 4.9 24.1 1.0
O B:ASP226 4.9 27.8 1.0

Chlorine binding site 4 out of 6 in 8oi4

Go back to Chlorine Binding Sites List in 8oi4
Chlorine binding site 4 out of 6 in the Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl502

b:31.1
occ:1.00
 NH2 C:ARG292 3.1 30.2 1.0
O C:HOH617 3.2 30.7 1.0
O C:HOH690 3.2 33.3 1.0
NE1 C:TRP177 3.2 28.4 1.0
NH1 C:ARG292 3.4 27.1 1.0
ND2 C:ASN176 3.6 25.6 1.0
C1 C:GOL501 3.6 34.9 1.0
CZ C:ARG292 3.7 32.2 1.0
CD1 C:TRP177 3.7 27.1 1.0
C3 C:GOL501 3.9 39.1 1.0
CE1 C:TYR228 4.1 25.4 1.0
OD1 C:ASN176 4.3 27.2 1.0
CZ C:TYR228 4.3 26.2 1.0
OH C:TYR228 4.3 28.2 1.0
C2 C:GOL501 4.3 46.9 1.0
CG C:ASN176 4.4 28.9 1.0
O C:HOH659 4.4 36.2 1.0
CE2 C:TRP177 4.5 26.6 1.0
CD1 C:TYR228 4.8 25.1 1.0
O1 C:GOL501 4.8 39.6 1.0
NE C:ARG292 5.0 30.8 1.0

Chlorine binding site 5 out of 6 in 8oi4

Go back to Chlorine Binding Sites List in 8oi4
Chlorine binding site 5 out of 6 in the Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl503

b:53.0
occ:1.00
 O D:GLY285 2.8 31.6 1.0
O D:ALA329 2.8 29.6 1.0
NE1 C:TRP399 2.9 27.5 1.0
CZ2 C:TRP399 3.4 26.7 1.0
CE2 C:TRP399 3.5 27.2 1.0
CG D:ARG332 3.5 45.9 0.5
N D:LEU333 3.5 31.9 1.0
CB D:LEU333 3.6 31.3 1.0
C D:ALA329 3.7 30.5 1.0
CB D:ARG332 3.7 32.6 0.5
CG D:ARG332 3.7 34.1 0.5
CB D:ARG332 3.8 38.4 0.5
CA D:ALA329 3.8 30.0 1.0
CA D:LEU333 3.9 31.3 1.0
C D:GLY285 4.0 29.5 1.0
CE1 D:PHE287 4.0 28.7 1.0
CD1 C:TRP399 4.1 27.9 1.0
C D:ARG332 4.2 34.9 1.0
CD1 D:LEU333 4.2 33.6 1.0
CB D:ALA329 4.2 29.8 1.0
CA D:THR286 4.3 26.4 1.0
CG D:LEU333 4.4 31.1 1.0
CA D:ARG332 4.4 34.5 0.5
CA D:ARG332 4.5 37.0 0.5
CD1 D:PHE287 4.6 28.6 1.0
N D:THR286 4.6 25.7 1.0
CH2 C:TRP399 4.7 26.1 1.0
CD2 C:TRP399 4.8 26.8 1.0
CD2 D:LEU333 4.8 31.8 1.0
CD D:ARG332 4.9 46.2 0.5
N D:ARG332 4.9 33.6 1.0
CG2 D:THR286 4.9 29.5 1.0
CZ D:PHE287 4.9 28.8 1.0
N D:MET330 4.9 30.0 1.0
O D:ALA328 5.0 33.3 1.0
O D:ARG332 5.0 37.0 1.0

Chlorine binding site 6 out of 6 in 8oi4

Go back to Chlorine Binding Sites List in 8oi4
Chlorine binding site 6 out of 6 in the Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Metagenomic Beta-Galactosidase From Glycoside Hydrolase Family GH154 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl503

b:30.5
occ:1.00
 O D:HOH648 3.0 30.8 1.0
NH2 D:ARG292 3.1 29.5 1.0
NE1 D:TRP177 3.2 26.2 1.0
O D:HOH656 3.2 27.9 1.0
NH1 D:ARG292 3.4 25.6 1.0
ND2 D:ASN176 3.6 26.8 1.0
CD1 D:TRP177 3.7 25.7 1.0
C3 D:GOL501 3.7 40.5 1.0
CZ D:ARG292 3.7 32.4 1.0
C1 D:GOL501 3.9 33.9 1.0
CE2 D:TYR228 4.0 27.9 1.0
OH D:TYR228 4.2 26.3 1.0
OD1 D:ASN176 4.2 27.2 1.0
CZ D:TYR228 4.2 28.8 1.0
C2 D:GOL501 4.3 43.3 1.0
O D:HOH772 4.3 55.0 1.0
CG D:ASN176 4.4 25.5 1.0
CE2 D:TRP177 4.5 26.2 1.0
O D:HOH679 4.6 33.0 1.0
O3 D:GOL501 4.7 37.0 1.0
CD2 D:TYR228 4.7 25.7 1.0
O D:HOH773 4.9 53.1 1.0

Reference:

L.Hameleers, T.Pijning, B.B.Gray, R.Faure, E.Jurak. Novel Beta-Galactosidase Activity and First Crystal Structure of Glycoside Hydrolase Family 154. N Biotechnol V. 80 1 2023.
ISSN: ESSN 1876-4347
PubMed: 38163476
DOI: 10.1016/J.NBT.2023.12.011
Page generated: Tue Jul 30 11:07:04 2024

Last articles

Mg in 4Y52
Mg in 4Y30
Mg in 4Y2V
Mg in 4Y2X
Mg in 4Y2Y
Mg in 4Y2U
Mg in 4Y2T
Mg in 4Y2Q
Mg in 4Y2R
Mg in 4Y2S
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy