Atomistry » Magnesium » PDB 7bdi-7boi » 7bjt
Atomistry »
  Magnesium »
    PDB 7bdi-7boi »
      7bjt »

Magnesium in PDB 7bjt: Structure-Function Analysis of A New PL17 Oligoalginate Lyase From the Marine Bacterium Zobellia Galactanivorans Dsijt

Enzymatic activity of Structure-Function Analysis of A New PL17 Oligoalginate Lyase From the Marine Bacterium Zobellia Galactanivorans Dsijt

All present enzymatic activity of Structure-Function Analysis of A New PL17 Oligoalginate Lyase From the Marine Bacterium Zobellia Galactanivorans Dsijt:
4.2.2.3;

Protein crystallography data

The structure of Structure-Function Analysis of A New PL17 Oligoalginate Lyase From the Marine Bacterium Zobellia Galactanivorans Dsijt, PDB code: 7bjt was solved by M.Czjzek, T.Roret, D.Jouanneau, N.Le Duff, A.Jeudy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.70 / 1.42
Space group P 65
Cell size a, b, c (Å), α, β, γ (°) 163.39, 163.39, 166.73, 90, 90, 120
R / Rfree (%) 16.1 / 17

Other elements in 7bjt:

The structure of Structure-Function Analysis of A New PL17 Oligoalginate Lyase From the Marine Bacterium Zobellia Galactanivorans Dsijt also contains other interesting chemical elements:

Calcium (Ca) 3 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure-Function Analysis of A New PL17 Oligoalginate Lyase From the Marine Bacterium Zobellia Galactanivorans Dsijt (pdb code 7bjt). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Structure-Function Analysis of A New PL17 Oligoalginate Lyase From the Marine Bacterium Zobellia Galactanivorans Dsijt, PDB code: 7bjt:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 7bjt

Go back to Magnesium Binding Sites List in 7bjt
Magnesium binding site 1 out of 4 in the Structure-Function Analysis of A New PL17 Oligoalginate Lyase From the Marine Bacterium Zobellia Galactanivorans Dsijt


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure-Function Analysis of A New PL17 Oligoalginate Lyase From the Marine Bacterium Zobellia Galactanivorans Dsijt within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg802

b:22.5
occ:1.00
 OG1 A:THR83 2.8 13.7 1.0
O A:LEU141 2.9 13.1 1.0
O A:HOH1063 2.9 13.0 1.0
NE2 A:HIS130 3.1 13.6 1.0
N A:HIS84 3.5 12.8 1.0
C A:THR83 3.6 13.1 1.0
O A:ASP77 3.7 14.0 1.0
CA A:HIS84 3.7 12.7 1.0
CB A:THR83 3.7 13.5 1.0
CD2 A:HIS130 3.8 13.6 1.0
O A:THR83 3.8 12.9 1.0
CB A:PRO75 3.8 13.8 1.0
CA A:PHE142 3.8 12.5 1.0
C A:LEU141 3.9 13.1 1.0
CA A:PRO75 4.1 14.1 1.0
N A:LYS76 4.1 15.0 1.0
N A:ASP77 4.2 14.5 1.0
CB A:HIS84 4.2 12.8 1.0
CE1 A:HIS130 4.2 13.6 1.0
CA A:THR83 4.3 13.4 1.0
N A:PHE142 4.3 12.7 1.0
CD1 A:PHE142 4.4 12.3 1.0
C A:PRO75 4.6 14.6 1.0
C A:PHE142 4.6 12.4 1.0
C A:ASP77 4.6 13.9 1.0
N A:TRP143 4.6 12.3 1.0
CB A:PHE142 4.7 12.4 1.0
CD2 A:HIS87 4.7 12.7 1.0
CG A:PRO75 4.7 13.8 1.0
CG A:PHE142 4.8 12.3 1.0
ND1 A:HIS84 4.8 12.8 1.0
CA A:ASP77 4.9 14.3 1.0
CG A:HIS84 5.0 12.7 1.0
C A:LYS76 5.0 15.0 1.0

Magnesium binding site 2 out of 4 in 7bjt

Go back to Magnesium Binding Sites List in 7bjt
Magnesium binding site 2 out of 4 in the Structure-Function Analysis of A New PL17 Oligoalginate Lyase From the Marine Bacterium Zobellia Galactanivorans Dsijt


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure-Function Analysis of A New PL17 Oligoalginate Lyase From the Marine Bacterium Zobellia Galactanivorans Dsijt within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg805

b:12.4
occ:1.00
 O A:HOH1415 3.0 17.7 1.0
O A:HOH990 3.1 13.9 1.0
O A:HOH1425 3.2 20.3 1.0
ND2 A:ASN240 3.4 16.7 1.0
N A:TYR136 3.6 13.4 1.0
CD1 A:TYR136 3.7 14.1 1.0
CA A:SER135 3.7 13.2 1.0
CB A:ASN240 3.8 15.9 1.0
CG A:ASN240 4.1 16.4 1.0
OG A:SER135 4.2 12.8 1.0
C A:SER135 4.2 13.3 1.0
O A:ARG134 4.2 13.9 1.0
C3 A:GOL804 4.3 17.3 1.0
CZ3 A:TRP143 4.3 12.2 1.0
CB A:SER135 4.4 13.0 1.0
CH2 A:TRP143 4.4 12.1 1.0
CE1 A:TYR136 4.4 14.0 1.0
CG A:TYR136 4.6 13.9 1.0
CB A:TYR136 4.6 13.8 1.0
N A:SER135 4.6 13.4 1.0
CA A:TYR136 4.7 13.6 1.0
C A:ARG134 4.7 14.1 1.0
C2 A:GOL804 4.7 16.8 1.0
N A:ASN240 4.9 15.2 1.0
CA A:ASN240 4.9 15.5 1.0
O2 A:GOL804 4.9 16.5 1.0
O A:HOH1130 4.9 20.9 1.0

Magnesium binding site 3 out of 4 in 7bjt

Go back to Magnesium Binding Sites List in 7bjt
Magnesium binding site 3 out of 4 in the Structure-Function Analysis of A New PL17 Oligoalginate Lyase From the Marine Bacterium Zobellia Galactanivorans Dsijt


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure-Function Analysis of A New PL17 Oligoalginate Lyase From the Marine Bacterium Zobellia Galactanivorans Dsijt within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg801

b:34.4
occ:1.00
 OH B:TYR268 2.6 18.9 1.0
OG1 B:THR202 2.7 16.1 1.0
OD1 B:ASN257 3.0 19.9 1.0
C B:HIS198 3.4 18.3 1.0
O B:HIS198 3.4 17.9 1.0
O B:HOH1307 3.5 31.4 1.0
CZ B:TYR268 3.5 17.3 1.0
CE1 B:TYR268 3.5 17.1 1.0
N B:ASN199 3.6 17.9 1.0
CZ B:PHE282 3.6 15.7 1.0
CG B:ASN257 3.9 19.5 1.0
CA B:ASN199 3.9 17.3 1.0
CB B:THR202 3.9 15.6 1.0
CE2 B:PHE282 3.9 15.5 1.0
N B:HIS198 3.9 19.1 1.0
CG B:PRO261 4.0 16.5 1.0
CA B:HIS198 4.0 19.5 0.5
CB B:ASN257 4.1 19.1 1.0
CA B:HIS198 4.1 18.6 0.5
O B:ASN257 4.2 19.2 1.0
OE2 B:GLU270 4.6 24.6 1.0
CB B:PRO261 4.6 16.4 1.0
CG2 B:THR202 4.7 15.4 1.0
CA B:ASN257 4.7 18.8 1.0
CE1 B:PHE282 4.7 15.7 1.0
CB B:ASN199 4.8 17.6 1.0
CE2 B:TYR268 4.8 17.2 1.0
C B:VAL197 4.8 19.6 1.0
CD1 B:TYR268 4.9 16.7 1.0
C B:ASN257 4.9 19.0 1.0
N B:THR202 5.0 15.4 1.0
C B:ASN199 5.0 16.9 1.0
CA B:THR202 5.0 15.3 1.0

Magnesium binding site 4 out of 4 in 7bjt

Go back to Magnesium Binding Sites List in 7bjt
Magnesium binding site 4 out of 4 in the Structure-Function Analysis of A New PL17 Oligoalginate Lyase From the Marine Bacterium Zobellia Galactanivorans Dsijt


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure-Function Analysis of A New PL17 Oligoalginate Lyase From the Marine Bacterium Zobellia Galactanivorans Dsijt within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg806

b:11.7
occ:1.00
 O B:HOH1248 3.0 15.6 1.0
N B:GLY443 3.2 15.3 1.0
N B:ALA319 3.2 14.7 1.0
O B:HOH1116 3.4 15.2 1.0
CB B:ASP318 3.6 14.2 1.0
OG1 B:THR417 3.6 14.3 1.0
CB B:TYR440 3.7 12.8 1.0
CA B:GLY443 3.8 15.2 1.0
CB B:ALA319 3.8 15.5 1.0
CA B:ASP318 3.9 14.2 1.0
N B:LYS442 4.0 14.7 1.0
CB B:THR417 4.0 13.8 1.0
C B:ASP318 4.0 14.4 1.0
CA B:ALA319 4.1 15.4 1.0
C B:LYS442 4.2 15.3 1.0
CA B:LYS442 4.2 15.5 1.0
CG B:TYR440 4.6 12.9 1.0
C B:TYR440 4.6 12.9 1.0
C B:GLU441 4.6 14.0 1.0
CG B:ASP318 4.7 14.2 1.0
CG2 B:THR417 4.7 14.0 1.0
N B:GLU441 4.8 13.2 1.0
OE2 B:GLU414 4.8 17.7 1.0
O B:TYR440 4.8 13.0 1.0
CA B:TYR440 4.8 12.8 1.0
O B:GLU414 4.9 18.5 1.0
C B:GLY443 4.9 15.1 1.0
CG B:GLU414 4.9 19.1 1.0

Reference:

D.Jouanneau, L.J.Klau, R.Larocque, A.Jaffrennou, G.Duval, N.Le Duff, T.Roret, A.Jeudy, F.L.Aachmann, M.Czjzek, F.Thomas. Structure-Function Analysis of A New PL17 Oligoalginate Lyase From the Marine Bacterium Zobellia Galactanivorans Dsijt. Glycobiology 2021.
ISSN: ESSN 1460-2423
PubMed: 34184062
DOI: 10.1093/GLYCOB/CWAB058
Page generated: Wed Oct 2 10:27:28 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