Atomistry » Sodium » PDB 4lh6-4lzw » 4lrt
Atomistry »
  Sodium »
    PDB 4lh6-4lzw »
      4lrt »

Sodium in PDB 4lrt: Crystal and Solution Structures of the Bifunctional Enzyme (Aldolase/Aldehyde Dehydrogenase) From Thermomonospora Curvata, Reveal A Cofactor-Binding Domain Motion During Nad+ and Coa Accommodation Whithin the Shared Cofactor-Binding Site

Enzymatic activity of Crystal and Solution Structures of the Bifunctional Enzyme (Aldolase/Aldehyde Dehydrogenase) From Thermomonospora Curvata, Reveal A Cofactor-Binding Domain Motion During Nad+ and Coa Accommodation Whithin the Shared Cofactor-Binding Site

All present enzymatic activity of Crystal and Solution Structures of the Bifunctional Enzyme (Aldolase/Aldehyde Dehydrogenase) From Thermomonospora Curvata, Reveal A Cofactor-Binding Domain Motion During Nad+ and Coa Accommodation Whithin the Shared Cofactor-Binding Site:
1.2.1.10; 4.1.3.39;

Protein crystallography data

The structure of Crystal and Solution Structures of the Bifunctional Enzyme (Aldolase/Aldehyde Dehydrogenase) From Thermomonospora Curvata, Reveal A Cofactor-Binding Domain Motion During Nad+ and Coa Accommodation Whithin the Shared Cofactor-Binding Site, PDB code: 4lrt was solved by B.Fischer, G.Branlant, F.Talfournier, A.Gruez, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.45 / 1.50
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 94.500, 116.700, 131.500, 90.00, 90.00, 90.00
R / Rfree (%) 15.1 / 17

Other elements in 4lrt:

The structure of Crystal and Solution Structures of the Bifunctional Enzyme (Aldolase/Aldehyde Dehydrogenase) From Thermomonospora Curvata, Reveal A Cofactor-Binding Domain Motion During Nad+ and Coa Accommodation Whithin the Shared Cofactor-Binding Site also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal and Solution Structures of the Bifunctional Enzyme (Aldolase/Aldehyde Dehydrogenase) From Thermomonospora Curvata, Reveal A Cofactor-Binding Domain Motion During Nad+ and Coa Accommodation Whithin the Shared Cofactor-Binding Site (pdb code 4lrt). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Crystal and Solution Structures of the Bifunctional Enzyme (Aldolase/Aldehyde Dehydrogenase) From Thermomonospora Curvata, Reveal A Cofactor-Binding Domain Motion During Nad+ and Coa Accommodation Whithin the Shared Cofactor-Binding Site, PDB code: 4lrt:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in 4lrt

Go back to Sodium Binding Sites List in 4lrt
Sodium binding site 1 out of 4 in the Crystal and Solution Structures of the Bifunctional Enzyme (Aldolase/Aldehyde Dehydrogenase) From Thermomonospora Curvata, Reveal A Cofactor-Binding Domain Motion During Nad+ and Coa Accommodation Whithin the Shared Cofactor-Binding Site


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal and Solution Structures of the Bifunctional Enzyme (Aldolase/Aldehyde Dehydrogenase) From Thermomonospora Curvata, Reveal A Cofactor-Binding Domain Motion During Nad+ and Coa Accommodation Whithin the Shared Cofactor-Binding Site within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na402

b:24.7
occ:1.00
 O C:HOH622 2.9 25.8 1.0
OG A:SER182 3.0 22.3 1.0
NE2 C:GLN221 3.3 20.6 1.0
O A:HOH655 3.3 33.9 1.0
N A:SER182 3.4 15.4 1.0
O A:VAL180 3.5 20.6 1.0
CB A:SER182 3.6 18.0 1.0
CB A:LEU181 3.8 16.2 1.0
CA A:SER182 4.1 16.3 1.0
CD2 C:LEU253 4.1 22.0 1.0
CD C:GLN221 4.2 19.3 1.0
OE1 C:GLN221 4.2 20.8 1.0
CG1 A:VAL180 4.2 20.3 1.0
C A:VAL180 4.3 17.9 1.0
C A:LEU181 4.4 16.2 1.0
CA A:LEU181 4.5 15.7 1.0
CG1 C:VAL217 4.6 15.1 1.0
CG A:LEU181 4.6 17.6 1.0
CD1 A:LEU181 4.6 21.3 1.0
N A:LEU181 4.8 16.9 1.0
CB A:VAL180 4.9 18.0 1.0
O A:HOH675 4.9 29.3 1.0

Sodium binding site 2 out of 4 in 4lrt

Go back to Sodium Binding Sites List in 4lrt
Sodium binding site 2 out of 4 in the Crystal and Solution Structures of the Bifunctional Enzyme (Aldolase/Aldehyde Dehydrogenase) From Thermomonospora Curvata, Reveal A Cofactor-Binding Domain Motion During Nad+ and Coa Accommodation Whithin the Shared Cofactor-Binding Site


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal and Solution Structures of the Bifunctional Enzyme (Aldolase/Aldehyde Dehydrogenase) From Thermomonospora Curvata, Reveal A Cofactor-Binding Domain Motion During Nad+ and Coa Accommodation Whithin the Shared Cofactor-Binding Site within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na402

b:31.1
occ:1.00
 O B:LYS98 2.7 14.2 0.2
O B:LYS98 2.7 14.2 0.2
O B:LYS98 2.7 13.8 0.4
C B:LYS98 3.7 14.0 0.4
C B:LYS98 3.7 14.1 0.2
C B:LYS98 3.7 14.1 0.2
CG B:LYS98 3.7 15.7 0.2
N B:ALA102 3.8 15.6 1.0
CB B:LEU101 3.9 15.1 1.0
CA B:LYS98 3.9 14.4 0.4
CB B:ALA102 3.9 16.5 1.0
CG B:LYS98 4.0 15.3 0.2
CA B:LYS98 4.0 14.2 0.2
CA B:LYS98 4.0 14.3 0.2
CB B:LYS98 4.0 14.6 0.4
CA B:ALA102 4.2 16.1 1.0
CB B:LYS98 4.3 14.2 0.2
C B:LEU101 4.3 15.6 1.0
CB B:LYS98 4.4 14.3 0.2
O B:HOH729 4.6 42.1 1.0
CA B:LEU101 4.7 14.6 1.0
N B:ALA99 4.9 14.0 1.0
CD1 B:LEU101 4.9 16.5 1.0
CD B:LYS98 4.9 16.2 0.2

Sodium binding site 3 out of 4 in 4lrt

Go back to Sodium Binding Sites List in 4lrt
Sodium binding site 3 out of 4 in the Crystal and Solution Structures of the Bifunctional Enzyme (Aldolase/Aldehyde Dehydrogenase) From Thermomonospora Curvata, Reveal A Cofactor-Binding Domain Motion During Nad+ and Coa Accommodation Whithin the Shared Cofactor-Binding Site


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal and Solution Structures of the Bifunctional Enzyme (Aldolase/Aldehyde Dehydrogenase) From Thermomonospora Curvata, Reveal A Cofactor-Binding Domain Motion During Nad+ and Coa Accommodation Whithin the Shared Cofactor-Binding Site within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na403

b:16.7
occ:1.00
 SG B:CYS146 2.4 22.9 0.3
O B:HOH790 3.1 19.6 1.0
O B:HOH545 3.1 19.4 1.0
O B:HOH656 3.2 27.9 1.0
ND2 B:ASN296 3.3 15.6 1.0
CB B:ASN296 3.7 15.3 1.0
C2P B:COA405 3.7 14.3 0.8
CD1 B:ILE173 3.9 16.2 1.0
CG B:ASN296 4.0 15.1 1.0
CD1 B:ILE210 4.0 16.8 1.0
CB B:CYS146 4.1 17.9 0.3
CB B:CYS146 4.2 16.6 0.7
S1P B:COA405 4.3 13.2 0.6
CG2 B:ILE173 4.4 15.6 1.0
OG1 B:THR182 4.6 23.3 1.0
CG2 B:THR182 4.7 21.9 1.0
CG1 B:ILE173 4.9 16.0 1.0
N B:GLY147 4.9 16.6 1.0
CE1 B:PHE189 4.9 18.6 1.0
SG B:CYS146 5.0 15.5 0.7

Sodium binding site 4 out of 4 in 4lrt

Go back to Sodium Binding Sites List in 4lrt
Sodium binding site 4 out of 4 in the Crystal and Solution Structures of the Bifunctional Enzyme (Aldolase/Aldehyde Dehydrogenase) From Thermomonospora Curvata, Reveal A Cofactor-Binding Domain Motion During Nad+ and Coa Accommodation Whithin the Shared Cofactor-Binding Site


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Crystal and Solution Structures of the Bifunctional Enzyme (Aldolase/Aldehyde Dehydrogenase) From Thermomonospora Curvata, Reveal A Cofactor-Binding Domain Motion During Nad+ and Coa Accommodation Whithin the Shared Cofactor-Binding Site within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Na402

b:15.0
occ:1.00
 SG D:CYS146 2.5 20.4 0.2
O D:HOH819 3.1 18.8 1.0
O D:HOH570 3.1 16.5 1.0
O D:HOH824 3.2 22.9 1.0
ND2 D:ASN296 3.3 14.6 1.0
CB D:ASN296 3.7 13.3 1.0
C2P D:COA403 3.8 16.7 1.0
CD1 D:ILE173 4.0 13.8 1.0
CG D:ASN296 4.0 15.0 1.0
CD1 D:ILE210 4.0 16.8 1.0
CB D:CYS146 4.2 16.3 0.2
CB D:CYS146 4.2 15.9 0.8
S1P D:COA403 4.3 11.5 0.6
CG2 D:ILE173 4.4 12.4 1.0
OG1 D:THR182 4.6 22.0 1.0
CG2 D:THR182 4.6 19.5 1.0
N D:GLY147 4.9 14.9 1.0
CG1 D:ILE173 5.0 13.2 1.0
SG D:CYS146 5.0 14.9 0.8

Reference:

B.Fischer, G.Branlant, F.Talfournier, A.Gruez. Crystal and Solution Structures of the Bifunctional Enzyme (Aldolase/Aldehyde Dehydrogenase) From Thermomonospora Curvata, Reveal A Cofactor-Binding Domain Motion During Nad+ and Coa Accommodation Whithin the Shared Cofactor-Binding Site To Be Published.
Page generated: Mon Oct 7 16:50:27 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy