Atomistry » Sodium » PDB 4n01-4nji » 4nhd
Atomistry »
  Sodium »
    PDB 4n01-4nji »
      4nhd »

Sodium in PDB 4nhd: Crystal Structure of Beta-Ketoacyl-Acp Synthase III (Fabh) From Vibrio Cholerae in Complex with Coenzyme A

Enzymatic activity of Crystal Structure of Beta-Ketoacyl-Acp Synthase III (Fabh) From Vibrio Cholerae in Complex with Coenzyme A

All present enzymatic activity of Crystal Structure of Beta-Ketoacyl-Acp Synthase III (Fabh) From Vibrio Cholerae in Complex with Coenzyme A:
2.3.1.180;

Protein crystallography data

The structure of Crystal Structure of Beta-Ketoacyl-Acp Synthase III (Fabh) From Vibrio Cholerae in Complex with Coenzyme A, PDB code: 4nhd was solved by J.Hou, H.Zheng, K.Langner, W.F.Anderson, W.Minor, Center For Structuralgenomics Of Infectious Diseases (Csgid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.78
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 99.449, 100.248, 132.763, 90.00, 90.00, 90.00
R / Rfree (%) 17 / 19.6

Other elements in 4nhd:

The structure of Crystal Structure of Beta-Ketoacyl-Acp Synthase III (Fabh) From Vibrio Cholerae in Complex with Coenzyme A also contains other interesting chemical elements:

Calcium (Ca) 7 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Beta-Ketoacyl-Acp Synthase III (Fabh) From Vibrio Cholerae in Complex with Coenzyme A (pdb code 4nhd). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Crystal Structure of Beta-Ketoacyl-Acp Synthase III (Fabh) From Vibrio Cholerae in Complex with Coenzyme A, PDB code: 4nhd:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in 4nhd

Go back to Sodium Binding Sites List in 4nhd
Sodium binding site 1 out of 3 in the Crystal Structure of Beta-Ketoacyl-Acp Synthase III (Fabh) From Vibrio Cholerae in Complex with Coenzyme A


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Beta-Ketoacyl-Acp Synthase III (Fabh) From Vibrio Cholerae in Complex with Coenzyme A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na403

b:33.3
occ:1.00
O A:HOH606 2.2 44.4 1.0
O A:HOH719 2.3 36.5 1.0
O A:HOH800 2.3 46.2 1.0
O A:ASN231 2.4 28.1 1.0
C A:ASN231 3.6 28.1 1.0
O A:HOH801 3.9 49.1 1.0
CB A:ASN231 4.1 32.7 1.0
OE2 A:GLU236 4.4 26.7 1.0
CA A:MET232 4.4 25.3 1.0
N A:MET232 4.4 25.6 1.0
CA A:ASN231 4.5 29.8 1.0
O A:ASN230 4.6 25.0 1.0
OE1 A:GLU236 4.6 28.1 1.0
CD A:GLU236 4.9 26.9 1.0

Sodium binding site 2 out of 3 in 4nhd

Go back to Sodium Binding Sites List in 4nhd
Sodium binding site 2 out of 3 in the Crystal Structure of Beta-Ketoacyl-Acp Synthase III (Fabh) From Vibrio Cholerae in Complex with Coenzyme A


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Beta-Ketoacyl-Acp Synthase III (Fabh) From Vibrio Cholerae in Complex with Coenzyme A within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Na404

b:40.0
occ:1.00
O D:HOH715 2.0 59.2 1.0
O D:HOH713 2.4 49.3 1.0
O D:ASN231 2.4 41.4 1.0
O D:HOH716 2.4 57.5 1.0
O D:HOH714 2.7 47.2 0.6
C D:ASN231 3.6 40.8 1.0
O D:HOH717 3.8 59.2 0.5
CB D:ASN231 4.2 44.1 1.0
OE2 D:GLU236 4.3 42.4 1.0
CA D:MET232 4.4 38.8 1.0
N D:MET232 4.5 39.0 1.0
OE1 D:GLU236 4.5 40.8 1.0
CA D:ASN231 4.6 41.2 1.0
O D:ASN230 4.6 34.3 1.0
CD D:GLU236 4.9 41.2 1.0

Sodium binding site 3 out of 3 in 4nhd

Go back to Sodium Binding Sites List in 4nhd
Sodium binding site 3 out of 3 in the Crystal Structure of Beta-Ketoacyl-Acp Synthase III (Fabh) From Vibrio Cholerae in Complex with Coenzyme A


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of Beta-Ketoacyl-Acp Synthase III (Fabh) From Vibrio Cholerae in Complex with Coenzyme A within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Na405

b:21.0
occ:1.00
O D:HOH734 2.1 50.0 1.0
O D:HOH731 2.2 37.8 1.0
O D:GLY67 2.2 25.1 1.0
O D:HOH733 2.3 40.4 1.0
O D:HOH732 2.4 34.7 1.0
O D:HOH735 2.6 53.2 1.0
C D:GLY67 3.4 25.2 1.0
CA D:GLY67 4.1 24.8 1.0
N D:ILE68 4.4 24.2 1.0
CA D:ILE68 4.6 24.9 1.0
C D:ILE68 4.8 25.6 1.0
O D:HOH517 4.9 26.6 1.0

Reference:

J.Hou, H.Zheng, K.Langner, W.F.Anderson, W.Minor, Center For Structural Genomics Of Infectious Diseases(Csgid). Crystal Structure of Beta-Ketoacyl-Acp Synthase III (Fabh) From Vibrio Cholerae in Complex with Coenzyme A To Be Published.
Page generated: Mon Oct 7 17:11:20 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy