Atomistry » Sodium » PDB 4coo-4ddo » 4ddo
Atomistry »
  Sodium »
    PDB 4coo-4ddo »
      4ddo »

Sodium in PDB 4ddo: Crystal Structure of 3-Oxoacyl-[Acyl-Carrier-Protein] Synthase II From Burkholderia Vietnamiensis

Enzymatic activity of Crystal Structure of 3-Oxoacyl-[Acyl-Carrier-Protein] Synthase II From Burkholderia Vietnamiensis

All present enzymatic activity of Crystal Structure of 3-Oxoacyl-[Acyl-Carrier-Protein] Synthase II From Burkholderia Vietnamiensis:
2.3.1.179;

Protein crystallography data

The structure of Crystal Structure of 3-Oxoacyl-[Acyl-Carrier-Protein] Synthase II From Burkholderia Vietnamiensis, PDB code: 4ddo was solved by Seattle Structural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.90
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 56.820, 101.320, 131.180, 90.00, 90.00, 90.00
R / Rfree (%) 14.8 / 19.3

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of 3-Oxoacyl-[Acyl-Carrier-Protein] Synthase II From Burkholderia Vietnamiensis (pdb code 4ddo). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of 3-Oxoacyl-[Acyl-Carrier-Protein] Synthase II From Burkholderia Vietnamiensis, PDB code: 4ddo:

Sodium binding site 1 out of 1 in 4ddo

Go back to Sodium Binding Sites List in 4ddo
Sodium binding site 1 out of 1 in the Crystal Structure of 3-Oxoacyl-[Acyl-Carrier-Protein] Synthase II From Burkholderia Vietnamiensis


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 3-Oxoacyl-[Acyl-Carrier-Protein] Synthase II From Burkholderia Vietnamiensis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na500

b:18.2
occ:1.00
 OE1 A:GLU358 2.7 12.0 1.0
O A:ASN405 2.8 12.4 1.0
OD1 A:ASN311 2.8 16.3 1.0
O A:ASN311 2.9 14.2 1.0
OG A:SER404 3.0 12.4 1.0
O A:ALA312 3.1 14.8 1.0
O A:HOH631 3.2 14.6 1.0
CB A:GLU358 3.5 11.5 1.0
C A:ALA312 3.5 14.8 1.0
N A:ASN405 3.6 12.4 1.0
CD A:GLU358 3.6 11.6 1.0
C A:ASN311 3.6 14.5 1.0
O A:HOH634 3.8 15.4 1.0
C A:ASN405 3.8 12.9 1.0
CG A:GLU358 3.8 11.6 1.0
CG A:ASN311 3.8 14.9 1.0
N A:HIS313 3.9 14.4 1.0
O A:HOH618 3.9 12.4 1.0
CA A:HIS313 4.1 14.5 1.0
CB A:ASN311 4.2 15.0 1.0
CA A:ASN405 4.3 12.7 1.0
CB A:SER404 4.3 12.1 1.0
N A:ALA312 4.3 14.6 1.0
C A:SER404 4.3 12.4 1.0
CA A:SER404 4.4 12.3 1.0
CA A:ALA312 4.4 14.8 1.0
NZ A:LYS344 4.5 11.6 1.0
CA A:ASN311 4.5 14.5 1.0
OE2 A:GLU358 4.7 11.9 1.0
CB A:ASN405 4.8 13.5 1.0
CA A:GLU358 4.8 10.9 1.0
N A:GLY406 5.0 13.0 1.0

Reference:

L.Baugh, L.A.Gallagher, R.Patrapuvich, M.C.Clifton, A.S.Gardberg, T.E.Edwards, B.Armour, D.W.Begley, S.H.Dieterich, D.M.Dranow, J.Abendroth, J.W.Fairman, D.Fox, B.L.Staker, I.Phan, A.Gillespie, R.Choi, S.Nakazawa-Hewitt, M.T.Nguyen, A.Napuli, L.Barrett, G.W.Buchko, R.Stacy, P.J.Myler, L.J.Stewart, C.Manoil, W.C.Van Voorhis. Combining Functional and Structural Genomics to Sample the Essential Burkholderia Structome. Plos One V. 8 53851 2013.
ISSN: ESSN 1932-6203
PubMed: 23382856
DOI: 10.1371/JOURNAL.PONE.0053851
Page generated: Mon Oct 7 14:53:02 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