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Sodium in PDB 4exq: Crystal Structure of Uroporphyrinogen Decarboxylase (Upd) From Burkholderia Thailandensis E264

Enzymatic activity of Crystal Structure of Uroporphyrinogen Decarboxylase (Upd) From Burkholderia Thailandensis E264

All present enzymatic activity of Crystal Structure of Uroporphyrinogen Decarboxylase (Upd) From Burkholderia Thailandensis E264:
4.1.1.37;

Protein crystallography data

The structure of Crystal Structure of Uroporphyrinogen Decarboxylase (Upd) From Burkholderia Thailandensis E264, PDB code: 4exq 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 / 1.65
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 53.320, 53.320, 233.620, 90.00, 90.00, 90.00
R / Rfree (%) 17.8 / 20

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Uroporphyrinogen Decarboxylase (Upd) From Burkholderia Thailandensis E264 (pdb code 4exq). 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 Uroporphyrinogen Decarboxylase (Upd) From Burkholderia Thailandensis E264, PDB code: 4exq:

Sodium binding site 1 out of 1 in 4exq

Go back to Sodium Binding Sites List in 4exq
Sodium binding site 1 out of 1 in the Crystal Structure of Uroporphyrinogen Decarboxylase (Upd) From Burkholderia Thailandensis E264


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 Uroporphyrinogen Decarboxylase (Upd) From Burkholderia Thailandensis E264 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na401

b:8.9
occ:1.00
 OG1 A:THR9 3.0 11.5 1.0
N A:ASP20 3.2 12.3 1.0
CB A:THR19 3.6 12.9 1.0
CA A:THR19 3.8 12.8 1.0
CG2 A:THR9 3.8 10.8 1.0
CB A:THR9 3.9 11.1 1.0
C A:THR19 4.0 12.5 1.0
CB A:ASP20 4.1 12.4 1.0
CA A:ASP20 4.2 12.2 1.0
CG2 A:THR19 4.2 13.1 1.0
CE2 A:TYR21 4.2 10.9 1.0
O A:HOH503 4.3 5.6 1.0
CD2 A:TYR21 4.4 11.0 1.0
CA A:THR9 4.5 11.2 1.0
N A:TYR21 4.6 11.4 1.0
CG A:ASP20 4.7 12.7 1.0
OG1 A:THR19 4.8 13.4 1.0
C A:ASP20 4.9 11.9 1.0
CZ A:TYR21 4.9 10.6 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 15:13:46 2024

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