Atomistry » Sodium » PDB 3tkj-3tzl » 3tx2
Atomistry »
  Sodium »
    PDB 3tkj-3tzl »
      3tx2 »

Sodium in PDB 3tx2: Structure of A Probable 6-Phosphogluconolactonase From Mycobacterium Abscessus

Protein crystallography data

The structure of Structure of A Probable 6-Phosphogluconolactonase From Mycobacterium Abscessus, PDB code: 3tx2 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) 68.18 / 1.50
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 136.350, 41.180, 44.970, 90.00, 90.00, 90.00
R / Rfree (%) 19.2 / 21.1

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of A Probable 6-Phosphogluconolactonase From Mycobacterium Abscessus (pdb code 3tx2). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Structure of A Probable 6-Phosphogluconolactonase From Mycobacterium Abscessus, PDB code: 3tx2:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 3tx2

Go back to Sodium Binding Sites List in 3tx2
Sodium binding site 1 out of 2 in the Structure of A Probable 6-Phosphogluconolactonase From Mycobacterium Abscessus


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of A Probable 6-Phosphogluconolactonase From Mycobacterium Abscessus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na248

b:15.6
occ:1.00
O A:HOH449 2.3 18.8 1.0
OD1 A:ASN65 2.4 16.1 1.0
O A:HOH330 2.4 17.3 1.0
O A:HOH577 2.4 17.9 1.0
O A:HOH282 2.5 15.4 1.0
O A:THR64 2.5 14.5 1.0
O A:HOH566 3.3 9.5 1.0
C A:THR64 3.4 14.2 1.0
CG A:ASN65 3.5 15.4 1.0
CA A:ASN65 3.5 13.4 1.0
N A:ASN65 3.8 13.6 1.0
O A:HOH428 4.0 30.7 1.0
CB A:ASN65 4.1 14.2 1.0
O A:HOH501 4.3 30.3 1.0
O A:HOH327 4.3 23.9 1.0
OG1 A:THR64 4.3 16.0 1.0
NE2 A:HIS67 4.3 12.8 1.0
O A:HOH514 4.4 15.2 1.0
ND2 A:ASN65 4.6 16.1 1.0
CA A:THR64 4.6 14.5 1.0
O A:HOH584 4.6 16.1 1.0
O A:GLY35 4.7 13.4 1.0
CB A:THR64 4.7 15.7 1.0
CE1 A:HIS67 4.7 13.1 1.0
C A:ASN65 4.7 12.3 1.0
ND2 A:ASN102 5.0 12.3 1.0

Sodium binding site 2 out of 2 in 3tx2

Go back to Sodium Binding Sites List in 3tx2
Sodium binding site 2 out of 2 in the Structure of A Probable 6-Phosphogluconolactonase From Mycobacterium Abscessus


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of A Probable 6-Phosphogluconolactonase From Mycobacterium Abscessus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na249

b:17.7
occ:1.00
O A:HOH473 2.2 17.8 1.0
O A:HOH319 2.4 11.8 1.0
O A:MET103 2.4 10.1 1.0
O A:HOH531 2.4 22.6 1.0
O A:HOH318 2.4 16.4 1.0
O A:HOH322 2.5 20.0 1.0
C A:MET103 3.6 10.0 1.0
O A:HOH270 3.7 22.1 1.0
O A:LEU100 3.8 11.4 1.0
O A:HOH430 4.2 27.9 1.0
ND1 A:HIS104 4.2 9.6 1.0
CA A:HIS104 4.2 9.1 1.0
O A:HOH340 4.2 20.3 1.0
N A:HIS104 4.3 9.4 1.0
O A:HOH255 4.3 22.6 1.0
CA A:MET103 4.7 10.4 1.0
N A:ALA105 4.8 8.7 1.0
CE1 A:HIS104 4.8 9.9 1.0
N A:MET103 4.8 10.6 1.0
C A:LEU100 4.9 11.6 1.0
CB A:MET103 4.9 11.1 1.0
CG A:HIS104 4.9 9.4 1.0

Reference:

L.Baugh, I.Phan, D.W.Begley, M.C.Clifton, B.Armour, D.M.Dranow, B.M.Taylor, M.M.Muruthi, J.Abendroth, J.W.Fairman, D.Fox, S.H.Dieterich, B.L.Staker, A.S.Gardberg, R.Choi, S.N.Hewitt, A.J.Napuli, J.Myers, L.K.Barrett, Y.Zhang, M.Ferrell, E.Mundt, K.Thompkins, N.Tran, S.Lyons-Abbott, A.Abramov, A.Sekar, D.Serbzhinskiy, D.Lorimer, G.W.Buchko, R.Stacy, L.J.Stewart, T.E.Edwards, W.C.Van Voorhis, P.J.Myler. Increasing the Structural Coverage of Tuberculosis Drug Targets. Tuberculosis (Edinb) V. 95 142 2015.
ISSN: ISSN 1472-9792
PubMed: 25613812
DOI: 10.1016/J.TUBE.2014.12.003
Page generated: Mon Oct 7 13:21:47 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