Atomistry » Sodium » PDB 5lq7-5m1e » 5m09
Atomistry »
  Sodium »
    PDB 5lq7-5m1e »
      5m09 »

Sodium in PDB 5m09: Crystal Structure of Mycobacterium Tuberculosis Pkni Kinase Domain, C20A_R136N Double Mutant

Enzymatic activity of Crystal Structure of Mycobacterium Tuberculosis Pkni Kinase Domain, C20A_R136N Double Mutant

All present enzymatic activity of Crystal Structure of Mycobacterium Tuberculosis Pkni Kinase Domain, C20A_R136N Double Mutant:
2.7.11.1;

Protein crystallography data

The structure of Crystal Structure of Mycobacterium Tuberculosis Pkni Kinase Domain, C20A_R136N Double Mutant, PDB code: 5m09 was solved by M.N.Lisa, T.Wagner, M.Alexandre, N.Barilone, B.Raynal, P.M.Alzari, M.Bellinzoni, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.94 / 2.98
Space group P 43 2 2
Cell size a, b, c (Å), α, β, γ (°) 110.870, 110.870, 181.760, 90.00, 90.00, 90.00
R / Rfree (%) 19 / 23.1

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Mycobacterium Tuberculosis Pkni Kinase Domain, C20A_R136N Double Mutant (pdb code 5m09). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Mycobacterium Tuberculosis Pkni Kinase Domain, C20A_R136N Double Mutant, PDB code: 5m09:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 5m09

Go back to Sodium Binding Sites List in 5m09
Sodium binding site 1 out of 2 in the Crystal Structure of Mycobacterium Tuberculosis Pkni Kinase Domain, C20A_R136N Double Mutant


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 Mycobacterium Tuberculosis Pkni Kinase Domain, C20A_R136N Double Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na301

b:74.1
occ:1.00
O A:ALA65 2.9 54.4 1.0
O A:VAL75 3.2 58.6 1.0
O A:LEU67 3.6 48.0 1.0
CG A:GLU74 3.8 66.2 1.0
OE2 A:GLU74 3.8 0.6 1.0
C A:ALA65 4.1 53.7 1.0
C A:VAL75 4.1 55.3 1.0
CD A:GLU74 4.2 0.5 1.0
CD2 A:HIS76 4.3 58.3 1.0
N A:VAL75 4.5 49.9 1.0
CB A:GLU74 4.5 51.9 1.0
C A:LEU67 4.7 45.1 1.0
CA A:HIS76 4.7 51.0 1.0
O A:ARG66 4.7 49.4 1.0
N A:HIS76 4.8 49.9 1.0
C A:ARG66 4.8 50.0 1.0
CA A:GLU74 4.9 50.0 1.0
CA A:ALA65 5.0 47.5 1.0

Sodium binding site 2 out of 2 in 5m09

Go back to Sodium Binding Sites List in 5m09
Sodium binding site 2 out of 2 in the Crystal Structure of Mycobacterium Tuberculosis Pkni Kinase Domain, C20A_R136N Double Mutant


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 Mycobacterium Tuberculosis Pkni Kinase Domain, C20A_R136N Double Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na301

b:49.5
occ:1.00
O B:VAL75 2.3 53.2 1.0
O B:HOH406 2.5 54.5 1.0
O B:ALA65 2.7 54.1 1.0
C B:VAL75 3.3 50.6 1.0
N B:VAL75 3.5 46.2 1.0
CG B:GLU74 3.7 66.8 1.0
OE1 B:GLU74 3.7 0.9 1.0
C B:ALA65 3.8 54.1 1.0
CB B:GLU74 4.0 47.8 1.0
CD B:GLU74 4.0 0.1 1.0
CA B:VAL75 4.1 45.7 1.0
O B:LEU67 4.1 48.3 1.0
C B:GLU74 4.1 49.0 1.0
CD2 B:HIS76 4.2 50.6 1.0
N B:HIS76 4.2 44.9 1.0
CA B:GLU74 4.2 45.7 1.0
CA B:ALA65 4.3 49.9 1.0
CA B:HIS76 4.4 44.9 1.0
NE2 B:HIS76 4.9 51.0 1.0
N B:ARG66 4.9 49.4 1.0
O B:ALA64 5.0 52.6 1.0
O B:GLU74 5.0 49.0 1.0

Reference:

M.N.Lisa, T.Wagner, M.Alexandre, N.Barilone, B.Raynal, P.M.Alzari, M.Bellinzoni. The Crystal Structure of Pkni From Mycobacterium Tuberculosis Shows An Inactive, Pseudokinase-Like Conformation. Febs J. V. 284 602 2017.
ISSN: ISSN 1742-4658
PubMed: 28054744
DOI: 10.1111/FEBS.14003
Page generated: Mon Oct 7 22:27:15 2024

Last articles

Na in 3I0W
Na in 3HWX
Na in 3HZN
Na in 3HZO
Na in 3HYS
Na in 3HYJ
Na in 3HYA
Na in 3HYI
Na in 3HX0
Na in 3HWG
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy