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Potassium in PDB 4pu6: Crystal Structure of Potassium-Dependent Plant-Type L-Asparaginase From Phaseolus Vulgaris in Complex with K+ Cations

Enzymatic activity of Crystal Structure of Potassium-Dependent Plant-Type L-Asparaginase From Phaseolus Vulgaris in Complex with K+ Cations

All present enzymatic activity of Crystal Structure of Potassium-Dependent Plant-Type L-Asparaginase From Phaseolus Vulgaris in Complex with K+ Cations:
3.5.1.1;

Protein crystallography data

The structure of Crystal Structure of Potassium-Dependent Plant-Type L-Asparaginase From Phaseolus Vulgaris in Complex with K+ Cations, PDB code: 4pu6 was solved by M.Bejger, M.Gilski, B.Imiolczyk, M.Jaskolski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.60 / 2.30
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 56.938, 102.672, 127.035, 90.00, 90.00, 90.00
R / Rfree (%) 17.6 / 23.1

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of Potassium-Dependent Plant-Type L-Asparaginase From Phaseolus Vulgaris in Complex with K+ Cations (pdb code 4pu6). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Crystal Structure of Potassium-Dependent Plant-Type L-Asparaginase From Phaseolus Vulgaris in Complex with K+ Cations, PDB code: 4pu6:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in 4pu6

Go back to Potassium Binding Sites List in 4pu6
Potassium binding site 1 out of 4 in the Crystal Structure of Potassium-Dependent Plant-Type L-Asparaginase From Phaseolus Vulgaris in Complex with K+ Cations


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of Potassium-Dependent Plant-Type L-Asparaginase From Phaseolus Vulgaris in Complex with K+ Cations within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K201

b:41.7
occ:1.00
 O A:ASP61 2.5 42.0 1.0
O A:ARG68 2.6 31.1 1.0
O A:SER66 2.6 25.4 1.0
O A:LEU58 2.9 37.1 1.0
O A:GLU59 2.9 29.4 1.0
O A:PHE64 3.1 29.5 1.0
O A:HOH304 3.2 36.7 1.0
OG A:SER66 3.3 41.0 1.0
C A:SER66 3.5 29.9 1.0
C A:GLU59 3.6 28.6 1.0
C A:ASP61 3.6 39.2 1.0
C A:ARG68 3.8 36.8 1.0
CA A:GLU59 3.8 26.4 1.0
N A:SER66 3.9 28.7 1.0
C A:PHE64 4.0 30.6 1.0
C A:LEU58 4.0 34.6 1.0
CA A:SER66 4.1 28.5 1.0
CA A:PRO62 4.2 36.3 1.0
N A:ARG68 4.2 32.1 1.0
CB A:SER66 4.3 31.7 1.0
N A:ASP61 4.3 29.5 1.0
N A:GLY67 4.4 27.4 1.0
C A:GLY67 4.4 30.0 1.0
C A:PRO62 4.4 39.7 1.0
N A:PRO62 4.4 39.5 1.0
N A:PHE64 4.4 39.9 1.0
N A:GLU59 4.4 31.4 1.0
CA A:GLY67 4.5 20.7 1.0
N A:THR60 4.6 28.6 1.0
C A:THR60 4.6 29.5 1.0
CA A:PHE64 4.6 33.4 1.0
CA A:ARG68 4.6 34.1 1.0
CA A:ASP61 4.6 34.2 1.0
N A:GLY69 4.7 38.3 1.0
O A:PRO62 4.7 49.8 1.0
CA A:GLY69 4.7 31.7 1.0
N A:LEU63 4.7 37.9 1.0
CB A:PHE64 4.9 26.0 1.0
O A:GLY67 4.9 30.4 1.0
N A:ASN65 4.9 35.8 1.0
C A:ASN65 4.9 26.6 1.0
C A:GLY69 5.0 32.2 1.0

Potassium binding site 2 out of 4 in 4pu6

Go back to Potassium Binding Sites List in 4pu6
Potassium binding site 2 out of 4 in the Crystal Structure of Potassium-Dependent Plant-Type L-Asparaginase From Phaseolus Vulgaris in Complex with K+ Cations


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of Potassium-Dependent Plant-Type L-Asparaginase From Phaseolus Vulgaris in Complex with K+ Cations within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K202

b:44.9
occ:1.00
 O A:HOH305 2.5 33.6 1.0
O A:SER115 2.6 39.7 1.0
O A:HIS117 2.7 42.3 1.0
O A:MET112 2.9 41.9 1.0
O A:VAL111 3.0 37.2 1.0
O A:HOH338 3.0 55.6 1.0
C A:MET112 3.5 41.1 1.0
C A:HIS117 3.6 38.6 1.0
CA A:MET112 3.7 38.8 1.0
C A:SER115 3.7 43.8 1.0
N A:HIS117 3.9 32.7 1.0
C A:VAL111 3.9 33.1 1.0
OG A:SER115 4.0 41.7 1.0
C A:PRO116 4.1 40.6 1.0
N A:MET112 4.3 27.5 1.0
CA A:HIS117 4.3 37.3 1.0
O A:PRO116 4.4 42.2 1.0
O A:CYS92 4.4 37.8 1.0
N A:SER118 4.5 36.9 1.0
CA A:PRO116 4.5 45.8 1.0
N A:SER115 4.5 50.1 1.0
N A:PRO116 4.6 44.8 1.0
N A:ASP113 4.6 40.2 1.0
CA A:SER115 4.6 43.7 1.0
CA A:SER118 4.8 32.1 1.0
CB A:SER115 4.9 40.6 1.0
CB A:MET112 5.0 39.4 1.0

Potassium binding site 3 out of 4 in 4pu6

Go back to Potassium Binding Sites List in 4pu6
Potassium binding site 3 out of 4 in the Crystal Structure of Potassium-Dependent Plant-Type L-Asparaginase From Phaseolus Vulgaris in Complex with K+ Cations


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Crystal Structure of Potassium-Dependent Plant-Type L-Asparaginase From Phaseolus Vulgaris in Complex with K+ Cations within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K201

b:57.8
occ:1.00
 O C:ASP61 2.6 50.6 1.0
O C:SER66 2.6 43.4 1.0
O C:ARG68 2.7 36.1 1.0
O C:LEU58 2.9 47.7 1.0
O C:GLU59 2.9 47.8 1.0
O C:HOH328 3.2 42.5 1.0
O C:PHE64 3.2 49.9 1.0
C C:SER66 3.3 43.7 1.0
OG C:SER66 3.4 51.3 1.0
C C:GLU59 3.5 43.5 1.0
C C:ASP61 3.7 45.6 1.0
CA C:GLU59 3.7 43.2 1.0
C C:ARG68 3.8 41.5 1.0
N C:SER66 3.9 38.3 1.0
C C:LEU58 3.9 46.3 1.0
CA C:SER66 4.1 41.7 1.0
N C:GLY67 4.1 39.8 1.0
C C:PHE64 4.1 50.6 1.0
N C:ARG68 4.2 41.3 1.0
CB C:SER66 4.3 44.7 1.0
CA C:PRO62 4.3 42.3 1.0
N C:GLU59 4.3 43.5 1.0
C C:GLY67 4.4 42.8 1.0
N C:ASP61 4.4 43.8 1.0
CA C:GLY67 4.4 36.0 1.0
N C:PRO62 4.5 44.4 1.0
N C:PHE64 4.5 49.1 1.0
C C:PRO62 4.5 47.3 1.0
N C:THR60 4.5 38.2 1.0
CA C:ARG68 4.6 40.7 1.0
N C:LEU63 4.6 47.2 1.0
CA C:ASP61 4.7 46.4 1.0
CA C:PHE64 4.7 53.0 1.0
C C:THR60 4.7 41.9 1.0
N C:GLY69 4.8 44.5 1.0
CB C:PHE64 4.9 40.7 1.0
O C:GLY67 5.0 41.2 1.0
C C:ASN65 5.0 38.8 1.0
CB C:GLU59 5.0 40.0 1.0
CA C:GLY69 5.0 47.0 1.0

Potassium binding site 4 out of 4 in 4pu6

Go back to Potassium Binding Sites List in 4pu6
Potassium binding site 4 out of 4 in the Crystal Structure of Potassium-Dependent Plant-Type L-Asparaginase From Phaseolus Vulgaris in Complex with K+ Cations


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Crystal Structure of Potassium-Dependent Plant-Type L-Asparaginase From Phaseolus Vulgaris in Complex with K+ Cations within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K202

b:47.8
occ:1.00
 O C:SER115 2.4 34.2 1.0
O C:HOH309 2.5 28.1 1.0
O C:HIS117 2.7 36.2 1.0
O C:MET112 2.8 37.3 1.0
O C:VAL111 2.9 36.6 1.0
O C:HOH329 3.4 41.9 1.0
C C:MET112 3.5 38.3 1.0
C C:SER115 3.6 42.2 1.0
C C:HIS117 3.7 30.1 1.0
CA C:MET112 3.8 34.9 1.0
N C:HIS117 3.9 32.8 1.0
C C:VAL111 3.9 32.8 1.0
C C:PRO116 4.0 41.1 1.0
OG C:SER115 4.0 34.4 1.0
O C:PRO116 4.3 48.8 1.0
N C:MET112 4.3 27.3 1.0
CA C:PRO116 4.4 41.9 1.0
N C:SER115 4.4 43.1 1.0
N C:PRO116 4.4 44.5 1.0
CA C:HIS117 4.4 27.3 1.0
CA C:SER115 4.5 43.2 1.0
N C:ASP113 4.7 39.8 1.0
N C:SER118 4.7 27.0 1.0
O C:CYS92 4.7 31.4 1.0
CB C:SER115 4.8 37.0 1.0
CA C:SER118 4.9 29.1 1.0

Reference:

M.Bejger, B.Imiolczyk, D.Clavel, M.Gilski, A.Pajak, F.Marsolais, M.Jaskolski. Na+/K+ Exchange Switches the Catalytic Apparatus of Potassium-Dependent Plant L-Asparaginase Acta Crystallogr.,Sect.D V. 70 1854 2014.
ISSN: ISSN 0907-4449
PubMed: 25004963
DOI: 10.1107/S1399004714008700
Page generated: Mon Aug 12 11:45:22 2024

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