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Potassium in PDB 5koe: The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg

Enzymatic activity of The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg

All present enzymatic activity of The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg:
2.4.1.69;

Protein crystallography data

The structure of The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg, PDB code: 5koe was solved by P.M.Alahuhta, V.V.Lunin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 157.53 / 1.79
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 81.748, 80.150, 157.616, 90.00, 91.91, 90.00
R / Rfree (%) 16.6 / 21.7

Other elements in 5koe:

The structure of The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg also contains other interesting chemical elements:

Chlorine (Cl) 19 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg (pdb code 5koe). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 8 binding sites of Potassium where determined in the The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg, PDB code: 5koe:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Potassium binding site 1 out of 8 in 5koe

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Potassium binding site 1 out of 8 in the The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K611

b:20.6
occ:1.00
 O A:ASP212 2.7 21.1 1.0
O A:PHE215 2.8 13.3 1.0
O D:HOH793 2.8 38.0 1.0
O D:HOH1119 2.8 15.5 0.5
OD1 A:ASP212 2.8 32.2 1.0
O A:HOH891 2.9 29.5 1.0
O D:HOH708 3.5 28.4 0.5
CG A:ASP212 3.5 27.5 1.0
CG2 A:THR339 3.7 15.6 1.0
C A:ASP212 3.8 19.6 1.0
C A:PHE215 3.8 14.0 1.0
C1 D:GOL607 3.8 28.1 0.5
O A:HOH742 4.0 38.1 1.0
O A:HOH975 4.0 21.0 1.0
OD2 A:ASP212 4.1 30.8 1.0
O3 D:GOL607 4.1 29.5 0.5
CA A:CYS216 4.2 16.4 1.0
CA A:ASP212 4.2 20.2 1.0
NZ D:LYS154 4.2 34.3 1.0
N A:CYS216 4.4 14.9 1.0
O D:HOH704 4.4 37.2 0.5
CB A:ASP212 4.5 23.3 1.0
O D:HOH702 4.6 21.8 0.5
O1 D:GOL607 4.6 27.1 0.5
C3 D:GOL607 4.7 28.9 0.5
C A:CYS216 4.8 15.1 1.0
N A:ASP213 4.9 18.8 1.0
N A:PHE215 4.9 14.2 1.0
CA A:PHE215 4.9 13.7 1.0
C2 D:GOL607 4.9 28.2 0.5

Potassium binding site 2 out of 8 in 5koe

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Potassium binding site 2 out of 8 in the The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K612

b:38.6
occ:1.00
 O A:HOH762 2.5 26.3 1.0
O A:SER471 2.7 14.3 1.0
O A:THR473 2.8 16.6 1.0
O A:HOH1065 2.9 40.1 1.0
O A:HOH1110 3.1 44.4 1.0
O A:GLY492 3.4 19.5 1.0
C A:SER471 3.7 14.6 1.0
C A:LEU472 3.9 16.4 1.0
C A:THR473 3.9 16.7 1.0
CD1 A:LEU494 3.9 18.9 1.0
CA A:LEU472 4.1 16.1 1.0
CD2 A:LEU494 4.1 20.5 1.0
CA A:GLY492 4.1 17.9 1.0
N A:THR473 4.1 15.3 1.0
CG A:LEU494 4.1 19.0 1.0
C A:GLY492 4.2 18.1 1.0
O A:LEU472 4.3 17.8 1.0
N A:LEU472 4.3 14.8 1.0
O A:HOH1054 4.4 29.6 1.0
O A:HOH1166 4.5 47.2 1.0
NH1 A:ARG121 4.5 28.2 1.0
CA A:THR473 4.6 16.0 1.0
CA A:SER471 4.8 13.2 1.0
NZ A:LYS122 4.8 50.8 1.0
N A:ASP474 4.9 17.0 1.0

Potassium binding site 3 out of 8 in 5koe

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Potassium binding site 3 out of 8 in the The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K605

b:23.4
occ:1.00
 O B:ASP212 2.6 17.6 1.0
O B:HOH1123 2.7 34.8 1.0
OD1 B:ASP212 2.8 28.5 1.0
O B:HOH1127 2.8 29.6 1.0
O B:HOH896 2.9 26.1 1.0
O B:PHE215 2.9 13.8 1.0
O C:HOH907 3.2 36.0 1.0
CG B:ASP212 3.5 24.1 1.0
CG2 B:THR339 3.7 15.1 1.0
C B:ASP212 3.7 18.7 1.0
O C:HOH1015 3.9 31.2 1.0
C B:PHE215 3.9 13.3 1.0
OD2 B:ASP212 4.0 28.0 1.0
O B:HOH729 4.0 31.8 1.0
O B:HOH928 4.1 20.8 1.0
CA B:ASP212 4.2 19.0 1.0
NZ C:LYS154 4.3 29.7 1.0
CA B:CYS216 4.3 15.6 1.0
K C:K609 4.4 40.3 0.5
CB B:ASP212 4.4 22.2 1.0
N B:CYS216 4.5 14.2 1.0
N B:ASP213 4.9 18.0 1.0
C B:CYS216 4.9 14.7 1.0

Potassium binding site 4 out of 8 in 5koe

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Potassium binding site 4 out of 8 in the The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K606

b:40.3
occ:1.00
 O B:SER471 2.7 12.7 1.0
O B:THR473 2.7 17.6 1.0
O B:HOH755 2.8 37.7 1.0
O B:HOH947 3.2 45.0 1.0
C B:LEU472 3.7 15.8 1.0
O B:HOH1022 3.7 49.9 1.0
C B:SER471 3.7 13.7 1.0
O B:GLY492 3.7 18.1 1.0
C B:THR473 3.8 17.6 1.0
CA B:LEU472 4.0 15.4 1.0
N B:THR473 4.0 14.8 1.0
O B:LEU472 4.1 15.9 1.0
CD2 B:LEU494 4.1 19.8 1.0
CD1 B:LEU494 4.1 17.1 1.0
CG B:LEU494 4.1 17.0 1.0
CA B:GLY492 4.2 15.3 1.0
N B:LEU472 4.3 14.0 1.0
O B:HOH953 4.3 25.5 1.0
C B:GLY492 4.4 16.4 1.0
CA B:THR473 4.5 15.7 1.0
CD B:ARG121 4.7 36.8 0.5
N B:ASP474 4.8 17.6 1.0
CA B:SER471 4.9 12.7 1.0
O B:HOH824 4.9 33.7 1.0
CA B:ASP474 5.0 19.2 1.0
NH1 B:ARG121 5.0 28.3 0.5

Potassium binding site 5 out of 8 in 5koe

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Potassium binding site 5 out of 8 in the The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K607

b:26.8
occ:1.00
 O C:ASP212 2.7 23.1 1.0
O C:HOH1169 2.8 24.2 1.0
O C:PHE215 2.8 15.1 1.0
O C:HOH1159 2.8 37.4 1.0
OD1 C:ASP212 2.9 32.5 1.0
O B:HOH1009 3.0 41.5 1.0
CG C:ASP212 3.6 29.9 1.0
O B:HOH785 3.6 28.1 0.5
CG2 C:THR339 3.8 15.7 1.0
O B:HOH785 3.8 22.7 0.5
C C:ASP212 3.8 22.1 1.0
C C:PHE215 3.8 15.6 1.0
O C:HOH883 3.9 26.9 1.0
O C:HOH839 4.0 35.1 1.0
OD2 C:ASP212 4.0 36.3 1.0
CA C:CYS216 4.1 16.8 1.0
CA C:ASP212 4.2 23.1 1.0
N C:CYS216 4.3 16.1 1.0
NZ B:LYS154 4.3 37.0 1.0
CB C:ASP212 4.5 27.3 1.0
C C:CYS216 4.8 15.8 1.0
N C:ASP213 4.9 20.9 1.0
CL C:CL603 4.9 32.3 1.0
N C:PHE215 5.0 14.7 1.0
CA C:PHE215 5.0 14.8 1.0

Potassium binding site 6 out of 8 in 5koe

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Potassium binding site 6 out of 8 in the The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K608

b:43.8
occ:1.00
 O C:HOH767 2.5 30.6 1.0
O C:HOH1095 2.6 22.2 0.5
O C:THR473 2.7 14.2 1.0
O C:SER471 2.8 14.1 1.0
O C:HOH1066 3.2 38.4 1.0
O C:GLY492 3.6 20.1 1.0
C C:LEU472 3.8 14.2 1.0
C C:SER471 3.9 13.3 1.0
C C:THR473 3.9 15.2 1.0
CD1 C:LEU494 4.0 16.2 1.0
N C:THR473 4.0 13.8 1.0
CG C:LEU494 4.1 15.9 1.0
CA C:LEU472 4.1 14.6 1.0
CD2 C:LEU494 4.1 17.3 1.0
O C:LEU472 4.1 15.2 1.0
CA C:GLY492 4.2 16.8 1.0
C C:GLY492 4.3 18.1 1.0
CE C:LYS122 4.3 51.9 1.0
CG C:ARG121 4.4 26.0 0.5
O C:HOH893 4.4 25.9 1.0
N C:LEU472 4.5 13.9 1.0
CA C:THR473 4.6 14.3 1.0
CD C:ARG121 4.7 25.7 0.5
N C:ASP474 4.9 15.6 1.0
NH1 C:ARG121 4.9 23.1 0.5

Potassium binding site 7 out of 8 in 5koe

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Potassium binding site 7 out of 8 in the The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K609

b:40.3
occ:0.50
 O C:HOH1015 2.4 31.2 1.0
O B:HOH1127 2.6 29.6 1.0
O C:HOH1206 2.8 34.9 1.0
O B:HOH896 3.0 26.1 1.0
O B:HOH1179 3.0 32.3 1.0
O C:HOH966 3.1 30.6 1.0
O C:GLY149 3.1 24.9 1.0
O B:HOH729 3.7 31.8 1.0
C C:GLY149 3.8 24.4 1.0
CA C:GLY149 4.3 23.4 1.0
O B:HOH987 4.4 35.6 1.0
K B:K605 4.4 23.4 1.0
O B:HOH1123 4.5 34.8 1.0
N C:THR150 4.7 22.7 1.0
CL B:CL601 4.9 28.7 1.0
O B:HOH887 4.9 39.0 1.0

Potassium binding site 8 out of 8 in 5koe

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Potassium binding site 8 out of 8 in the The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of The Structure of Arabidopsis Thaliana FUT1 in Complex with Xxlg within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K605

b:25.2
occ:1.00
 O D:ASP212 2.7 23.4 1.0
OD1 D:ASP212 2.8 33.2 1.0
O D:HOH1151 2.8 33.2 1.0
O D:HOH1135 2.8 35.8 1.0
O D:PHE215 2.8 14.9 1.0
O A:HOH963 2.9 25.8 1.0
O A:HOH1066 3.0 30.5 1.0
CG D:ASP212 3.5 30.6 1.0
O A:HOH846 3.6 35.0 0.5
C D:ASP212 3.8 21.1 1.0
CG2 D:THR339 3.8 15.7 1.0
C D:PHE215 3.8 15.6 1.0
O D:HOH876 3.9 23.9 1.0
OD2 D:ASP212 4.0 35.1 1.0
O D:HOH737 4.0 35.7 1.0
CA D:CYS216 4.2 18.5 1.0
NZ A:LYS154 4.2 31.1 1.0
O A:HOH1115 4.2 38.4 1.0
CA D:ASP212 4.2 23.1 1.0
N D:CYS216 4.4 16.7 1.0
CB D:ASP212 4.5 27.3 1.0
C D:CYS216 4.8 17.4 1.0
N D:ASP213 4.9 19.3 1.0
N D:PHE215 5.0 15.2 1.0
CA D:PHE215 5.0 15.1 1.0

Reference:

B.R.Urbanowicz, V.S.Bharadwaj, M.Alahuhta, M.J.Pena, V.V.Lunin, Y.J.Bomble, S.Wang, J.Y.Yang, S.T.Tuomivaara, M.E.Himmel, K.W.Moremen, W.S.York, M.F.Crowley. Structural, Mutagenic and in Silico Studies of Xyloglucan Fucosylation in Arabidopsis Thaliana Suggest A Water-Mediated Mechanism. Plant J. V. 91 931 2017.
ISSN: ESSN 1365-313X
PubMed: 28670741
DOI: 10.1111/TPJ.13628
Page generated: Mon Aug 12 14:01:29 2024

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