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Potassium in PDB 1xky: Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution.

Enzymatic activity of Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution.

All present enzymatic activity of Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution.:
4.2.1.52;

Protein crystallography data

The structure of Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution., PDB code: 1xky was solved by V.Levdikov, E.Blagova, M.J.Fogg, J.A.Brannigan, N.Milioti, A.J.Wilkinson, K.S.Wilson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.96 / 1.94
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 55.203, 126.882, 173.319, 90.00, 90.00, 90.00
R / Rfree (%) 15.3 / 19.7

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution. (pdb code 1xky). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 10 binding sites of Potassium where determined in the Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution., PDB code: 1xky:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Potassium binding site 1 out of 10 in 1xky

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Potassium binding site 1 out of 10 in the Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution.


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 Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1806

b:21.0
occ:1.00
 O A:HOH1956 2.7 27.3 1.0
O A:ALA180 2.8 22.1 1.0
O A:HOH1896 2.8 21.7 1.0
OG1 A:THR179 2.8 19.1 1.0
O A:ILE176 2.8 20.0 1.0
O A:THR179 3.1 20.6 1.0
O A:HOH2222 3.1 44.0 1.0
O A:PHE183 3.2 19.4 1.0
C A:THR179 3.6 21.0 1.0
C A:ALA180 3.6 22.6 1.0
C A:ILE176 3.8 20.1 1.0
CB A:THR179 3.9 20.2 1.0
O A:HOH1812 3.9 13.3 1.0
CA A:ILE176 4.0 19.7 1.0
CA A:THR179 4.2 20.5 1.0
N A:ALA180 4.2 21.4 1.0
N A:ASP181 4.3 23.3 1.0
CA A:ASP181 4.3 23.8 1.0
C A:PHE183 4.4 19.3 1.0
CA A:ALA180 4.4 22.1 1.0
N A:THR179 4.5 21.2 1.0
CG2 A:ILE176 4.5 19.4 1.0
O A:ILE175 4.5 18.4 1.0
CB A:PHE183 4.7 19.9 1.0
C A:ASP181 4.7 23.7 1.0
N A:PHE183 4.8 21.1 1.0
O A:ASP181 4.8 24.0 1.0
CB A:ILE176 4.9 19.5 1.0
CA A:PHE183 4.9 20.0 1.0

Potassium binding site 2 out of 10 in 1xky

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Potassium binding site 2 out of 10 in the Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution.


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 Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1807

b:17.7
occ:1.00
 O A:HOH1911 2.6 23.8 1.0
O A:SER154 2.7 19.1 1.0
O A:ILE159 2.7 17.0 1.0
O A:ILE156 2.8 19.9 1.0
O A:HOH1917 2.9 24.7 1.0
O A:GLU157 3.2 19.9 1.0
C A:ILE159 3.7 17.3 1.0
C A:SER154 3.7 18.9 1.0
C A:GLU157 3.7 20.2 1.0
C A:ILE156 3.7 20.3 1.0
O A:HOH2113 4.0 36.6 1.0
CA A:GLU157 4.1 21.1 1.0
N A:ILE159 4.2 17.6 1.0
N A:GLU157 4.3 20.4 1.0
CA A:SER154 4.4 18.7 1.0
CA A:ILE159 4.5 17.3 1.0
N A:VAL160 4.5 16.7 1.0
N A:ILE156 4.5 20.3 1.0
CA A:VAL160 4.5 16.6 1.0
N A:ASN158 4.6 19.0 1.0
C A:GLU155 4.6 20.3 1.0
CG1 A:VAL160 4.7 17.3 1.0
N A:GLU155 4.7 19.5 1.0
CA A:ILE156 4.8 20.2 1.0
CD1 A:PHE183 4.9 17.5 1.0
CA A:GLU155 4.9 20.3 1.0
C A:ASN158 4.9 18.0 1.0
CB A:ILE159 5.0 17.2 1.0

Potassium binding site 3 out of 10 in 1xky

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Potassium binding site 3 out of 10 in the Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution.


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 Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K1802

b:19.7
occ:1.00
 O B:HOH1910 2.6 22.0 1.0
O B:HOH1888 2.7 20.6 1.0
O B:ALA180 2.7 20.0 1.0
OG1 B:THR179 2.8 19.9 1.0
O B:ILE176 2.9 19.9 1.0
O B:THR179 3.1 19.9 1.0
O B:PHE183 3.3 18.1 1.0
C B:ALA180 3.5 20.9 1.0
C B:THR179 3.6 20.2 1.0
C B:ILE176 3.9 20.3 1.0
CB B:THR179 3.9 20.1 1.0
K B:K1809 3.9 29.0 1.0
CA B:ILE176 4.0 19.9 1.0
N B:ALA180 4.1 20.4 1.0
CA B:THR179 4.2 20.0 1.0
N B:ASP181 4.3 21.0 1.0
CA B:ASP181 4.3 21.9 1.0
CA B:ALA180 4.4 20.6 1.0
C B:PHE183 4.4 18.3 1.0
O B:ILE175 4.5 19.6 1.0
N B:THR179 4.5 20.2 1.0
CG2 B:ILE176 4.6 19.7 1.0
C B:ASP181 4.7 21.6 1.0
CB B:PHE183 4.8 18.7 1.0
N B:PHE183 4.9 19.7 1.0
O B:ASP181 4.9 21.6 1.0
CB B:ILE176 4.9 19.8 1.0
OD1 B:ASP181 4.9 25.3 1.0
CA B:PHE183 4.9 18.9 1.0

Potassium binding site 4 out of 10 in 1xky

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Potassium binding site 4 out of 10 in the Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution.


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 Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K1803

b:19.0
occ:1.00
 O B:HOH1942 2.6 26.2 1.0
O B:SER154 2.7 16.1 1.0
O B:ILE159 2.7 17.7 1.0
O B:ILE156 2.9 18.7 1.0
O B:HOH1946 2.9 26.2 1.0
O B:GLU157 3.1 19.2 1.0
C B:ILE159 3.7 17.1 1.0
C B:GLU157 3.7 19.0 1.0
C B:SER154 3.7 16.8 1.0
C B:ILE156 3.8 18.5 1.0
CA B:GLU157 4.0 19.7 1.0
N B:ILE159 4.1 17.1 1.0
N B:GLU157 4.3 19.1 1.0
O B:HOH2139 4.4 34.1 1.0
CA B:SER154 4.4 16.7 1.0
CA B:ILE159 4.5 17.1 1.0
N B:VAL160 4.5 16.9 1.0
O B:HOH2161 4.5 42.9 1.0
CA B:VAL160 4.5 16.8 1.0
N B:ASN158 4.6 18.4 1.0
N B:ILE156 4.6 18.0 1.0
C B:GLU155 4.7 18.0 1.0
N B:GLU155 4.7 17.4 1.0
CG1 B:VAL160 4.7 17.7 1.0
CD1 B:PHE183 4.8 16.7 1.0
CA B:ILE156 4.8 18.2 1.0
CB B:ILE159 4.9 17.0 1.0
C B:ASN158 4.9 16.9 1.0
CA B:GLU155 4.9 18.2 1.0

Potassium binding site 5 out of 10 in 1xky

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Potassium binding site 5 out of 10 in the Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution.


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K1809

b:29.0
occ:1.00
 O B:HOH1888 2.7 20.6 1.0
O B:THR179 2.7 19.9 1.0
O B:GLU177 2.8 21.4 1.0
O B:ILE176 3.0 19.9 1.0
O C:HOH2107 3.1 37.2 1.0
C B:GLU177 3.5 21.3 1.0
C B:THR179 3.9 20.2 1.0
CA B:GLU177 3.9 21.3 1.0
K B:K1802 3.9 19.7 1.0
C B:ILE176 4.0 20.3 1.0
OD1 B:ASP181 4.1 25.3 1.0
N B:THR179 4.3 20.2 1.0
N B:GLU177 4.5 20.9 1.0
N B:LYS178 4.5 21.0 1.0
C B:ALA180 4.8 20.9 1.0
CA B:THR179 4.8 20.0 1.0
N B:ALA180 4.8 20.4 1.0
CA B:ALA180 4.8 20.6 1.0
C B:LYS178 4.9 20.6 1.0
O B:ALA180 5.0 20.0 1.0

Potassium binding site 6 out of 10 in 1xky

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Potassium binding site 6 out of 10 in the Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution.


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K1801

b:17.7
occ:1.00
 O C:SER154 2.7 16.2 1.0
O C:ILE159 2.7 15.7 1.0
O C:HOH1971 2.7 24.9 1.0
O C:HOH2132 2.8 35.4 1.0
O C:ILE156 2.8 17.0 1.0
O C:GLU157 3.3 17.4 1.0
C C:ILE159 3.7 15.7 1.0
C C:SER154 3.7 16.2 1.0
C C:GLU157 3.8 17.3 1.0
C C:ILE156 3.8 17.5 1.0
CA C:GLU157 4.1 18.4 1.0
N C:ILE159 4.2 15.6 1.0
N C:GLU157 4.4 17.6 1.0
CA C:SER154 4.4 15.5 1.0
O C:HOH2213 4.4 41.3 1.0
CA C:ILE159 4.5 15.7 1.0
CA C:VAL160 4.5 15.6 1.0
N C:VAL160 4.5 15.7 1.0
N C:ILE156 4.6 17.4 1.0
C C:GLU155 4.6 18.0 1.0
CG1 C:VAL160 4.7 15.8 1.0
N C:GLU155 4.7 17.2 1.0
N C:ASN158 4.7 16.4 1.0
CA C:ILE156 4.9 17.6 1.0
CA C:GLU155 4.9 18.1 1.0
CD1 C:PHE183 4.9 16.2 1.0
CB C:ILE159 4.9 15.7 1.0
C C:ASN158 5.0 15.7 1.0

Potassium binding site 7 out of 10 in 1xky

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Potassium binding site 7 out of 10 in the Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution.


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K1805

b:19.3
occ:1.00
 O C:HOH1940 2.7 21.7 1.0
O C:ALA180 2.8 19.4 1.0
O C:HOH1916 2.8 19.5 1.0
OG1 C:THR179 2.9 16.7 1.0
O C:THR179 2.9 18.6 1.0
O C:ILE176 3.0 17.1 1.0
O C:PHE183 3.3 16.2 1.0
C C:THR179 3.5 18.6 1.0
C C:ALA180 3.6 19.6 1.0
C C:ILE176 3.9 17.2 1.0
K C:K1810 3.9 27.9 1.0
CB C:THR179 3.9 18.2 1.0
CA C:ILE176 4.1 16.8 1.0
CA C:THR179 4.2 18.2 1.0
N C:ALA180 4.2 18.9 1.0
N C:ASP181 4.2 19.8 1.0
CA C:ASP181 4.3 20.1 1.0
C C:PHE183 4.5 16.5 1.0
CA C:ALA180 4.5 19.3 1.0
N C:THR179 4.5 18.5 1.0
CG2 C:ILE176 4.5 16.4 1.0
O C:ILE175 4.6 17.2 1.0
C C:ASP181 4.8 19.5 1.0
O C:HOH2153 4.8 37.8 1.0
CB C:PHE183 4.8 16.9 1.0
CB C:ILE176 4.9 16.4 1.0
O C:ASP181 4.9 19.4 1.0
N C:PHE183 4.9 17.7 1.0
OD1 C:ASP181 5.0 23.2 1.0
CA C:PHE183 5.0 17.0 1.0

Potassium binding site 8 out of 10 in 1xky

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Potassium binding site 8 out of 10 in the Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution.


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K1810

b:27.9
occ:1.00
 O C:HOH1940 2.7 21.7 1.0
O C:THR179 2.8 18.6 1.0
O C:GLU177 2.9 18.0 1.0
O C:ILE176 3.0 17.1 1.0
C C:GLU177 3.6 18.2 1.0
K C:K1805 3.9 19.3 1.0
C C:THR179 4.0 18.6 1.0
CA C:GLU177 4.0 18.0 1.0
C C:ILE176 4.1 17.2 1.0
OD1 C:ASP181 4.2 23.2 1.0
N C:THR179 4.4 18.5 1.0
N C:LYS178 4.5 18.5 1.0
N C:GLU177 4.6 17.3 1.0
C C:ALA180 4.8 19.6 1.0
CA C:THR179 4.8 18.2 1.0
O C:HOH2153 4.9 37.8 1.0
C C:LYS178 4.9 18.5 1.0
N C:ALA180 4.9 18.9 1.0
CA C:ALA180 4.9 19.3 1.0

Potassium binding site 9 out of 10 in 1xky

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Potassium binding site 9 out of 10 in the Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution.


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K1804

b:19.9
occ:1.00
 O D:HOH1911 2.6 21.8 1.0
O D:ALA180 2.8 19.2 1.0
O D:HOH1965 2.8 28.6 1.0
OG1 D:THR179 2.8 16.7 1.0
O D:ILE176 2.9 17.9 1.0
O D:THR179 2.9 17.9 1.0
O D:PHE183 3.3 17.9 1.0
C D:THR179 3.5 18.2 1.0
C D:ALA180 3.6 19.6 1.0
O D:HOH2226 3.6 48.8 1.0
C D:ILE176 3.8 17.9 1.0
O D:HOH1810 3.9 8.3 1.0
CB D:THR179 3.9 18.1 1.0
CA D:ILE176 4.1 17.9 1.0
N D:ALA180 4.1 18.9 1.0
CA D:THR179 4.2 18.2 1.0
N D:ASP181 4.2 19.7 1.0
CA D:ASP181 4.3 20.6 1.0
CA D:ALA180 4.4 18.9 1.0
C D:PHE183 4.4 17.9 1.0
N D:THR179 4.5 18.0 1.0
O D:ILE175 4.5 17.5 1.0
CG2 D:ILE176 4.6 17.7 1.0
CB D:PHE183 4.7 18.8 1.0
C D:ASP181 4.8 20.6 1.0
N D:PHE183 4.8 19.4 1.0
O D:ASP181 4.8 20.8 1.0
CA D:PHE183 4.9 18.7 1.0
CB D:ILE176 4.9 17.8 1.0
OD1 D:ASP181 5.0 22.4 1.0

Potassium binding site 10 out of 10 in 1xky

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Potassium binding site 10 out of 10 in the Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution.


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 10 of Crystal Structure of Dihydrodipicolinate Synthase Dapa-2 (BA3935) From Bacillus Anthracis at 1.94A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K1808

b:19.8
occ:1.00
 O D:HOH2111 2.7 31.9 1.0
O D:ILE159 2.7 17.3 1.0
O D:SER154 2.8 18.5 1.0
O D:ILE156 2.8 18.5 1.0
O D:HOH1967 2.8 27.9 1.0
O D:GLU157 3.1 18.7 1.0
C D:ILE159 3.7 17.4 1.0
C D:GLU157 3.7 18.9 1.0
C D:SER154 3.8 17.8 1.0
C D:ILE156 3.8 19.0 1.0
CA D:GLU157 4.1 19.6 1.0
N D:ILE159 4.2 17.1 1.0
O D:HOH2137 4.2 43.9 1.0
N D:GLU157 4.4 18.9 1.0
CA D:SER154 4.5 16.7 1.0
CA D:ILE159 4.5 17.2 1.0
CA D:VAL160 4.5 17.2 1.0
N D:VAL160 4.5 17.1 1.0
N D:ASN158 4.6 17.9 1.0
N D:ILE156 4.7 18.7 1.0
C D:GLU155 4.7 19.0 1.0
CG1 D:VAL160 4.8 18.2 1.0
N D:GLU155 4.8 18.7 1.0
CD1 D:PHE183 4.9 18.7 1.0
C D:ASN158 4.9 17.4 1.0
CA D:ILE156 4.9 18.4 1.0
CB D:ILE159 4.9 17.1 1.0
OD1 D:ASP182 4.9 26.5 1.0
CA D:GLU155 5.0 19.3 1.0

Reference:

E.Blagova, V.Levdikov, N.Milioti, M.J.Fogg, A.K.Kalliomaa, J.A.Brannigan, K.S.Wilson, A.J.Wilkinson. Crystal Structure of Dihydrodipicolinate Synthase (BA3935) From Bacillus Anthracis at 1.94 A Resolution Proteins V. 62 297 2006.
ISSN: ISSN 0887-3585
PubMed: 16287120
DOI: 10.1002/PROT.20684
Page generated: Mon Aug 12 05:46:07 2024

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