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Barium in PDB 3lr4: Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH

Enzymatic activity of Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH

All present enzymatic activity of Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH:
2.7.13.3;

Protein crystallography data

The structure of Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH, PDB code: 3lr4 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) 18.91 / 1.90
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 57.780, 57.780, 75.900, 90.00, 90.00, 120.00
R / Rfree (%) 18.6 / 22.6

Other elements in 3lr4:

The structure of Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Barium Binding Sites:

The binding sites of Barium atom in the Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH (pdb code 3lr4). This binding sites where shown within 5.0 Angstroms radius around Barium atom.
In total 5 binding sites of Barium where determined in the Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH, PDB code: 3lr4:
Jump to Barium binding site number: 1; 2; 3; 4; 5;

Barium binding site 1 out of 5 in 3lr4

Go back to Barium Binding Sites List in 3lr4
Barium binding site 1 out of 5 in the Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 1 of Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ba152

b:58.7
occ:0.80
 O A:HOH238 2.6 40.2 1.0
O A:HOH237 2.7 44.2 1.0
O A:HOH159 2.8 26.8 1.0
O A:HOH192 2.9 43.8 1.0
O A:SER108 2.9 25.7 1.0
O A:HOH239 3.1 50.4 1.0
C A:SER108 4.0 24.6 1.0
O A:HOH240 4.7 51.8 1.0
OD1 A:ASP112 4.8 23.7 0.5
CA A:SER108 4.8 25.0 1.0
O A:HOH213 4.8 49.4 1.0
O A:ARG107 4.9 22.4 1.0
N A:ARG109 4.9 23.4 1.0
O A:ARG109 5.0 23.4 1.0

Barium binding site 2 out of 5 in 3lr4

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Barium binding site 2 out of 5 in the Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 2 of Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ba153

b:39.5
occ:0.20
 BA A:BA154 2.0 38.1 0.2
O A:HOH182 2.2 29.1 1.0
O A:HOH196 2.3 38.0 1.0
O A:HOH277 2.6 55.9 1.0
OD2 A:ASP136 2.6 29.3 1.0
O A:ASP134 2.9 30.1 1.0
O A:HOH172 3.3 39.5 1.0
O A:HOH228 3.5 33.1 1.0
CG A:ASP136 3.8 24.8 1.0
N A:ASP136 4.0 22.6 1.0
O A:HOH188 4.1 48.3 1.0
C A:ASP134 4.1 29.9 1.0
CB A:ASP136 4.2 21.1 1.0
CA A:ASP135 4.5 26.6 1.0
C A:ASP135 4.6 24.8 1.0
O A:HOH252 4.7 46.0 1.0
CA A:ASP136 4.8 21.0 1.0
N A:ASP135 4.8 28.3 1.0
OD1 A:ASP136 4.8 26.3 1.0
BA A:BA155 4.9 53.6 0.1

Barium binding site 3 out of 5 in 3lr4

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Barium binding site 3 out of 5 in the Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 3 of Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ba154

b:38.1
occ:0.20
 BA A:BA153 2.0 39.5 0.2
OD2 A:ASP136 2.5 29.3 1.0
O A:HOH188 2.8 48.3 1.0
O A:ASP134 2.9 30.1 1.0
BA A:BA155 3.0 53.6 0.1
O A:HOH196 3.0 38.0 1.0
CG A:ASP136 3.7 24.8 1.0
BA A:BA156 3.8 42.0 0.2
C A:ASP134 4.0 29.9 1.0
O A:HOH182 4.0 29.1 1.0
O A:HOH277 4.1 55.9 1.0
O A:HOH250 4.1 45.4 1.0
NZ A:LYS131 4.2 36.9 1.0
OD1 A:ASP136 4.3 26.3 1.0
O A:HOH228 4.5 33.1 1.0
CA A:ASP134 4.6 30.5 0.5
CA A:ASP134 4.7 30.4 0.5
O A:HOH172 4.7 39.5 1.0
CB A:ASP136 4.8 21.1 1.0
N A:ASP136 4.8 22.6 1.0
CE A:LYS131 4.9 34.4 1.0
N A:ASP135 4.9 28.3 1.0
CB A:ASP134 4.9 32.1 0.5

Barium binding site 4 out of 5 in 3lr4

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Barium binding site 4 out of 5 in the Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 4 of Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ba155

b:53.6
occ:0.15
 O A:HOH188 2.6 48.3 1.0
BA A:BA154 3.0 38.1 0.2
O A:HOH251 3.2 43.2 1.0
NZ A:LYS131 3.2 36.9 1.0
BA A:BA156 3.3 42.0 0.2
CE A:LYS131 3.5 34.4 1.0
O A:HOH250 3.8 45.4 1.0
OD1 A:ASP134 3.8 35.9 0.5
O A:ASP134 4.2 30.1 1.0
CA A:ASP134 4.3 30.5 0.5
CG A:ASP134 4.3 34.3 0.5
CA A:ASP134 4.4 30.4 0.5
OD2 A:ASP136 4.4 29.3 1.0
C A:ASP134 4.6 29.9 1.0
O A:ASP133 4.6 27.9 1.0
CB A:ASP134 4.7 32.1 0.5
BA A:BA153 4.9 39.5 0.2

Barium binding site 5 out of 5 in 3lr4

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Barium binding site 5 out of 5 in the Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 5 of Periplasmic Domain of the Riss Sensor Protein From Burkholderia Pseudomallei, Barium Phased at Low pH within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ba156

b:42.0
occ:0.20
 O A:HOH251 2.5 43.2 1.0
O A:HOH250 2.7 45.4 1.0
BA A:BA155 3.3 53.6 0.1
BA A:BA154 3.8 38.1 0.2
O A:HOH188 4.7 48.3 1.0
OD2 A:ASP136 4.8 29.3 1.0

Reference:

T.E.Edwards, J.Abendroth, B.L.Staker, I.Phan, P.Myler, R.Stacy, L.Stewart, S.I.Miller, Seattle Structural Genomics Center For Infectious Disease(Ssgcid). Structural Basis For pH Sensing By the Periplasmic Domain of the Riss Histidine Kinase From Burkholderia Pseudomallei To Be Published.
Page generated: Wed Jul 10 15:14:29 2024

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