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Potassium in PDB 7pb6: Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium

Protein crystallography data

The structure of Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium, PDB code: 7pb6 was solved by K.Bjerregaard-Andersen, U.Krengel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.09 / 1.50
Space group P 43
Cell size a, b, c (Å), α, β, γ (°) 46.58, 46.58, 157.43, 90, 90, 90
R / Rfree (%) 16.4 / 19.2

Other elements in 7pb6:

The structure of Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium also contains other interesting chemical elements:

Copper (Cu) 2 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium (pdb code 7pb6). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 7 binding sites of Potassium where determined in the Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium, PDB code: 7pb6:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7;

Potassium binding site 1 out of 7 in 7pb6

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Potassium binding site 1 out of 7 in the Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K302

b:8.9
occ:1.00
 O A:VAL186 2.6 11.7 1.0
O A:THR189 2.7 11.4 1.0
OD1 A:ASP185 2.8 12.5 1.0
O A:HOH547 2.8 13.4 1.0
O A:ALA191 2.8 7.7 1.0
OD2 A:ASP70 2.8 10.0 1.0
N A:ALA191 3.5 8.4 1.0
CB A:ASP70 3.5 9.9 1.0
CG A:ASP70 3.6 10.2 1.0
C A:THR189 3.7 10.0 1.0
C A:VAL186 3.7 11.3 1.0
CG A:ASP185 3.7 12.0 1.0
C A:ALA191 3.7 8.4 1.0
N A:VAL186 3.9 10.4 1.0
C A:ALA190 3.9 8.3 1.0
CA A:ALA190 4.1 8.7 1.0
OD2 A:ASP185 4.1 12.3 1.0
CA A:ALA191 4.2 8.4 1.0
OG1 A:THR189 4.3 12.1 1.0
CA A:VAL186 4.3 9.9 1.0
N A:ALA190 4.3 9.3 1.0
OG A:SER192 4.5 8.6 1.0
O A:HOH410 4.6 22.9 1.0
C A:ASP185 4.6 8.6 1.0
O A:HOH614 4.6 23.4 1.0
CB A:VAL186 4.6 10.8 1.0
N A:THR189 4.7 11.4 1.0
O A:ALA190 4.7 8.0 1.0
CA A:THR189 4.7 10.7 1.0
O A:HOH594 4.8 20.1 1.0
OD1 A:ASP70 4.8 10.4 1.0
N A:SER192 4.8 6.6 1.0
N A:GLY187 4.8 11.4 1.0
CB A:ASP185 4.9 8.3 1.0
CA A:ASP185 4.9 8.7 1.0

Potassium binding site 2 out of 7 in 7pb6

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Potassium binding site 2 out of 7 in the Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K303

b:11.4
occ:1.00
 O A:HOH431 3.1 32.0 1.0
C A:GLY57 3.6 9.1 1.0
N A:ALA58 3.6 8.3 1.0
NE2 A:GLN60 3.7 17.0 1.0
CA A:ALA58 3.7 8.7 1.0
O A:GLY57 3.8 9.2 1.0
CB B:ALA190 4.0 8.8 1.0
CE2 A:TYR61 4.0 11.0 1.0
CA A:GLY57 4.0 9.9 1.0
CB A:ALA58 4.4 9.0 1.0
K A:K305 4.7 19.9 1.0
CD2 A:TYR61 4.8 9.8 1.0
CD A:GLN60 4.8 14.9 1.0
OH A:TYR61 4.8 15.6 1.0
CZ A:TYR61 4.9 12.9 1.0
C A:ALA58 4.9 9.0 1.0
N A:GLY57 5.0 9.6 1.0
O A:HOH554 5.0 20.3 1.0

Potassium binding site 3 out of 7 in 7pb6

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Potassium binding site 3 out of 7 in the Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K304

b:14.2
occ:1.00
 O B:GLU86 2.6 9.0 1.0
O A:GLU86 2.7 9.1 0.5
O A:GLU86 2.7 9.2 0.5
O A:HOH602 2.9 29.5 1.0
O A:HOH624 3.0 35.2 1.0
O A:HOH463 3.2 27.4 1.0
O B:HOH649 3.3 28.6 1.0
C B:GLU86 3.7 8.5 1.0
C A:GLU86 3.7 8.6 0.5
C A:GLU86 3.8 8.7 0.5
C B:SER87 4.3 11.4 1.0
C A:SER87 4.3 11.5 1.0
O B:SER87 4.3 13.3 1.0
O B:HOH590 4.3 24.3 1.0
N A:ALA88 4.3 10.4 1.0
N B:ALA88 4.3 9.4 1.0
O A:SER87 4.4 12.8 1.0
CB A:GLU86 4.4 10.2 0.5
CA A:GLU86 4.4 8.6 0.5
CB A:GLU86 4.4 10.2 0.5
CA B:GLU86 4.4 9.6 1.0
CA A:GLU86 4.5 8.4 0.5
CB B:GLU86 4.5 12.2 1.0
CA A:ALA88 4.5 10.3 1.0
CA B:ALA88 4.5 10.3 1.0
O B:HOH498 4.6 10.8 1.0
O A:HOH481 4.6 10.9 1.0
N B:SER87 4.7 8.7 1.0
N A:SER87 4.7 8.9 1.0
OE1 A:GLU86 4.8 11.6 0.5
CA B:SER87 4.9 10.1 1.0
CA A:SER87 4.9 10.8 1.0
O A:HOH658 5.0 31.1 1.0

Potassium binding site 4 out of 7 in 7pb6

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Potassium binding site 4 out of 7 in the Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K305

b:19.9
occ:1.00
 O A:HOH627 2.7 31.8 1.0
O A:HOH640 3.1 31.5 1.0
N A:GLY57 3.4 9.6 1.0
CA A:HIS55 3.6 12.6 1.0
NE2 A:GLN60 3.6 17.0 1.0
O A:HOH482 3.8 14.4 1.0
N A:CYS56 3.8 9.9 1.0
C A:HIS55 3.9 10.5 1.0
CA A:GLY57 3.9 9.9 1.0
N A:HIS55 4.3 11.6 1.0
CD2 A:HIS55 4.3 25.9 1.0
O A:HOH543 4.4 28.6 1.0
C A:CYS56 4.5 10.5 1.0
CB A:HIS55 4.5 14.5 1.0
O A:HIS55 4.6 12.0 1.0
CD A:GLN60 4.7 14.9 1.0
C A:GLY57 4.7 9.1 1.0
O A:GLY57 4.7 9.2 1.0
K A:K303 4.7 11.4 1.0
CA A:CYS56 4.8 8.6 1.0
CG A:HIS55 4.8 22.1 1.0

Potassium binding site 5 out of 7 in 7pb6

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Potassium binding site 5 out of 7 in the Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K306

b:18.4
occ:1.00
 O A:ASP70 2.7 9.8 1.0
OD1 A:ASP70 2.8 10.4 1.0
OG1 A:THR75 3.0 12.0 1.0
O A:HOH527 3.1 13.7 1.0
O A:HOH620 3.1 17.7 1.0
O A:HOH580 3.2 21.6 1.0
C A:ASP70 3.4 8.4 1.0
O A:HOH546 3.7 40.7 1.0
CB A:THR75 3.9 10.8 1.0
N A:ASP70 4.0 8.2 1.0
O A:HOH668 4.0 31.5 1.0
CG A:ASP70 4.0 10.2 1.0
CA A:ASP70 4.2 8.5 1.0
N A:GLY71 4.2 9.6 1.0
N A:GLY76 4.3 11.4 1.0
CA A:GLY71 4.4 10.8 1.0
CB A:PRO69 4.5 9.8 1.0
O A:HOH440 4.5 16.6 1.0
C A:PRO69 4.5 8.8 1.0
CG2 A:THR75 4.7 14.5 1.0
CB A:ASP70 4.7 9.9 1.0
O A:ALA190 4.8 8.0 1.0
CA A:PRO69 4.9 8.6 1.0
OD2 A:ASP70 4.9 10.0 1.0

Potassium binding site 6 out of 7 in 7pb6

Go back to Potassium Binding Sites List in 7pb6
Potassium binding site 6 out of 7 in the Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K302

b:8.8
occ:1.00
 O B:VAL186 2.6 12.1 1.0
OD1 B:ASP185 2.7 12.1 1.0
O B:THR189 2.8 11.2 1.0
O B:HOH531 2.8 15.7 1.0
O B:ALA191 2.8 8.2 1.0
OD2 B:ASP70 2.8 9.8 1.0
N B:ALA191 3.5 7.7 1.0
CB B:ASP70 3.5 10.1 1.0
CG B:ASP70 3.6 9.2 1.0
C B:VAL186 3.7 11.4 1.0
C B:ALA191 3.7 8.5 1.0
CG B:ASP185 3.7 11.0 1.0
C B:THR189 3.7 9.6 1.0
N B:VAL186 3.9 9.7 1.0
C B:ALA190 3.9 9.3 1.0
CA B:ALA190 4.1 8.6 1.0
OD2 B:ASP185 4.1 12.8 1.0
CA B:ALA191 4.2 8.3 1.0
CA B:VAL186 4.3 10.7 1.0
OG1 B:THR189 4.3 10.2 1.0
N B:ALA190 4.3 8.9 1.0
OG B:SER192 4.5 9.1 1.0
C B:ASP185 4.6 9.0 1.0
CB B:VAL186 4.6 13.4 1.0
N B:THR189 4.7 11.7 1.0
O B:ALA190 4.7 8.6 1.0
O B:HOH409 4.7 21.9 1.0
CA B:THR189 4.8 10.9 1.0
N B:SER192 4.8 7.5 1.0
O B:HOH621 4.8 23.1 1.0
N B:GLY187 4.8 10.6 1.0
OD1 B:ASP70 4.8 9.8 1.0
O B:HOH579 4.8 22.9 1.0
CB B:ASP185 4.9 8.2 1.0
CA B:ASP185 4.9 8.4 1.0
CA B:ASP70 5.0 8.5 1.0

Potassium binding site 7 out of 7 in 7pb6

Go back to Potassium Binding Sites List in 7pb6
Potassium binding site 7 out of 7 in the Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K303

b:11.1
occ:1.00
 O A:HOH668 3.0 31.5 1.0
O B:HOH403 3.2 25.3 1.0
C B:GLY57 3.6 9.6 1.0
N B:ALA58 3.6 8.2 1.0
NE2 B:GLN60 3.7 16.1 1.0
CA B:ALA58 3.8 9.1 1.0
O B:GLY57 3.8 8.2 1.0
CB A:ALA190 4.0 9.1 1.0
CE2 B:TYR61 4.0 11.5 1.0
CA B:GLY57 4.1 11.1 1.0
CB B:ALA58 4.5 9.1 1.0
CD2 B:TYR61 4.8 10.4 1.0
CD B:GLN60 4.8 13.8 1.0
OH B:TYR61 4.8 15.4 1.0
S B:SCN305 4.8 20.5 1.0
O A:HOH546 4.8 40.7 1.0
CZ B:TYR61 4.8 13.1 1.0
C B:ALA58 5.0 8.7 1.0
N B:GLY57 5.0 10.1 1.0

Reference:

K.Bjerregaard-Andersen, U.Krengel. Structure of Lpmo Domain of Colonization Factor Gbpa From Vibrio Cholerae in the Presence of Potassium To Be Published.
Page generated: Mon Aug 12 19:52:20 2024

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