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Potassium in PDB 3pw3: Crystal Structure of A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A Resolution

Protein crystallography data

The structure of Crystal Structure of A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A Resolution, PDB code: 3pw3 was solved by Joint Center For Structural Genomics (Jcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.97 / 2.23
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 104.592, 137.810, 223.165, 90.00, 90.00, 90.00
R / Rfree (%) 15.9 / 18.1

Other elements in 3pw3:

The structure of Crystal Structure of A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A Resolution also contains other interesting chemical elements:

Chlorine (Cl) 14 atoms
Zinc (Zn) 6 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A Resolution (pdb code 3pw3). 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 A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A Resolution, PDB code: 3pw3:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Potassium binding site 1 out of 10 in 3pw3

Go back to Potassium Binding Sites List in 3pw3
Potassium binding site 1 out of 10 in the Crystal Structure of A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A 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 A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K407

b:40.0
occ:1.00
 O A:GLU335 2.3 26.6 1.0
O A:HOH596 2.4 27.2 1.0
O A:HOH637 2.5 29.4 1.0
OG A:SER273 2.6 30.4 1.0
O A:SER273 2.7 35.4 1.0
OE2 A:GLU274 2.7 34.9 1.0
OD2 A:ASP271 2.8 35.7 1.0
OD1 A:ASP271 2.8 42.6 1.0
CG A:ASP271 3.0 30.7 1.0
C A:GLU335 3.5 24.3 1.0
C A:SER273 3.6 33.1 1.0
CD A:GLU274 3.7 46.3 1.0
CB A:SER273 3.8 31.4 1.0
NZ A:LYS383 3.8 34.6 1.0
O A:HOH1826 4.0 51.5 1.0
CA A:SER273 4.1 32.5 1.0
CG A:GLU274 4.2 38.9 1.0
CA A:GLU335 4.3 23.9 1.0
N A:SER273 4.4 29.8 1.0
N A:THR336 4.4 22.9 1.0
CA A:THR336 4.4 24.2 1.0
O A:HOH1858 4.4 52.4 1.0
CB A:ASP271 4.4 27.5 1.0
OG1 A:THR337 4.4 20.7 0.5
OD1 A:ASP339 4.5 21.1 0.5
N A:GLU274 4.7 33.9 1.0
OE1 A:GLU274 4.7 43.3 1.0
N A:THR337 4.8 30.1 0.5
N A:THR337 4.8 24.7 0.5
O F:HOH1175 4.8 40.2 1.0
CE A:LYS383 4.8 33.8 1.0
CD A:LYS383 4.9 28.5 1.0
O A:TYR334 4.9 21.5 1.0

Potassium binding site 2 out of 10 in 3pw3

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Potassium binding site 2 out of 10 in the Crystal Structure of A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A 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 A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K408

b:31.1
occ:1.00
 O A:HOH623 2.3 28.1 1.0
O A:LEU79 2.3 24.4 1.0
O A:HOH870 2.4 33.4 1.0
OE1 A:GLU81 2.5 23.8 1.0
OD1 A:ASP78 2.5 28.9 1.0
OE1 A:GLU126 2.5 27.3 1.0
OE2 A:GLU81 2.9 25.7 1.0
CD A:GLU81 3.0 21.7 1.0
CD A:GLU126 3.4 31.8 1.0
C A:LEU79 3.5 23.4 1.0
CG A:ASP78 3.7 28.1 1.0
O A:HOH1050 3.8 36.8 1.0
N A:LEU79 3.9 24.1 1.0
OE2 A:GLU126 4.2 32.8 1.0
CG A:GLU126 4.2 27.8 1.0
O A:HOH934 4.2 36.3 1.0
C A:ASP78 4.3 23.4 1.0
OD2 A:ASP78 4.3 32.8 1.0
CB A:GLU126 4.3 27.8 1.0
N A:GLU81 4.3 19.9 1.0
CA A:LEU79 4.3 22.9 1.0
OE2 A:GLU66 4.4 28.8 1.0
N A:SER80 4.4 23.2 1.0
CA A:SER80 4.5 22.8 1.0
CE A:LYS48 4.5 26.4 1.0
CG A:GLU81 4.5 20.2 1.0
CA A:ASP78 4.7 24.3 1.0
O A:ASP78 4.8 25.3 1.0
O A:HOH642 4.8 28.6 1.0
CB A:ASP78 4.8 23.7 1.0
C A:SER80 4.9 21.7 1.0
O A:HOH617 4.9 29.3 1.0
CA A:GLU126 5.0 26.4 1.0

Potassium binding site 3 out of 10 in 3pw3

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Potassium binding site 3 out of 10 in the Crystal Structure of A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A 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 A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K410

b:29.7
occ:1.00
 O B:LEU79 2.3 20.9 1.0
O B:HOH578 2.3 26.7 1.0
OD1 B:ASP78 2.4 26.6 1.0
OE1 B:GLU81 2.5 27.2 1.0
OE1 B:GLU126 2.5 26.0 1.0
O B:HOH689 2.5 30.1 1.0
OE2 B:GLU81 2.9 30.7 1.0
CD B:GLU81 3.1 26.3 1.0
CD B:GLU126 3.4 27.4 1.0
C B:LEU79 3.5 22.9 1.0
CG B:ASP78 3.6 27.5 1.0
N B:LEU79 3.9 21.5 1.0
O B:HOH904 3.9 34.5 1.0
OE2 B:GLU126 4.2 28.3 1.0
CG B:GLU126 4.2 25.8 1.0
OD2 B:ASP78 4.2 32.8 1.0
CB B:GLU126 4.2 25.1 1.0
C B:ASP78 4.2 22.6 1.0
O B:HOH1141 4.3 40.1 1.0
N B:GLU81 4.3 20.7 1.0
CA B:LEU79 4.3 22.2 1.0
OE2 B:GLU66 4.4 31.6 1.0
N B:SER80 4.4 23.4 1.0
CE B:LYS48 4.5 27.4 1.0
CA B:SER80 4.5 22.0 1.0
CG B:GLU81 4.5 24.7 1.0
CA B:ASP78 4.7 24.1 1.0
O B:ASP78 4.8 22.2 1.0
CB B:ASP78 4.8 25.1 1.0
O B:HOH674 4.8 30.3 1.0
C B:SER80 4.9 22.3 1.0
O B:HOH775 5.0 32.5 1.0
CA B:GLU126 5.0 24.9 1.0
CG B:LYS48 5.0 24.9 1.0
CD B:LYS48 5.0 25.7 1.0

Potassium binding site 4 out of 10 in 3pw3

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Potassium binding site 4 out of 10 in the Crystal Structure of A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A 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 A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K412

b:84.0
occ:1.00
 O C:GLU335 2.3 43.3 1.0
O C:HOH1589 2.4 49.8 1.0
OG C:SER273 2.7 72.3 1.0
O C:SER273 2.7 82.9 1.0
O C:HOH1840 2.9 48.3 1.0
OE2 C:GLU274 2.9 96.5 1.0
OD2 C:ASP271 3.0 55.0 1.0
OD1 C:ASP271 3.2 50.9 1.0
CG C:ASP271 3.5 49.7 1.0
C C:GLU335 3.5 39.6 1.0
C C:SER273 3.8 77.7 1.0
CB C:SER273 3.9 70.8 1.0
CD C:GLU274 3.9 0.5 1.0
NZ C:LYS383 4.3 47.1 1.0
CA C:GLU335 4.3 38.8 1.0
CA C:SER273 4.3 69.9 1.0
N C:THR336 4.4 40.3 1.0
CG C:GLU274 4.5 0.2 1.0
CA C:THR336 4.5 40.2 1.0
N C:SER273 4.7 68.7 1.0
OE1 C:GLU274 4.8 0.6 1.0
N C:GLU274 4.8 80.8 1.0
O C:HOH2048 4.8 57.1 1.0
CB C:ASP271 4.8 44.8 1.0
O C:TYR334 4.9 35.6 1.0
N C:THR337 4.9 45.4 1.0
OG1 C:THR337 5.0 58.9 1.0
CB C:GLU335 5.0 40.8 1.0

Potassium binding site 5 out of 10 in 3pw3

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Potassium binding site 5 out of 10 in the Crystal Structure of A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A 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 A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K414

b:52.6
occ:1.00
 O C:HOH1169 2.3 46.5 1.0
O C:LEU79 2.4 44.6 1.0
OD1 C:ASP78 2.4 50.9 1.0
OE1 C:GLU126 2.4 49.0 1.0
O C:HOH1724 2.5 48.8 1.0
OE1 C:GLU81 2.5 42.0 1.0
OE2 C:GLU81 3.0 41.3 1.0
CD C:GLU81 3.1 42.2 1.0
CD C:GLU126 3.4 49.6 1.0
C C:LEU79 3.5 43.3 1.0
CG C:ASP78 3.6 55.3 1.0
N C:LEU79 3.9 46.5 1.0
OE2 C:GLU126 4.1 52.1 1.0
CG C:GLU126 4.1 48.8 1.0
CB C:GLU126 4.2 47.1 1.0
OD2 C:ASP78 4.2 58.5 1.0
C C:ASP78 4.3 48.8 1.0
N C:GLU81 4.4 39.2 1.0
CA C:LEU79 4.4 45.6 1.0
OE2 C:GLU66 4.4 58.5 1.0
N C:SER80 4.4 40.8 1.0
CE C:LYS48 4.4 57.6 1.0
CA C:SER80 4.5 40.9 1.0
CG C:GLU81 4.6 41.0 1.0
CA C:ASP78 4.7 52.2 1.0
O C:HOH1476 4.7 44.3 1.0
O C:ASP78 4.7 47.7 1.0
CB C:ASP78 4.7 53.6 1.0
CA C:GLU126 4.9 46.4 1.0
C C:SER80 4.9 37.9 1.0
CD C:LYS48 5.0 55.1 1.0
CG C:LYS48 5.0 53.0 1.0
O C:HOH1780 5.0 51.9 1.0

Potassium binding site 6 out of 10 in 3pw3

Go back to Potassium Binding Sites List in 3pw3
Potassium binding site 6 out of 10 in the Crystal Structure of A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A 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 A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K409

b:42.5
occ:1.00
 O D:LEU79 2.4 37.2 1.0
O D:HOH888 2.4 33.8 1.0
OD1 D:ASP78 2.5 39.7 1.0
O D:HOH1447 2.5 44.5 1.0
OE1 D:GLU81 2.5 35.6 1.0
OE1 D:GLU126 2.6 38.6 1.0
OE2 D:GLU81 2.8 34.0 1.0
CD D:GLU81 3.0 34.6 1.0
C D:LEU79 3.5 37.2 1.0
CD D:GLU126 3.6 42.4 1.0
CG D:ASP78 3.7 42.4 1.0
N D:LEU79 3.9 39.0 1.0
OE2 D:GLU66 4.2 47.1 1.0
C D:ASP78 4.3 39.5 1.0
OD2 D:ASP78 4.3 48.6 1.0
CA D:LEU79 4.3 37.6 1.0
OE2 D:GLU126 4.3 42.3 1.0
CE D:LYS48 4.4 47.8 1.0
CG D:GLU126 4.4 40.8 1.0
CB D:GLU126 4.4 40.6 1.0
N D:GLU81 4.4 31.9 1.0
O D:HOH1199 4.5 39.7 1.0
N D:SER80 4.5 37.2 1.0
CG D:GLU81 4.5 33.0 1.0
CA D:SER80 4.6 33.4 1.0
CA D:ASP78 4.7 42.5 1.0
CB D:ASP78 4.8 42.0 1.0
O D:HOH982 4.8 36.4 1.0
O D:ASP78 4.8 39.0 1.0
CG D:LYS48 4.8 44.4 1.0
CD D:LYS48 4.9 45.4 1.0
C D:SER80 5.0 33.4 1.0

Potassium binding site 7 out of 10 in 3pw3

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Potassium binding site 7 out of 10 in the Crystal Structure of A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A 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 A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K411

b:70.2
occ:1.00
 O D:GLU335 2.3 39.9 1.0
O D:HOH1382 2.4 42.9 1.0
OG D:SER273 2.7 50.2 1.0
O D:SER273 2.7 57.0 1.0
OE2 D:GLU274 2.8 71.9 1.0
OD2 D:ASP271 2.9 48.2 1.0
OD1 D:ASP271 3.0 52.9 1.0
CG D:ASP271 3.2 45.2 1.0
C D:GLU335 3.5 35.2 1.0
C D:SER273 3.7 59.9 1.0
CD D:GLU274 3.8 87.1 1.0
CB D:SER273 3.8 57.3 1.0
NZ D:LYS383 4.0 43.9 1.0
CA D:SER273 4.2 54.5 1.0
CA D:GLU335 4.3 34.9 1.0
CG D:GLU274 4.3 78.3 1.0
N D:THR336 4.4 35.1 1.0
CA D:THR336 4.4 35.9 1.0
O D:HOH1851 4.5 53.4 1.0
N D:SER273 4.5 51.0 1.0
CB D:ASP271 4.6 42.3 1.0
OE1 D:GLU274 4.7 84.8 1.0
N D:GLU274 4.7 62.4 1.0
N D:THR337 4.8 41.6 1.0
O D:HOH1240 4.9 42.8 1.0
O D:TYR334 4.9 31.3 1.0
O E:HOH1810 5.0 50.9 1.0

Potassium binding site 8 out of 10 in 3pw3

Go back to Potassium Binding Sites List in 3pw3
Potassium binding site 8 out of 10 in the Crystal Structure of A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A 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 A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
E:K415

b:39.0
occ:1.00
 O E:HOH541 2.3 24.9 1.0
O E:LEU79 2.4 27.7 1.0
OD1 E:ASP78 2.4 38.0 1.0
O E:HOH1034 2.4 39.3 1.0
OE1 E:GLU126 2.5 42.3 1.0
OE1 E:GLU81 2.5 29.9 1.0
OE2 E:GLU81 3.0 37.8 1.0
CD E:GLU81 3.1 32.6 1.0
CD E:GLU126 3.4 37.8 1.0
C E:LEU79 3.5 27.7 1.0
CG E:ASP78 3.6 39.9 1.0
N E:LEU79 3.9 28.6 1.0
O E:HOH1358 3.9 41.9 1.0
OE2 E:GLU126 4.2 36.3 1.0
CG E:GLU126 4.2 35.0 1.0
OD2 E:ASP78 4.2 42.9 1.0
C E:ASP78 4.2 30.3 1.0
O E:HOH1559 4.2 48.9 1.0
CB E:GLU126 4.2 32.3 1.0
OE2 E:GLU66 4.4 37.3 1.0
N E:GLU81 4.4 25.4 1.0
CA E:LEU79 4.4 28.1 1.0
CE E:LYS48 4.4 37.3 1.0
N E:SER80 4.4 28.5 1.0
CA E:SER80 4.5 28.3 1.0
CG E:GLU81 4.6 31.0 1.0
CA E:ASP78 4.7 32.7 1.0
CB E:ASP78 4.7 35.3 1.0
O E:ASP78 4.8 28.5 1.0
CG E:LYS48 4.9 33.8 1.0
CD E:LYS48 4.9 34.4 1.0
O E:HOH819 4.9 32.6 1.0
C E:SER80 4.9 26.5 1.0
O E:HOH804 5.0 33.0 1.0
CA E:GLU126 5.0 32.9 1.0

Potassium binding site 9 out of 10 in 3pw3

Go back to Potassium Binding Sites List in 3pw3
Potassium binding site 9 out of 10 in the Crystal Structure of A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A 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 A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
F:K413

b:90.9
occ:1.00
 O F:GLU335 2.5 32.8 1.0
O F:HOH1591 2.7 48.8 1.0
O F:SER273 2.7 75.2 1.0
OG F:SER273 2.9 57.7 1.0
OE2 F:GLU274 3.1 97.0 1.0
C F:GLU335 3.6 31.0 1.0
OD2 F:ASP271 3.6 45.9 1.0
OD1 F:ASP271 3.8 50.6 1.0
C F:SER273 3.9 67.7 1.0
CD F:GLU274 4.0 96.5 1.0
CB F:SER273 4.0 56.3 1.0
CG F:ASP271 4.1 39.0 1.0
CA F:GLU335 4.2 31.0 1.0
NZ F:LYS383 4.4 46.0 1.0
CA F:SER273 4.5 61.5 1.0
O A:HOH1444 4.6 43.6 1.0
N F:THR336 4.7 29.1 1.0
CG F:GLU274 4.7 87.0 1.0
OE1 F:GLU274 4.7 89.8 1.0
O F:TYR334 4.8 29.0 1.0
CB F:GLU335 4.8 33.8 1.0
N F:GLU274 4.9 69.9 1.0
CA F:THR336 4.9 31.7 1.0

Potassium binding site 10 out of 10 in 3pw3

Go back to Potassium Binding Sites List in 3pw3
Potassium binding site 10 out of 10 in the Crystal Structure of A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A 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 A Cysteine Protease (BDI_2249) From Parabacteroides Distasonis Atcc 8503 at 2.23 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
F:K416

b:40.3
occ:1.00
 O F:HOH916 2.3 34.9 1.0
OD1 F:ASP78 2.4 46.1 1.0
O F:LEU79 2.4 35.4 1.0
OE1 F:GLU126 2.5 42.2 1.0
O F:HOH984 2.5 38.2 1.0
OE1 F:GLU81 2.6 35.0 1.0
OE2 F:GLU81 3.0 38.3 1.0
CD F:GLU81 3.2 34.7 1.0
CD F:GLU126 3.4 42.2 1.0
C F:LEU79 3.5 31.5 1.0
CG F:ASP78 3.6 43.6 1.0
N F:LEU79 3.9 31.2 1.0
O F:HOH1194 4.0 37.0 1.0
OD2 F:ASP78 4.1 50.4 1.0
OE2 F:GLU126 4.1 41.3 1.0
CG F:GLU126 4.2 39.0 1.0
CB F:GLU126 4.2 36.8 1.0
C F:ASP78 4.2 34.7 1.0
O F:HOH1750 4.3 48.0 1.0
CA F:LEU79 4.4 30.8 1.0
OE2 F:GLU66 4.4 42.1 1.0
N F:GLU81 4.4 29.0 1.0
CE F:LYS48 4.4 43.9 1.0
N F:SER80 4.4 31.0 1.0
CA F:SER80 4.5 30.5 1.0
CG F:GLU81 4.7 32.8 1.0
CA F:ASP78 4.7 38.4 1.0
CB F:ASP78 4.7 40.4 1.0
O F:ASP78 4.7 32.6 1.0
O F:HOH1040 4.7 37.5 1.0
O F:HOH1123 4.9 38.7 1.0
CA F:GLU126 4.9 37.0 1.0
CD F:LYS48 5.0 42.0 1.0
C F:SER80 5.0 28.2 1.0
CG F:LYS48 5.0 40.0 1.0

Reference:

Joint Center For Structural Genomics (Jcsg), Joint Center For Structural Genomics (Jcsg). N/A N/A.
Page generated: Mon Aug 12 09:04:08 2024

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