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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

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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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