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Potassium in PDB 5k09: Crystal Structure of Comt in Complex with A Thiazole Ligand

Enzymatic activity of Crystal Structure of Comt in Complex with A Thiazole Ligand

All present enzymatic activity of Crystal Structure of Comt in Complex with A Thiazole Ligand:
2.1.1.6;

Protein crystallography data

The structure of Crystal Structure of Comt in Complex with A Thiazole Ligand, PDB code: 5k09 was solved by A.Ehler, R.M.Rodriguez-Sarmiento, M.G.Rudolph, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.84 / 2.70
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 84.035, 138.418, 158.501, 91.48, 97.19, 90.16
R / Rfree (%) 16.5 / 23.6

Potassium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40; Page 5, Binding sites: 41 - 50; Page 6, Binding sites: 51 - 58;

Binding sites:

The binding sites of Potassium atom in the Crystal Structure of Comt in Complex with A Thiazole Ligand (pdb code 5k09). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 58 binding sites of Potassium where determined in the Crystal Structure of Comt in Complex with A Thiazole Ligand, PDB code: 5k09:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Potassium binding site 1 out of 58 in 5k09

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Potassium binding site 1 out of 58 in the Crystal Structure of Comt in Complex with A Thiazole Ligand


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Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of Comt in Complex with A Thiazole Ligand within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K302

b:37.2
occ:1.00
OD2 A:ASP169 2.5 36.3 1.0
O A:ASN41 2.5 33.7 1.0
OE2 D:GLU199 2.5 36.6 1.0
OD2 A:ASP141 2.5 34.2 1.0
OD1 A:ASP141 2.6 41.6 1.0
OD1 A:ASN170 2.7 45.5 1.0
O D:HOH416 2.8 45.9 1.0
CG A:ASP141 2.9 41.3 1.0
CD D:GLU199 3.4 52.8 1.0
CG A:ASP169 3.5 47.0 1.0
C A:ASN41 3.5 45.0 1.0
CG A:ASN170 3.6 33.3 1.0
ND2 A:ASN170 3.8 38.2 1.0
CG D:GLU199 3.9 43.5 1.0
CB A:ASN41 4.0 27.5 1.0
CA A:ASN41 4.0 41.3 1.0
CD D:LYS202 4.1 29.4 1.0
CB A:ASP169 4.2 36.8 1.0
OD1 A:ASP169 4.3 52.8 1.0
OE1 D:GLU199 4.4 65.6 1.0
CB A:ASP141 4.4 35.5 1.0
N A:VAL42 4.6 54.0 1.0
NZ D:LYS202 4.7 38.7 1.0
CG1 A:VAL42 4.7 42.0 1.0
O D:TYR200 4.9 32.2 1.0
NZ A:LYS46 4.9 57.8 1.0
CE D:LYS202 5.0 36.1 1.0
CG A:ASN41 5.0 37.1 1.0
CB A:ASN170 5.0 23.8 1.0

Potassium binding site 2 out of 58 in 5k09

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Potassium binding site 2 out of 58 in the Crystal Structure of Comt in Complex with A Thiazole Ligand


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Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of Comt in Complex with A Thiazole Ligand within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K303

b:64.6
occ:1.00
O A:SER186 2.8 56.4 1.0
O A:HOH421 2.8 43.3 1.0
O A:PHE189 2.9 38.5 1.0
O A:ARG184 3.0 52.6 1.0
O A:VAL183 3.1 50.1 1.0
C A:ARG184 3.5 41.9 1.0
C A:PHE189 3.9 38.6 1.0
C A:SER186 4.0 60.7 1.0
CA A:ARG184 4.0 41.1 1.0
C A:VAL183 4.2 45.2 1.0
N A:GLY185 4.4 32.8 1.0
N A:SER186 4.4 49.1 1.0
C A:GLY185 4.5 46.3 1.0
N A:ARG184 4.6 42.7 1.0
CA A:GLU190 4.7 53.0 1.0
N A:GLU190 4.7 44.2 1.0
CA A:PHE189 4.7 40.0 1.0
CA A:GLY185 4.7 34.2 1.0
SG A:CYS191 4.7 68.5 1.0
CA A:SER186 4.8 60.9 1.0
N A:PHE189 4.8 44.4 1.0
N A:CYS191 4.8 50.6 1.0
O A:GLY185 4.8 54.7 1.0
CB A:PHE189 4.8 37.7 1.0
N A:SER187 4.9 55.0 1.0

Potassium binding site 3 out of 58 in 5k09

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Potassium binding site 3 out of 58 in the Crystal Structure of Comt in Complex with A Thiazole Ligand


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 Comt in Complex with A Thiazole Ligand within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K304

b:96.4
occ:1.00
OG A:SER60 2.8 69.7 1.0
O A:SER58 3.1 58.1 1.0
CB A:SER60 4.1 62.3 1.0
N A:SER60 4.2 52.0 1.0
C A:SER58 4.3 55.1 1.0
CA A:SER60 4.6 54.1 1.0
C A:PRO59 4.6 45.2 1.0
OE1 A:GLN81 4.8 91.1 1.0
CA A:PRO59 4.8 41.8 1.0

Potassium binding site 4 out of 58 in 5k09

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Potassium binding site 4 out of 58 in the Crystal Structure of Comt in Complex with A Thiazole Ligand


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 Comt in Complex with A Thiazole Ligand within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K302

b:25.0
occ:1.00
OD2 B:ASP169 2.4 49.6 1.0
O B:ASN41 2.4 52.5 1.0
OD1 B:ASP141 2.5 47.8 1.0
OD2 B:ASP141 2.5 34.6 1.0
OE2 Q:GLU199 2.5 38.1 1.0
O Q:HOH422 2.6 66.2 1.0
OD1 B:ASN170 2.6 39.5 1.0
CG B:ASP141 2.8 41.7 1.0
C B:ASN41 3.4 43.8 1.0
CD Q:GLU199 3.5 48.7 1.0
CG B:ASP169 3.6 51.4 1.0
CG B:ASN170 3.7 34.9 1.0
CB B:ASN41 3.8 28.1 1.0
CA B:ASN41 3.9 31.9 1.0
CG Q:GLU199 4.0 47.6 1.0
ND2 B:ASN170 4.1 31.4 1.0
CB B:ASP169 4.2 35.5 1.0
CB B:ASP141 4.3 34.2 1.0
OE1 Q:GLU199 4.4 52.9 1.0
CD Q:LYS202 4.5 38.2 1.0
OD1 B:ASP169 4.5 57.0 1.0
N B:VAL42 4.6 38.8 1.0
CG1 B:VAL42 4.6 40.1 1.0
CE Q:LYS202 4.6 40.4 1.0
ND2 B:ASN41 4.8 25.2 1.0
CG B:ASN41 4.8 31.3 1.0
NZ B:LYS46 4.8 50.5 1.0
CA B:VAL42 5.0 28.9 1.0
CB B:ASN170 5.0 25.2 1.0
O B:ASP141 5.0 36.5 1.0

Potassium binding site 5 out of 58 in 5k09

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Potassium binding site 5 out of 58 in the Crystal Structure of Comt in Complex with A Thiazole Ligand


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 Comt in Complex with A Thiazole Ligand within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K303

b:48.7
occ:1.00
O B:VAL183 2.8 32.8 1.0
O B:SER186 2.8 46.6 1.0
O B:PHE189 2.8 51.5 1.0
O B:ARG184 3.0 46.4 1.0
O B:HOH428 3.1 23.8 1.0
C B:ARG184 3.3 40.5 1.0
CA B:ARG184 3.7 31.9 1.0
C B:SER186 3.9 43.5 1.0
C B:PHE189 3.9 44.4 1.0
C B:VAL183 3.9 34.1 1.0
N B:SER186 3.9 37.3 1.0
N B:GLY185 4.1 37.0 1.0
N B:ARG184 4.3 31.1 1.0
SG B:CYS191 4.3 57.9 1.0
C B:GLY185 4.4 37.6 1.0
CA B:SER186 4.5 35.7 1.0
CA B:GLY185 4.6 33.0 1.0
CA B:PHE189 4.7 38.2 1.0
N B:PHE189 4.7 49.3 1.0
CB B:PHE189 4.8 29.9 1.0
N B:GLU190 4.8 43.8 1.0
CA B:GLU190 4.8 42.3 1.0
N B:SER187 4.9 42.9 1.0
N B:CYS191 4.9 38.1 1.0

Potassium binding site 6 out of 58 in 5k09

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Potassium binding site 6 out of 58 in the Crystal Structure of Comt in Complex with A Thiazole Ligand


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 Comt in Complex with A Thiazole Ligand within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K302

b:38.9
occ:1.00
O C:ASN41 2.4 48.1 1.0
OD1 C:ASP141 2.5 49.0 1.0
OE2 G:GLU199 2.5 38.1 1.0
OD2 C:ASP169 2.5 43.9 1.0
O G:HOH408 2.5 40.5 1.0
OD1 C:ASN170 2.6 44.0 1.0
OD2 C:ASP141 2.7 45.1 1.0
CG C:ASP141 2.9 46.1 1.0
CD G:GLU199 3.3 47.2 1.0
C C:ASN41 3.5 44.2 1.0
CG C:ASN170 3.6 39.8 1.0
CG C:ASP169 3.6 49.7 1.0
ND2 C:ASN170 3.8 33.0 1.0
CG G:GLU199 4.0 39.6 1.0
CB C:ASN41 4.1 49.3 1.0
CA C:ASN41 4.1 44.7 1.0
OE1 G:GLU199 4.2 57.2 1.0
CB C:ASP169 4.3 41.3 1.0
CD G:LYS202 4.3 33.1 1.0
CG1 C:VAL42 4.4 40.3 1.0
NZ G:LYS202 4.4 45.6 1.0
CB C:ASP141 4.4 41.1 1.0
OD1 C:ASP169 4.5 54.6 1.0
NZ C:LYS46 4.6 48.1 1.0
N C:VAL42 4.6 40.4 1.0
CE G:LYS202 4.8 40.6 1.0
CB C:ASN170 4.9 43.7 1.0
CA C:VAL42 5.0 38.0 1.0
ND2 C:ASN41 5.0 57.1 1.0

Potassium binding site 7 out of 58 in 5k09

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Potassium binding site 7 out of 58 in the Crystal Structure of Comt in Complex with A Thiazole Ligand


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 Comt in Complex with A Thiazole Ligand within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K303

b:46.6
occ:1.00
O C:PHE189 2.7 64.6 1.0
O C:SER186 2.7 37.3 1.0
O C:HOH419 2.8 38.0 1.0
O C:VAL183 3.0 41.8 1.0
O C:ARG184 3.2 39.0 1.0
O A:HOH422 3.4 42.5 1.0
C C:ARG184 3.6 44.6 1.0
C C:PHE189 3.7 50.8 1.0
C C:SER186 3.9 42.6 1.0
CA C:ARG184 4.0 45.7 1.0
C C:VAL183 4.1 34.7 1.0
O C:HOH402 4.2 51.2 1.0
O C:HOH418 4.3 43.5 1.0
C C:GLY185 4.4 47.5 1.0
N C:SER186 4.4 47.7 1.0
N C:GLY185 4.4 46.5 1.0
O C:GLY185 4.5 51.3 1.0
CA C:PHE189 4.5 43.6 1.0
N C:ARG184 4.6 40.3 1.0
SG C:CYS191 4.6 50.2 1.0
N C:PHE189 4.6 44.1 1.0
CA C:GLU190 4.6 52.6 1.0
N C:GLU190 4.6 38.6 1.0
CB C:PHE189 4.7 37.9 1.0
CA C:SER186 4.8 43.1 1.0
CA C:GLY185 4.8 39.2 1.0
N C:CYS191 4.9 42.0 1.0
N C:SER187 4.9 53.9 1.0
CA C:SER187 5.0 56.6 1.0

Potassium binding site 8 out of 58 in 5k09

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Potassium binding site 8 out of 58 in the Crystal Structure of Comt in Complex with A Thiazole Ligand


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 Comt in Complex with A Thiazole Ligand within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K302

b:44.0
occ:1.00
OD1 D:ASN170 2.5 40.7 1.0
OD2 D:ASP141 2.5 46.0 1.0
O D:ASN41 2.5 43.4 1.0
OE2 A:GLU199 2.6 61.6 1.0
OD2 D:ASP169 2.6 59.5 1.0
O A:HOH416 2.7 52.2 1.0
OD1 D:ASP141 2.7 47.0 1.0
CG D:ASP141 2.9 46.8 1.0
CG D:ASN170 3.6 41.4 1.0
CD A:GLU199 3.6 62.9 1.0
CG D:ASP169 3.6 55.9 1.0
C D:ASN41 3.6 38.4 1.0
ND2 D:ASN170 4.0 45.6 1.0
CD A:LYS202 4.1 36.1 1.0
CG A:GLU199 4.1 54.3 1.0
CA D:ASN41 4.2 40.2 1.0
CB D:ASN41 4.2 39.6 1.0
CB D:ASP169 4.2 45.3 1.0
OD1 D:ASP169 4.4 52.3 1.0
CB D:ASP141 4.4 40.1 1.0
OE1 A:GLU199 4.5 68.7 1.0
NZ A:LYS202 4.6 39.1 1.0
CG1 D:VAL42 4.6 46.3 1.0
N D:VAL42 4.6 37.7 1.0
NZ D:LYS46 4.7 33.1 1.0
CB D:ASN170 4.8 34.0 1.0
CA D:VAL42 4.9 43.8 1.0
CE A:LYS202 5.0 37.6 1.0
CG A:LYS202 5.0 34.9 1.0

Potassium binding site 9 out of 58 in 5k09

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Potassium binding site 9 out of 58 in the Crystal Structure of Comt in Complex with A Thiazole Ligand


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 Comt in Complex with A Thiazole Ligand within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K303

b:45.0
occ:1.00
O D:PHE189 2.8 55.2 1.0
O D:SER186 2.8 56.3 1.0
O D:VAL183 3.0 45.1 1.0
O D:HOH417 3.0 31.2 1.0
O D:ARG184 3.1 47.1 1.0
C D:ARG184 3.4 37.9 1.0
C D:SER186 3.8 53.0 1.0
N D:SER186 3.9 41.2 1.0
CA D:ARG184 3.9 35.8 1.0
C D:PHE189 3.9 40.5 1.0
N D:GLY185 3.9 34.2 1.0
C D:VAL183 4.0 39.4 1.0
C D:GLY185 4.2 44.4 1.0
CA D:GLY185 4.3 36.0 1.0
CA D:SER186 4.4 44.5 1.0
N D:ARG184 4.5 31.2 1.0
SG D:CYS191 4.7 69.1 1.0
N D:SER187 4.7 56.0 1.0
CA D:PHE189 4.8 38.8 1.0
N D:PHE189 4.8 50.6 1.0
N D:GLU190 4.9 42.2 1.0
O D:GLY185 4.9 55.0 1.0
CA D:GLU190 4.9 45.6 1.0
CB D:PHE189 4.9 35.5 1.0

Potassium binding site 10 out of 58 in 5k09

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Potassium binding site 10 out of 58 in the Crystal Structure of Comt in Complex with A Thiazole Ligand


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 Comt in Complex with A Thiazole Ligand within 5.0Å range:
probe atom residue distance (Å) B Occ
E:K302

b:53.2
occ:1.00
OE2 W:GLU199 2.4 39.5 1.0
OD2 E:ASP169 2.5 57.0 1.0
OD1 E:ASP141 2.6 44.7 1.0
O E:ASN41 2.6 63.4 1.0
OD1 E:ASN170 2.6 50.9 1.0
OD2 E:ASP141 2.7 51.4 1.0
CG E:ASP141 3.0 38.9 1.0
O E:HOH417 3.4 37.0 1.0
CD W:GLU199 3.5 61.2 1.0
CG E:ASP169 3.6 55.0 1.0
C E:ASN41 3.6 58.6 1.0
CG E:ASN170 3.8 45.6 1.0
CB E:ASN41 3.8 52.4 1.0
CA E:ASN41 3.9 56.6 1.0
CG W:GLU199 3.9 49.1 1.0
CE W:LYS202 4.1 49.1 1.0
CB E:ASP169 4.3 49.4 1.0
CD W:LYS202 4.3 46.0 1.0
ND2 E:ASN170 4.3 49.1 1.0
OD1 E:ASP169 4.4 50.7 1.0
NZ W:LYS202 4.4 50.6 1.0
CB E:ASP141 4.5 39.2 1.0
OE1 W:GLU199 4.5 73.0 1.0
CG W:LYS202 4.6 39.9 1.0
O W:TYR200 4.7 50.7 1.0
CB W:LYS202 4.8 39.4 1.0
N E:VAL42 4.8 48.6 1.0
CG E:ASN41 4.9 63.5 1.0
CB E:ASN170 5.0 47.4 1.0
NZ E:LYS46 5.0 48.1 1.0

Reference:

C.Lerner, R.Jakob-Roetne, B.Buettelmann, A.Ehler, M.Rudolph, R.M.Rodriguez Sarmiento. Design of Potent and Druglike Nonphenolic Inhibitors For Catechol O-Methyltransferase Derived From A Fragment Screening Approach Targeting the S-Adenosyl-L-Methionine Pocket. J. Med. Chem. V. 59 10163 2016.
ISSN: ISSN 1520-4804
PubMed: 27685665
DOI: 10.1021/ACS.JMEDCHEM.6B00927
Page generated: Mon Dec 14 00:00:29 2020

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