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Potassium in PDB 6qml: UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin

Enzymatic activity of UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin

All present enzymatic activity of UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin:
3.4.19.12;

Protein crystallography data

The structure of UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin, PDB code: 6qml was solved by A.G.Murachelli, T.K.Sixma, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.30 / 2.10
Space group P 2 21 21
Cell size a, b, c (Å), α, β, γ (°) 70.290, 81.206, 159.858, 90.00, 90.00, 90.00
R / Rfree (%) 18.4 / 23.3

Other elements in 6qml:

The structure of UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin also contains other interesting chemical elements:

Bromine (Br) 4 atoms
Chlorine (Cl) 2 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin (pdb code 6qml). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 5 binding sites of Potassium where determined in the UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin, PDB code: 6qml:
Jump to Potassium binding site number: 1; 2; 3; 4; 5;

Potassium binding site 1 out of 5 in 6qml

Go back to Potassium Binding Sites List in 6qml
Potassium binding site 1 out of 5 in the UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K301

b:50.0
occ:1.00
 O A:HIS175 2.5 36.7 1.0
O A:ASN106 2.8 38.7 1.0
OD1 A:ASN107 2.9 37.3 1.0
O A:HOH409 3.1 33.0 1.0
CG A:ASN107 3.6 36.2 1.0
C A:HIS175 3.7 37.7 1.0
CL A:CL308 3.8 75.0 1.0
C A:ASN106 4.0 36.8 1.0
ND2 A:ASN107 4.2 36.5 1.0
CE A:LYS110 4.2 58.2 1.0
NZ A:LYS110 4.3 72.5 1.0
CA A:ASN107 4.3 42.4 1.0
O A:HOH455 4.4 45.5 1.0
N A:ASN107 4.6 39.1 1.0
CB A:ASN107 4.6 39.3 1.0
CG2 A:VAL176 4.6 34.3 1.0
CA A:HIS175 4.6 39.3 1.0
N A:HIS175 4.6 36.2 1.0
N A:VAL176 4.7 37.8 1.0
CB A:HIS175 4.7 38.0 1.0
ND1 A:HIS175 4.7 43.7 1.0
CA A:VAL176 4.7 36.4 1.0
CG A:HIS175 5.0 39.8 1.0
O A:CYS50 5.0 37.9 1.0

Potassium binding site 2 out of 5 in 6qml

Go back to Potassium Binding Sites List in 6qml
Potassium binding site 2 out of 5 in the UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K302

b:82.3
occ:1.00
 O A:VAL84 3.9 37.6 1.0
NH2 A:ARG134 4.0 33.3 1.0
O A:SER82 4.0 35.5 1.0
O A:VAL127 4.1 40.2 1.0
O A:SER83 4.3 40.4 1.0
C A:VAL84 4.4 33.9 1.0
C A:SER83 4.5 39.6 1.0
CA A:TYR85 4.6 33.4 1.0
O A:HOH410 4.7 33.4 1.0
N A:TYR85 4.7 33.3 1.0
CB A:TYR85 4.8 32.8 1.0
CZ A:ARG134 4.9 33.9 1.0
CA A:SER83 4.9 42.3 1.0
CD2 A:TYR85 4.9 29.5 1.0
NH1 A:ARG134 5.0 30.4 1.0

Potassium binding site 3 out of 5 in 6qml

Go back to Potassium Binding Sites List in 6qml
Potassium binding site 3 out of 5 in the UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K301

b:48.4
occ:1.00
 O D:HIS175 2.6 35.1 1.0
OD1 D:ASN107 2.8 35.8 1.0
O D:ASN106 2.8 35.7 1.0
O D:HOH414 2.9 35.9 1.0
CG D:ASN107 3.6 37.0 1.0
O D:HOH426 3.7 44.4 1.0
C D:HIS175 3.8 35.6 1.0
CL D:CL308 3.9 65.6 1.0
C D:ASN106 4.0 33.8 1.0
CE D:LYS110 4.2 54.4 1.0
ND2 D:ASN107 4.2 32.4 1.0
CA D:ASN107 4.3 35.7 1.0
O D:HOH438 4.4 50.1 1.0
CB D:ASN107 4.5 35.2 1.0
N D:ASN107 4.5 34.5 1.0
CG2 D:VAL176 4.6 36.1 1.0
CA D:HIS175 4.6 36.4 1.0
N D:HIS175 4.6 35.7 1.0
ND1 D:HIS175 4.7 44.3 1.0
CB D:HIS175 4.7 39.2 1.0
N D:VAL176 4.7 35.7 1.0
CA D:VAL176 4.8 36.6 1.0
NZ D:LYS110 4.9 60.3 1.0
CG D:HIS175 5.0 37.5 1.0
O D:CYS50 5.0 40.0 1.0

Potassium binding site 4 out of 5 in 6qml

Go back to Potassium Binding Sites List in 6qml
Potassium binding site 4 out of 5 in the UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K302

b:43.5
occ:0.97
 O D:ASN140 2.6 45.2 1.0
O D:HOH449 2.7 52.0 1.0
OD1 D:ASP142 2.7 45.2 1.0
CG D:ASP142 3.4 42.8 1.0
OD2 D:ASP142 3.5 39.3 1.0
C D:ASN140 3.6 43.0 1.0
CA D:ASN140 4.0 50.5 1.0
CB D:ASN140 4.2 54.9 1.0
O D:HOH441 4.5 48.3 1.0
N D:ASP142 4.5 36.4 1.0
CB D:ASP142 4.7 39.2 1.0
ND2 D:ASN140 4.7 67.8 1.0
N D:TYR141 4.7 39.7 1.0
CG D:ASN140 5.0 65.2 1.0

Potassium binding site 5 out of 5 in 6qml

Go back to Potassium Binding Sites List in 6qml
Potassium binding site 5 out of 5 in the UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of UCHL3 in Complex with Synthetic, K27-Linked Diubiquitin within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K303

b:71.8
occ:1.00
 OD2 D:ASP142 2.9 39.3 1.0
CG D:ASP142 3.7 42.8 1.0
CB D:ASP142 3.7 39.2 1.0
O D:HOH441 4.3 48.3 1.0
OD1 D:ASP142 4.8 45.2 1.0

Reference:

A.G.Murachelli, T.K.Sixma. UCHL3 Is Inhibited By LYS27-Linked Diubiquitin To Be Published.
Page generated: Mon Aug 12 17:23:42 2024

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