Potassium in PDB 7zd1: Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By HG2+ Ions
Enzymatic activity of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By HG2+ Ions
All present enzymatic activity of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By HG2+ Ions:
3.3.1.1;
Protein crystallography data
The structure of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By HG2+ Ions, PDB code: 7zd1
was solved by
P.H.Malecki,
M.Gawel,
K.Brzezinski,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
105.47 /
1.56
|
Space group
|
C 1 2 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
177.418,
134.199,
108.729,
90,
105.95,
90
|
R / Rfree (%)
|
12.3 /
17.9
|
Other elements in 7zd1:
The structure of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By HG2+ Ions also contains other interesting chemical elements:
Potassium Binding Sites:
The binding sites of Potassium atom in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By HG2+ Ions
(pdb code 7zd1). This binding sites where shown within
5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the
Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By HG2+ Ions, PDB code: 7zd1:
Jump to Potassium binding site number:
1;
2;
3;
4;
Potassium binding site 1 out
of 4 in 7zd1
Go back to
Potassium Binding Sites List in 7zd1
Potassium binding site 1 out
of 4 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By HG2+ Ions
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 Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By HG2+ Ions within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K506
b:22.6
occ:1.00
|
O
|
A:THR380
|
2.7
|
20.3
|
1.0
|
O
|
A:HIS382
|
2.8
|
20.3
|
1.0
|
O
|
A:HOH823
|
2.8
|
22.4
|
1.0
|
O
|
A:HOH879
|
2.8
|
21.7
|
1.0
|
OG1
|
A:THR380
|
2.8
|
23.3
|
1.0
|
O
|
B:HOH761
|
3.1
|
23.6
|
1.0
|
OE1
|
A:GLN65
|
3.1
|
19.9
|
1.0
|
NE2
|
A:GLN65
|
3.4
|
21.1
|
1.0
|
CD
|
A:GLN65
|
3.4
|
20.6
|
1.0
|
CB
|
A:THR380
|
3.5
|
22.0
|
1.0
|
C
|
A:THR380
|
3.6
|
18.4
|
1.0
|
C
|
A:HIS382
|
3.6
|
19.7
|
1.0
|
O
|
A:GLY381
|
3.8
|
21.9
|
1.0
|
N6
|
A:ADN502
|
4.0
|
20.6
|
1.0
|
CA
|
A:PRO383
|
4.0
|
18.9
|
1.0
|
C
|
A:GLY381
|
4.1
|
20.1
|
1.0
|
CA
|
A:THR380
|
4.2
|
21.4
|
1.0
|
N
|
A:PRO383
|
4.2
|
19.0
|
1.0
|
CB
|
B:ASP216
|
4.2
|
20.8
|
1.0
|
O
|
A:HOH991
|
4.5
|
24.6
|
1.0
|
N
|
A:HIS382
|
4.5
|
18.3
|
1.0
|
CG
|
B:ASP216
|
4.5
|
21.8
|
1.0
|
N
|
A:GLY381
|
4.5
|
20.8
|
1.0
|
CG
|
A:GLN65
|
4.6
|
20.1
|
1.0
|
OD1
|
B:ASP216
|
4.6
|
22.8
|
1.0
|
C
|
A:PRO383
|
4.7
|
19.9
|
1.0
|
CA
|
A:HIS382
|
4.7
|
21.0
|
1.0
|
N
|
A:SER384
|
4.7
|
19.3
|
1.0
|
CA
|
A:GLY381
|
4.7
|
20.4
|
1.0
|
CG2
|
A:THR380
|
4.8
|
24.1
|
1.0
|
OE1
|
A:GLN91
|
4.8
|
22.7
|
1.0
|
O
|
B:ASP216
|
4.9
|
22.2
|
1.0
|
|
Potassium binding site 2 out
of 4 in 7zd1
Go back to
Potassium Binding Sites List in 7zd1
Potassium binding site 2 out
of 4 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By HG2+ Ions
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 Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By HG2+ Ions within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:K505
b:25.4
occ:1.00
|
O
|
B:THR380
|
2.7
|
23.2
|
1.0
|
O
|
B:HIS382
|
2.7
|
24.1
|
1.0
|
O
|
B:HOH819
|
2.8
|
24.7
|
1.0
|
O
|
B:HOH625
|
2.8
|
26.1
|
1.0
|
OG1
|
B:THR380
|
2.9
|
24.1
|
1.0
|
O
|
A:HOH807
|
3.0
|
25.4
|
1.0
|
OE1
|
B:GLN65
|
3.2
|
24.6
|
1.0
|
NE2
|
B:GLN65
|
3.4
|
25.7
|
1.0
|
CD
|
B:GLN65
|
3.5
|
27.0
|
1.0
|
CB
|
B:THR380
|
3.6
|
24.2
|
1.0
|
C
|
B:THR380
|
3.6
|
22.6
|
1.0
|
C
|
B:HIS382
|
3.6
|
21.4
|
1.0
|
O
|
B:GLY381
|
3.8
|
23.4
|
1.0
|
CA
|
B:PRO383
|
4.0
|
21.6
|
1.0
|
N6
|
B:ADN502
|
4.0
|
22.1
|
1.0
|
C
|
B:GLY381
|
4.1
|
21.9
|
1.0
|
N
|
B:PRO383
|
4.2
|
21.9
|
1.0
|
CA
|
B:THR380
|
4.2
|
22.7
|
1.0
|
CB
|
A:ASP216
|
4.2
|
22.9
|
1.0
|
O
|
B:HOH919
|
4.5
|
28.4
|
1.0
|
N
|
B:HIS382
|
4.5
|
22.2
|
1.0
|
N
|
B:GLY381
|
4.5
|
23.8
|
1.0
|
CG
|
A:ASP216
|
4.5
|
24.2
|
1.0
|
CG
|
B:GLN65
|
4.6
|
24.2
|
1.0
|
OD1
|
A:ASP216
|
4.6
|
23.8
|
1.0
|
OE1
|
B:GLN91
|
4.6
|
20.9
|
0.6
|
NE2
|
B:GLN91
|
4.6
|
44.2
|
0.4
|
C
|
B:PRO383
|
4.7
|
21.7
|
1.0
|
CA
|
B:HIS382
|
4.7
|
22.0
|
1.0
|
CA
|
B:GLY381
|
4.7
|
23.7
|
1.0
|
N
|
B:SER384
|
4.7
|
21.0
|
1.0
|
CG2
|
B:THR380
|
4.8
|
25.0
|
1.0
|
O
|
A:ASP216
|
4.9
|
25.8
|
1.0
|
|
Potassium binding site 3 out
of 4 in 7zd1
Go back to
Potassium Binding Sites List in 7zd1
Potassium binding site 3 out
of 4 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By HG2+ Ions
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 Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By HG2+ Ions within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:K506
b:25.1
occ:1.00
|
O
|
C:THR380
|
2.7
|
24.5
|
1.0
|
O
|
C:HIS382
|
2.8
|
22.5
|
1.0
|
O
|
C:HOH823
|
2.8
|
22.9
|
1.0
|
O
|
C:HOH858
|
2.8
|
25.0
|
1.0
|
OG1
|
C:THR380
|
2.8
|
25.0
|
1.0
|
O
|
D:HOH785
|
3.0
|
24.2
|
1.0
|
OE1
|
C:GLN65
|
3.2
|
23.5
|
1.0
|
NE2
|
C:GLN65
|
3.4
|
22.6
|
1.0
|
CD
|
C:GLN65
|
3.5
|
21.3
|
1.0
|
CB
|
C:THR380
|
3.5
|
23.1
|
1.0
|
C
|
C:THR380
|
3.6
|
23.3
|
1.0
|
C
|
C:HIS382
|
3.7
|
22.9
|
1.0
|
O
|
C:GLY381
|
3.8
|
22.4
|
1.0
|
CA
|
C:PRO383
|
4.0
|
20.6
|
1.0
|
N6
|
C:ADN502
|
4.0
|
22.8
|
1.0
|
C
|
C:GLY381
|
4.1
|
22.1
|
1.0
|
CA
|
C:THR380
|
4.2
|
23.5
|
1.0
|
CB
|
D:ASP216
|
4.2
|
24.6
|
1.0
|
N
|
C:PRO383
|
4.2
|
20.3
|
1.0
|
O
|
C:HOH958
|
4.4
|
27.4
|
1.0
|
CG
|
D:ASP216
|
4.5
|
25.2
|
1.0
|
N
|
C:GLY381
|
4.5
|
21.5
|
1.0
|
N
|
C:HIS382
|
4.5
|
21.9
|
1.0
|
OD1
|
D:ASP216
|
4.6
|
25.0
|
1.0
|
CG
|
C:GLN65
|
4.6
|
22.0
|
1.0
|
C
|
C:PRO383
|
4.6
|
19.8
|
1.0
|
CA
|
C:HIS382
|
4.7
|
22.5
|
1.0
|
N
|
C:SER384
|
4.7
|
22.2
|
1.0
|
CA
|
C:GLY381
|
4.8
|
23.6
|
1.0
|
CG2
|
C:THR380
|
4.8
|
26.6
|
1.0
|
OE1
|
C:GLN91
|
4.9
|
26.1
|
1.0
|
O
|
D:ASP216
|
4.9
|
23.0
|
1.0
|
|
Potassium binding site 4 out
of 4 in 7zd1
Go back to
Potassium Binding Sites List in 7zd1
Potassium binding site 4 out
of 4 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By HG2+ Ions
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 Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By HG2+ Ions within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:K504
b:25.9
occ:1.00
|
O
|
D:THR380
|
2.7
|
26.3
|
1.0
|
O
|
D:HOH804
|
2.7
|
25.4
|
1.0
|
O
|
D:HIS382
|
2.8
|
24.2
|
1.0
|
OG1
|
D:THR380
|
2.8
|
25.9
|
1.0
|
O
|
D:HOH725
|
2.8
|
25.3
|
1.0
|
O
|
C:HOH782
|
3.1
|
26.3
|
1.0
|
OE1
|
D:GLN65
|
3.2
|
24.7
|
1.0
|
NE2
|
D:GLN65
|
3.3
|
25.5
|
1.0
|
CD
|
D:GLN65
|
3.5
|
22.3
|
1.0
|
CB
|
D:THR380
|
3.5
|
25.6
|
1.0
|
C
|
D:THR380
|
3.6
|
23.9
|
1.0
|
C
|
D:HIS382
|
3.7
|
22.3
|
1.0
|
O
|
D:GLY381
|
3.7
|
23.8
|
1.0
|
N6
|
D:ADN502
|
4.0
|
21.0
|
1.0
|
CA
|
D:PRO383
|
4.0
|
23.6
|
1.0
|
C
|
D:GLY381
|
4.1
|
21.7
|
1.0
|
CA
|
D:THR380
|
4.2
|
23.5
|
1.0
|
N
|
D:PRO383
|
4.2
|
22.8
|
1.0
|
CB
|
C:ASP216
|
4.2
|
24.8
|
1.0
|
O
|
D:HOH922
|
4.4
|
28.9
|
1.0
|
N
|
D:HIS382
|
4.5
|
21.9
|
1.0
|
CG
|
C:ASP216
|
4.5
|
24.9
|
1.0
|
N
|
D:GLY381
|
4.5
|
23.6
|
1.0
|
OD1
|
C:ASP216
|
4.6
|
26.0
|
1.0
|
CG
|
D:GLN65
|
4.6
|
23.1
|
1.0
|
C
|
D:PRO383
|
4.7
|
26.3
|
1.0
|
CA
|
D:GLY381
|
4.7
|
22.2
|
1.0
|
N
|
D:SER384
|
4.7
|
23.4
|
1.0
|
CA
|
D:HIS382
|
4.7
|
23.4
|
1.0
|
OE1
|
D:GLN91
|
4.8
|
28.6
|
1.0
|
CG2
|
D:THR380
|
4.8
|
25.9
|
1.0
|
O
|
C:ASP216
|
5.0
|
24.9
|
1.0
|
|
Reference:
P.H.Malecki,
M.Gawel,
K.Brzezinski.
Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By HG2+ Ions To Be Published.
Page generated: Mon Aug 12 21:46:11 2024
|