Fluorine in PDB 3hgn: Structure of Porcine Pancreatic Elastase Complexed with A Potent Peptidyl Inhibitor FR130180 Determined By Neutron Crystallography
Enzymatic activity of Structure of Porcine Pancreatic Elastase Complexed with A Potent Peptidyl Inhibitor FR130180 Determined By Neutron Crystallography
All present enzymatic activity of Structure of Porcine Pancreatic Elastase Complexed with A Potent Peptidyl Inhibitor FR130180 Determined By Neutron Crystallography:
3.4.21.36;
Protein crystallography data
The structure of Structure of Porcine Pancreatic Elastase Complexed with A Potent Peptidyl Inhibitor FR130180 Determined By Neutron Crystallography, PDB code: 3hgn
was solved by
T.Tamada,
T.Kinoshita,
R.Kuroki,
T.Tada,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
N/A /
1.65
|
Space group
|
P 21 21 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
50.937,
57.464,
75.180,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
14.9 /
16.3
|
Other elements in 3hgn:
The structure of Structure of Porcine Pancreatic Elastase Complexed with A Potent Peptidyl Inhibitor FR130180 Determined By Neutron Crystallography also contains other interesting chemical elements:
Fluorine Binding Sites:
The binding sites of Fluorine atom in the Structure of Porcine Pancreatic Elastase Complexed with A Potent Peptidyl Inhibitor FR130180 Determined By Neutron Crystallography
(pdb code 3hgn). This binding sites where shown within
5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the
Structure of Porcine Pancreatic Elastase Complexed with A Potent Peptidyl Inhibitor FR130180 Determined By Neutron Crystallography, PDB code: 3hgn:
Jump to Fluorine binding site number:
1;
2;
3;
Fluorine binding site 1 out
of 3 in 3hgn
Go back to
Fluorine Binding Sites List in 3hgn
Fluorine binding site 1 out
of 3 in the Structure of Porcine Pancreatic Elastase Complexed with A Potent Peptidyl Inhibitor FR130180 Determined By Neutron Crystallography
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 1 of Structure of Porcine Pancreatic Elastase Complexed with A Potent Peptidyl Inhibitor FR130180 Determined By Neutron Crystallography within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F246
b:7.9
occ:1.00
|
F36
|
A:FRW246
|
0.0
|
7.9
|
1.0
|
C33
|
A:FRW246
|
1.3
|
7.8
|
1.0
|
F35
|
A:FRW246
|
2.1
|
8.1
|
1.0
|
F34
|
A:FRW246
|
2.1
|
8.3
|
1.0
|
DE2
|
A:HIS57
|
2.3
|
7.8
|
1.0
|
C31
|
A:FRW246
|
2.5
|
5.3
|
1.0
|
H21
|
A:FRW246
|
2.7
|
12.8
|
1.0
|
OG
|
A:SER195
|
2.8
|
5.5
|
1.0
|
N26
|
A:FRW246
|
2.9
|
6.3
|
1.0
|
C27
|
A:FRW246
|
2.9
|
5.9
|
1.0
|
NE2
|
A:HIS57
|
3.0
|
7.0
|
1.0
|
H27
|
A:FRW246
|
3.0
|
8.1
|
1.0
|
HD2
|
A:HIS57
|
3.0
|
8.2
|
1.0
|
C24
|
A:FRW246
|
3.0
|
8.1
|
1.0
|
O25
|
A:FRW246
|
3.2
|
8.8
|
1.0
|
D1
|
A:DOD392
|
3.3
|
25.6
|
1.0
|
CD2
|
A:HIS57
|
3.3
|
7.0
|
1.0
|
DN26
|
A:FRW246
|
3.4
|
7.2
|
1.0
|
O32
|
A:FRW246
|
3.5
|
5.7
|
1.0
|
O
|
A:DOD392
|
3.6
|
30.0
|
1.0
|
C21
|
A:FRW246
|
3.6
|
9.2
|
1.0
|
HB2
|
A:SER195
|
3.7
|
4.8
|
1.0
|
CB
|
A:SER195
|
3.7
|
5.4
|
1.0
|
D1
|
A:DOD423
|
3.8
|
26.7
|
1.0
|
C20
|
A:FRW246
|
3.9
|
7.7
|
1.0
|
HB3
|
A:SER195
|
3.9
|
5.2
|
1.0
|
H21A
|
A:FRW246
|
4.0
|
13.3
|
1.0
|
CE1
|
A:HIS57
|
4.2
|
7.0
|
1.0
|
D2
|
A:DOD392
|
4.3
|
23.1
|
1.0
|
C28
|
A:FRW246
|
4.4
|
6.0
|
1.0
|
H20
|
A:FRW246
|
4.5
|
6.6
|
1.0
|
HG3
|
A:GLN192
|
4.5
|
10.1
|
1.0
|
D
|
A:GLY193
|
4.5
|
3.9
|
1.0
|
H
|
A:GLY193
|
4.5
|
6.1
|
0.0
|
HE1
|
A:HIS57
|
4.6
|
8.5
|
1.0
|
CG
|
A:HIS57
|
4.6
|
5.9
|
1.0
|
HA
|
A:GLN192
|
4.6
|
5.1
|
1.0
|
O
|
A:DOD423
|
4.7
|
28.9
|
1.0
|
H28
|
A:FRW246
|
4.8
|
5.8
|
1.0
|
C22
|
A:FRW246
|
4.9
|
15.2
|
1.0
|
O
|
A:DOD378
|
4.9
|
23.4
|
1.0
|
H
|
A:SER195
|
4.9
|
5.5
|
0.0
|
D
|
A:SER195
|
4.9
|
6.8
|
1.0
|
H22
|
A:FRW246
|
5.0
|
14.4
|
1.0
|
HG2
|
A:GLN192
|
5.0
|
10.5
|
1.0
|
|
Fluorine binding site 2 out
of 3 in 3hgn
Go back to
Fluorine Binding Sites List in 3hgn
Fluorine binding site 2 out
of 3 in the Structure of Porcine Pancreatic Elastase Complexed with A Potent Peptidyl Inhibitor FR130180 Determined By Neutron Crystallography
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 2 of Structure of Porcine Pancreatic Elastase Complexed with A Potent Peptidyl Inhibitor FR130180 Determined By Neutron Crystallography within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F246
b:8.3
occ:1.00
|
F34
|
A:FRW246
|
0.0
|
8.3
|
1.0
|
C33
|
A:FRW246
|
1.4
|
7.8
|
1.0
|
F35
|
A:FRW246
|
2.1
|
8.1
|
1.0
|
F36
|
A:FRW246
|
2.1
|
7.9
|
1.0
|
C31
|
A:FRW246
|
2.4
|
5.3
|
1.0
|
H27
|
A:FRW246
|
2.5
|
8.1
|
1.0
|
O32
|
A:FRW246
|
2.8
|
5.7
|
1.0
|
C27
|
A:FRW246
|
2.9
|
5.9
|
1.0
|
HA
|
A:GLN192
|
2.9
|
5.1
|
1.0
|
D
|
A:GLY193
|
2.9
|
3.9
|
1.0
|
H
|
A:GLY193
|
2.9
|
6.1
|
0.0
|
HG3
|
A:GLN192
|
3.0
|
10.1
|
1.0
|
HB3
|
A:GLN192
|
3.1
|
10.2
|
1.0
|
HG2
|
A:GLN192
|
3.4
|
10.5
|
1.0
|
CG
|
A:GLN192
|
3.5
|
9.1
|
1.0
|
O25
|
A:FRW246
|
3.5
|
8.8
|
1.0
|
O
|
A:DOD378
|
3.5
|
23.4
|
1.0
|
N
|
A:GLY193
|
3.6
|
5.5
|
1.0
|
CB
|
A:GLN192
|
3.6
|
8.0
|
1.0
|
OG
|
A:SER195
|
3.6
|
5.5
|
1.0
|
CA
|
A:GLN192
|
3.6
|
5.6
|
1.0
|
N26
|
A:FRW246
|
3.7
|
6.3
|
1.0
|
D1
|
A:DOD423
|
3.8
|
26.7
|
1.0
|
C24
|
A:FRW246
|
3.9
|
8.1
|
1.0
|
D1
|
A:DOD378
|
3.9
|
26.4
|
1.0
|
D2
|
A:DOD378
|
4.0
|
20.5
|
1.0
|
HB2
|
A:SER195
|
4.0
|
4.8
|
1.0
|
H28
|
A:FRW246
|
4.0
|
5.8
|
1.0
|
C
|
A:GLN192
|
4.0
|
5.4
|
1.0
|
DE2
|
A:HIS57
|
4.0
|
7.8
|
1.0
|
D1
|
A:DOD392
|
4.1
|
25.6
|
1.0
|
C28
|
A:FRW246
|
4.1
|
6.0
|
1.0
|
HA2
|
A:GLY193
|
4.3
|
7.3
|
1.0
|
CB
|
A:SER195
|
4.4
|
5.4
|
1.0
|
O
|
A:DOD423
|
4.4
|
28.9
|
1.0
|
H21
|
A:FRW246
|
4.5
|
12.8
|
1.0
|
DN26
|
A:FRW246
|
4.5
|
7.2
|
1.0
|
D2
|
A:DOD423
|
4.5
|
21.8
|
1.0
|
H
|
A:SER195
|
4.5
|
5.5
|
0.0
|
D
|
A:SER195
|
4.5
|
6.8
|
1.0
|
HB2
|
A:GLN192
|
4.5
|
7.5
|
1.0
|
CA
|
A:GLY193
|
4.6
|
6.0
|
1.0
|
H29
|
A:FRW246
|
4.6
|
8.1
|
1.0
|
O
|
A:DOD392
|
4.7
|
30.0
|
1.0
|
CD
|
A:GLN192
|
4.8
|
9.8
|
1.0
|
N
|
A:GLN192
|
4.9
|
6.1
|
1.0
|
C29
|
A:FRW246
|
4.9
|
8.1
|
1.0
|
HB3
|
A:SER195
|
4.9
|
5.2
|
1.0
|
NE2
|
A:HIS57
|
5.0
|
7.0
|
1.0
|
O
|
A:THR41
|
5.0
|
9.8
|
1.0
|
|
Fluorine binding site 3 out
of 3 in 3hgn
Go back to
Fluorine Binding Sites List in 3hgn
Fluorine binding site 3 out
of 3 in the Structure of Porcine Pancreatic Elastase Complexed with A Potent Peptidyl Inhibitor FR130180 Determined By Neutron Crystallography
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 3 of Structure of Porcine Pancreatic Elastase Complexed with A Potent Peptidyl Inhibitor FR130180 Determined By Neutron Crystallography within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F246
b:8.1
occ:1.00
|
F35
|
A:FRW246
|
0.0
|
8.1
|
1.0
|
C33
|
A:FRW246
|
1.3
|
7.8
|
1.0
|
F36
|
A:FRW246
|
2.1
|
7.9
|
1.0
|
F34
|
A:FRW246
|
2.1
|
8.3
|
1.0
|
C31
|
A:FRW246
|
2.4
|
5.3
|
1.0
|
HB2
|
A:SER195
|
2.4
|
4.8
|
1.0
|
O32
|
A:FRW246
|
2.7
|
5.7
|
1.0
|
OG
|
A:SER195
|
2.9
|
5.5
|
1.0
|
CB
|
A:SER195
|
3.0
|
5.4
|
1.0
|
D1
|
A:DOD392
|
3.1
|
25.6
|
1.0
|
DE2
|
A:HIS57
|
3.1
|
7.8
|
1.0
|
D
|
A:GLY193
|
3.3
|
3.9
|
1.0
|
H
|
A:GLY193
|
3.3
|
6.1
|
0.0
|
HB3
|
A:SER195
|
3.3
|
5.2
|
1.0
|
O
|
A:DOD378
|
3.4
|
23.4
|
1.0
|
D2
|
A:DOD378
|
3.5
|
20.5
|
1.0
|
SG
|
A:CYS42
|
3.5
|
7.0
|
1.0
|
O
|
A:THR41
|
3.6
|
9.8
|
1.0
|
C27
|
A:FRW246
|
3.7
|
5.9
|
1.0
|
O
|
A:DOD392
|
3.8
|
30.0
|
1.0
|
HA2
|
A:GLY193
|
3.9
|
7.3
|
1.0
|
H27
|
A:FRW246
|
3.9
|
8.1
|
1.0
|
H
|
A:SER195
|
3.9
|
5.5
|
0.0
|
D
|
A:SER195
|
3.9
|
6.8
|
1.0
|
NE2
|
A:HIS57
|
3.9
|
7.0
|
1.0
|
HD2
|
A:HIS57
|
4.0
|
8.2
|
1.0
|
N
|
A:GLY193
|
4.0
|
5.5
|
1.0
|
D1
|
A:DOD378
|
4.2
|
26.4
|
1.0
|
N26
|
A:FRW246
|
4.3
|
6.3
|
1.0
|
HA
|
A:GLN192
|
4.3
|
5.1
|
1.0
|
HA
|
A:CYS42
|
4.3
|
3.5
|
1.0
|
CA
|
A:SER195
|
4.3
|
5.0
|
1.0
|
D2
|
A:DOD392
|
4.3
|
23.1
|
1.0
|
CD2
|
A:HIS57
|
4.3
|
7.0
|
1.0
|
CA
|
A:GLY193
|
4.5
|
6.0
|
1.0
|
N
|
A:SER195
|
4.5
|
5.5
|
1.0
|
SG
|
A:CYS58
|
4.5
|
8.0
|
1.0
|
C
|
A:THR41
|
4.8
|
7.3
|
1.0
|
H21
|
A:FRW246
|
4.8
|
12.8
|
1.0
|
DN26
|
A:FRW246
|
4.8
|
7.2
|
1.0
|
HB3
|
A:GLN192
|
4.9
|
10.2
|
1.0
|
H28
|
A:FRW246
|
4.9
|
5.8
|
1.0
|
C24
|
A:FRW246
|
4.9
|
8.1
|
1.0
|
C28
|
A:FRW246
|
4.9
|
6.0
|
1.0
|
O25
|
A:FRW246
|
4.9
|
8.8
|
1.0
|
HA
|
A:SER195
|
5.0
|
3.3
|
1.0
|
CB
|
A:CYS42
|
5.0
|
6.2
|
1.0
|
HA
|
A:CYS58
|
5.0
|
7.5
|
1.0
|
C
|
A:GLY193
|
5.0
|
5.8
|
1.0
|
|
Reference:
T.Tamada,
T.Kinoshita,
K.Kurihara,
M.Adachi,
T.Ohhara,
K.Imai,
R.Kuroki,
T.Tada.
Combined High-Resolution Neutron and X-Ray Analysis of Inhibited Elastase Confirms the Active-Site Oxyanion Hole But Rules Against A Low-Barrier Hydrogen Bond J.Am.Chem.Soc. V. 131 11033 2009.
ISSN: ISSN 0002-7863
PubMed: 19603802
DOI: 10.1021/JA9028846
Page generated: Wed Jul 31 19:15:23 2024
|