Fluorine in PDB 4y11: Trypsin in Complex with with Bpti Mutant (2S)-2-Amino-4,4,4- Trifluorobutanoic Acid
Enzymatic activity of Trypsin in Complex with with Bpti Mutant (2S)-2-Amino-4,4,4- Trifluorobutanoic Acid
All present enzymatic activity of Trypsin in Complex with with Bpti Mutant (2S)-2-Amino-4,4,4- Trifluorobutanoic Acid:
3.4.21.4;
Protein crystallography data
The structure of Trypsin in Complex with with Bpti Mutant (2S)-2-Amino-4,4,4- Trifluorobutanoic Acid, PDB code: 4y11
was solved by
B.Loll,
S.Ye,
A.A.Berger,
U.Muelow,
C.Alings,
M.C.Wahl,
B.Koksch,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
36.10 /
1.30
|
Space group
|
I 2 2 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
74.971,
82.102,
123.578,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
13.4 /
15.6
|
Other elements in 4y11:
The structure of Trypsin in Complex with with Bpti Mutant (2S)-2-Amino-4,4,4- Trifluorobutanoic Acid also contains other interesting chemical elements:
Fluorine Binding Sites:
The binding sites of Fluorine atom in the Trypsin in Complex with with Bpti Mutant (2S)-2-Amino-4,4,4- Trifluorobutanoic Acid
(pdb code 4y11). This binding sites where shown within
5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the
Trypsin in Complex with with Bpti Mutant (2S)-2-Amino-4,4,4- Trifluorobutanoic Acid, PDB code: 4y11:
Jump to Fluorine binding site number:
1;
2;
3;
Fluorine binding site 1 out
of 3 in 4y11
Go back to
Fluorine Binding Sites List in 4y11
Fluorine binding site 1 out
of 3 in the Trypsin in Complex with with Bpti Mutant (2S)-2-Amino-4,4,4- Trifluorobutanoic Acid
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 1 of Trypsin in Complex with with Bpti Mutant (2S)-2-Amino-4,4,4- Trifluorobutanoic Acid within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:F15
b:14.2
occ:1.00
|
FAC
|
I:3EG15
|
0.0
|
14.2
|
1.0
|
CG
|
I:3EG15
|
1.3
|
13.2
|
1.0
|
FAE
|
I:3EG15
|
2.1
|
14.0
|
1.0
|
FAD
|
I:3EG15
|
2.1
|
14.2
|
1.0
|
CB
|
I:3EG15
|
2.4
|
12.1
|
1.0
|
HA
|
E:TRP213
|
2.6
|
15.5
|
1.0
|
HBA
|
I:3EG15
|
2.6
|
14.5
|
1.0
|
CA
|
I:3EG15
|
3.0
|
11.2
|
1.0
|
HA
|
I:3EG15
|
3.0
|
13.5
|
1.0
|
N
|
I:3EG15
|
3.0
|
11.8
|
1.0
|
HB
|
I:3EG15
|
3.2
|
14.5
|
1.0
|
H
|
I:3EG15
|
3.2
|
14.2
|
1.0
|
O
|
I:PRO13
|
3.3
|
13.2
|
1.0
|
CA
|
E:TRP213
|
3.4
|
12.9
|
1.0
|
O
|
I:HOH237
|
3.4
|
17.6
|
1.0
|
C
|
I:CYS14
|
3.4
|
11.8
|
1.0
|
O
|
E:HOH431
|
3.4
|
20.4
|
1.0
|
C
|
E:TRP213
|
3.5
|
13.5
|
1.0
|
H
|
E:GLY214
|
3.6
|
16.8
|
1.0
|
HA
|
I:CYS14
|
3.6
|
14.4
|
1.0
|
N
|
E:GLY214
|
3.6
|
14.0
|
1.0
|
O
|
E:SER212
|
3.7
|
12.8
|
1.0
|
N
|
E:TRP213
|
3.9
|
12.9
|
1.0
|
O
|
I:CYS14
|
3.9
|
12.5
|
1.0
|
O
|
E:HOH537
|
3.9
|
20.3
|
1.0
|
C
|
E:SER212
|
4.1
|
12.3
|
1.0
|
CA
|
I:CYS14
|
4.1
|
12.0
|
1.0
|
HE22
|
E:GLN194
|
4.1
|
18.6
|
1.0
|
O
|
E:TRP213
|
4.1
|
14.5
|
1.0
|
HE21
|
E:GLN194
|
4.2
|
18.6
|
1.0
|
C
|
I:PRO13
|
4.3
|
12.7
|
1.0
|
NE2
|
E:GLN194
|
4.3
|
15.5
|
1.0
|
O
|
E:HOH538
|
4.3
|
18.1
|
1.0
|
HA3
|
E:GLY214
|
4.3
|
18.5
|
1.0
|
HG12
|
E:VAL211
|
4.4
|
15.8
|
1.0
|
H
|
E:TRP213
|
4.5
|
15.5
|
1.0
|
C
|
I:3EG15
|
4.5
|
11.7
|
1.0
|
HA
|
E:CYS193
|
4.5
|
15.1
|
1.0
|
CA
|
E:GLY214
|
4.6
|
15.4
|
1.0
|
CB
|
E:TRP213
|
4.6
|
13.3
|
1.0
|
HB2
|
E:TRP213
|
4.6
|
16.0
|
1.0
|
N
|
I:CYS14
|
4.7
|
12.6
|
1.0
|
OG
|
E:SER197
|
4.7
|
12.2
|
1.0
|
HB3
|
E:TRP213
|
4.8
|
16.0
|
1.0
|
HG13
|
E:VAL211
|
4.8
|
15.8
|
1.0
|
HG
|
E:SER197
|
4.8
|
14.7
|
1.0
|
CG1
|
E:VAL211
|
5.0
|
13.2
|
1.0
|
HB2
|
E:SER192
|
5.0
|
18.1
|
0.3
|
|
Fluorine binding site 2 out
of 3 in 4y11
Go back to
Fluorine Binding Sites List in 4y11
Fluorine binding site 2 out
of 3 in the Trypsin in Complex with with Bpti Mutant (2S)-2-Amino-4,4,4- Trifluorobutanoic Acid
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 2 of Trypsin in Complex with with Bpti Mutant (2S)-2-Amino-4,4,4- Trifluorobutanoic Acid within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:F15
b:14.2
occ:1.00
|
FAD
|
I:3EG15
|
0.0
|
14.2
|
1.0
|
CG
|
I:3EG15
|
1.3
|
13.2
|
1.0
|
FAC
|
I:3EG15
|
2.1
|
14.2
|
1.0
|
FAE
|
I:3EG15
|
2.1
|
14.0
|
1.0
|
CB
|
I:3EG15
|
2.3
|
12.1
|
1.0
|
HB
|
I:3EG15
|
2.5
|
14.5
|
1.0
|
HBA
|
I:3EG15
|
2.6
|
14.5
|
1.0
|
HB3
|
E:SER192
|
3.0
|
18.1
|
0.3
|
HB2
|
E:SER192
|
3.1
|
18.1
|
0.3
|
O
|
E:HOH537
|
3.1
|
20.3
|
1.0
|
OG
|
E:SER192
|
3.3
|
14.9
|
0.7
|
HG13
|
E:VAL211
|
3.3
|
15.8
|
1.0
|
HB2
|
E:SER192
|
3.4
|
17.5
|
0.7
|
HG12
|
E:VAL211
|
3.4
|
15.8
|
1.0
|
HA
|
E:CYS193
|
3.4
|
15.1
|
1.0
|
CB
|
E:SER192
|
3.5
|
15.1
|
0.3
|
HG11
|
E:VAL211
|
3.5
|
15.8
|
1.0
|
O
|
E:HOH431
|
3.5
|
20.4
|
1.0
|
C
|
E:SER192
|
3.6
|
14.3
|
1.0
|
N
|
E:CYS193
|
3.6
|
13.2
|
1.0
|
CG1
|
E:VAL211
|
3.6
|
13.2
|
1.0
|
O
|
E:HOH538
|
3.6
|
18.1
|
1.0
|
O
|
E:SER192
|
3.6
|
15.3
|
1.0
|
CA
|
I:3EG15
|
3.7
|
11.2
|
1.0
|
CB
|
E:SER192
|
3.8
|
14.6
|
0.7
|
HA
|
I:3EG15
|
3.8
|
13.5
|
1.0
|
CA
|
E:CYS193
|
3.8
|
12.6
|
1.0
|
O
|
E:CYS193
|
3.8
|
13.1
|
1.0
|
H
|
E:CYS193
|
3.9
|
15.9
|
1.0
|
C
|
E:CYS193
|
3.9
|
12.8
|
1.0
|
HG
|
E:SER192
|
4.0
|
17.9
|
0.7
|
HB2
|
E:ASP196
|
4.1
|
14.7
|
1.0
|
CA
|
E:SER192
|
4.2
|
14.4
|
0.3
|
CA
|
E:SER192
|
4.3
|
13.8
|
0.7
|
HA
|
E:TRP213
|
4.3
|
15.5
|
1.0
|
N
|
I:3EG15
|
4.4
|
11.8
|
1.0
|
H
|
I:3EG15
|
4.5
|
14.2
|
1.0
|
OG
|
E:SER192
|
4.6
|
15.0
|
0.3
|
HB3
|
E:SER192
|
4.7
|
17.5
|
0.7
|
C
|
E:TRP213
|
4.7
|
13.5
|
1.0
|
N
|
E:GLN194
|
4.7
|
13.2
|
1.0
|
C
|
I:3EG15
|
4.8
|
11.7
|
1.0
|
O
|
I:3EG15
|
4.8
|
11.9
|
1.0
|
O
|
I:HOH237
|
4.8
|
17.6
|
1.0
|
O
|
E:TRP213
|
4.8
|
14.5
|
1.0
|
HA
|
E:SER192
|
4.8
|
17.3
|
0.3
|
CA
|
E:TRP213
|
4.9
|
12.9
|
1.0
|
O
|
E:SER212
|
4.9
|
12.8
|
1.0
|
N
|
E:TRP213
|
4.9
|
12.9
|
1.0
|
HA
|
E:GLN194
|
4.9
|
15.4
|
1.0
|
HA
|
E:SER192
|
5.0
|
16.5
|
0.7
|
C
|
E:SER212
|
5.0
|
12.3
|
1.0
|
OG
|
E:SER197
|
5.0
|
12.2
|
1.0
|
H
|
E:SER212
|
5.0
|
15.2
|
1.0
|
|
Fluorine binding site 3 out
of 3 in 4y11
Go back to
Fluorine Binding Sites List in 4y11
Fluorine binding site 3 out
of 3 in the Trypsin in Complex with with Bpti Mutant (2S)-2-Amino-4,4,4- Trifluorobutanoic Acid
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 3 of Trypsin in Complex with with Bpti Mutant (2S)-2-Amino-4,4,4- Trifluorobutanoic Acid within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:F15
b:14.0
occ:1.00
|
FAE
|
I:3EG15
|
0.0
|
14.0
|
1.0
|
CG
|
I:3EG15
|
1.3
|
13.2
|
1.0
|
FAC
|
I:3EG15
|
2.1
|
14.2
|
1.0
|
FAD
|
I:3EG15
|
2.1
|
14.2
|
1.0
|
CB
|
I:3EG15
|
2.4
|
12.1
|
1.0
|
HA
|
I:3EG15
|
2.4
|
13.5
|
1.0
|
HB
|
I:3EG15
|
2.6
|
14.5
|
1.0
|
HA
|
E:CYS193
|
2.6
|
15.1
|
1.0
|
CA
|
I:3EG15
|
2.9
|
11.2
|
1.0
|
C
|
E:CYS193
|
3.1
|
12.8
|
1.0
|
HE22
|
E:GLN194
|
3.2
|
18.6
|
1.0
|
HBA
|
I:3EG15
|
3.2
|
14.5
|
1.0
|
O
|
E:HOH431
|
3.2
|
20.4
|
1.0
|
CA
|
E:CYS193
|
3.2
|
12.6
|
1.0
|
NE2
|
E:GLN194
|
3.3
|
15.5
|
1.0
|
N
|
E:GLN194
|
3.3
|
13.2
|
1.0
|
O
|
E:CYS193
|
3.4
|
13.1
|
1.0
|
HA
|
E:GLN194
|
3.5
|
15.4
|
1.0
|
HE21
|
E:GLN194
|
3.5
|
18.6
|
1.0
|
O
|
I:HOH237
|
3.5
|
17.6
|
1.0
|
H
|
E:GLN194
|
3.5
|
15.8
|
1.0
|
CD
|
E:GLN194
|
3.7
|
15.2
|
1.0
|
N
|
I:3EG15
|
3.7
|
11.8
|
1.0
|
N
|
E:CYS193
|
3.9
|
13.2
|
1.0
|
CA
|
E:GLN194
|
3.9
|
12.9
|
1.0
|
OE1
|
E:GLN194
|
4.0
|
16.4
|
1.0
|
C
|
I:3EG15
|
4.1
|
11.7
|
1.0
|
O
|
I:CYS14
|
4.1
|
12.5
|
1.0
|
O
|
E:SER192
|
4.1
|
15.3
|
1.0
|
C
|
I:CYS14
|
4.2
|
11.8
|
1.0
|
H
|
I:3EG15
|
4.2
|
14.2
|
1.0
|
C
|
E:SER192
|
4.3
|
14.3
|
1.0
|
O
|
I:3EG15
|
4.3
|
11.9
|
1.0
|
HG3
|
E:GLN194
|
4.3
|
17.8
|
1.0
|
H
|
E:CYS193
|
4.3
|
15.9
|
1.0
|
O
|
E:HOH537
|
4.4
|
20.3
|
1.0
|
CG
|
E:GLN194
|
4.4
|
14.9
|
1.0
|
SG
|
E:CYS217
|
4.5
|
19.9
|
1.0
|
CB
|
E:CYS193
|
4.5
|
15.4
|
1.0
|
O
|
I:PRO13
|
4.6
|
13.2
|
1.0
|
HB3
|
E:SER192
|
4.7
|
18.1
|
0.3
|
HA
|
E:TRP213
|
4.7
|
15.5
|
1.0
|
CB
|
E:GLN194
|
4.7
|
13.5
|
1.0
|
HB2
|
E:SER192
|
4.9
|
18.1
|
0.3
|
HB2
|
E:ASP196
|
4.9
|
14.7
|
1.0
|
SG
|
E:CYS193
|
5.0
|
17.7
|
1.0
|
HB2
|
E:SER192
|
5.0
|
17.5
|
0.7
|
|
Reference:
S.Ye,
B.Loll,
A.A.Berger,
U.Mulow,
C.Alings,
M.C.Wahl,
B.Koksch.
Fluorine Teams Up with Water to Restore Inhibitor Activity to Mutant Bpti. Chem Sci V. 6 5246 2015.
ISSN: ISSN 2041-6520
PubMed: 29449928
DOI: 10.1039/C4SC03227F
Page generated: Thu Aug 1 06:52:57 2024
|