Fluorine in PDB 4b6s: Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid
Enzymatic activity of Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid
All present enzymatic activity of Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid:
4.2.1.10;
Protein crystallography data
The structure of Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid, PDB code: 4b6s
was solved by
J.M.Otero,
A.L.Llamas-Saiz,
E.Lence,
L.Tizon,
A.Peon,
V.F.V.Prazeres,
H.Lamb,
A.R.Hawkins,
C.Gonzalez-Bello,
M.J.Van Raaij,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
58.65 /
1.90
|
Space group
|
P 42 2 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
100.190,
100.190,
104.580,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
22.6 /
27.8
|
Fluorine Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
15;
Binding sites:
The binding sites of Fluorine atom in the Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid
(pdb code 4b6s). This binding sites where shown within
5.0 Angstroms radius around Fluorine atom.
In total 15 binding sites of Fluorine where determined in the
Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid, PDB code: 4b6s:
Jump to Fluorine binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Fluorine binding site 1 out
of 15 in 4b6s
Go back to
Fluorine Binding Sites List in 4b6s
Fluorine binding site 1 out
of 15 in the Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 1 of Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F200
b:33.5
occ:1.00
|
FAK
|
A:2HN200
|
0.0
|
33.5
|
1.0
|
CAT
|
A:2HN200
|
1.3
|
31.6
|
1.0
|
CAR
|
A:2HN200
|
2.3
|
30.9
|
1.0
|
CAU
|
A:2HN200
|
2.4
|
30.2
|
1.0
|
FAI
|
A:2HN200
|
2.7
|
30.2
|
1.0
|
CAL
|
A:2HN200
|
2.9
|
26.0
|
1.0
|
CD1
|
A:LEU103
|
3.2
|
24.8
|
1.0
|
CD1
|
A:LEU11
|
3.4
|
24.5
|
1.0
|
CAX
|
A:2HN200
|
3.6
|
23.1
|
1.0
|
CAP
|
A:2HN200
|
3.6
|
32.7
|
1.0
|
CAS
|
A:2HN200
|
3.6
|
31.7
|
1.0
|
OAC
|
A:2HN200
|
4.0
|
20.4
|
1.0
|
CD1
|
A:TYR22
|
4.0
|
57.4
|
1.0
|
CD2
|
A:LEU14
|
4.0
|
28.9
|
1.0
|
CAQ
|
A:2HN200
|
4.1
|
32.9
|
1.0
|
CG
|
A:LEU103
|
4.2
|
22.2
|
1.0
|
CE1
|
A:TYR22
|
4.2
|
56.3
|
1.0
|
CG
|
A:TYR22
|
4.2
|
59.0
|
1.0
|
CAN
|
A:2HN200
|
4.2
|
18.1
|
1.0
|
CD2
|
A:LEU11
|
4.3
|
24.0
|
1.0
|
CG
|
A:LEU14
|
4.4
|
29.9
|
1.0
|
CG
|
A:LEU11
|
4.5
|
21.4
|
1.0
|
CZ
|
A:TYR22
|
4.6
|
55.4
|
1.0
|
CD2
|
A:TYR22
|
4.6
|
58.5
|
1.0
|
CAY
|
A:2HN200
|
4.6
|
20.8
|
1.0
|
CB
|
A:LEU103
|
4.6
|
21.7
|
1.0
|
CAO
|
A:2HN200
|
4.6
|
22.7
|
1.0
|
FAG
|
A:2HN200
|
4.7
|
31.0
|
1.0
|
OAA
|
A:2HN200
|
4.7
|
20.8
|
1.0
|
CE2
|
A:TYR22
|
4.7
|
57.3
|
1.0
|
FAJ
|
A:2HN200
|
4.8
|
34.8
|
1.0
|
CD1
|
A:LEU14
|
4.8
|
27.4
|
1.0
|
OAB
|
A:2HN200
|
4.8
|
27.4
|
1.0
|
CB
|
A:TYR22
|
4.8
|
60.1
|
1.0
|
CA
|
A:LEU11
|
4.9
|
22.4
|
1.0
|
|
Fluorine binding site 2 out
of 15 in 4b6s
Go back to
Fluorine Binding Sites List in 4b6s
Fluorine binding site 2 out
of 15 in the Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 2 of Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F200
b:30.2
occ:1.00
|
FAI
|
A:2HN200
|
0.0
|
30.2
|
1.0
|
CAR
|
A:2HN200
|
1.3
|
30.9
|
1.0
|
CAP
|
A:2HN200
|
2.3
|
32.7
|
1.0
|
CAT
|
A:2HN200
|
2.4
|
31.6
|
1.0
|
FAG
|
A:2HN200
|
2.7
|
31.0
|
1.0
|
FAK
|
A:2HN200
|
2.7
|
33.5
|
1.0
|
CG
|
A:LEU14
|
3.2
|
29.9
|
1.0
|
O
|
A:ASN10
|
3.3
|
24.1
|
1.0
|
CD2
|
A:LEU14
|
3.3
|
28.9
|
1.0
|
CAQ
|
A:2HN200
|
3.6
|
32.9
|
1.0
|
CAU
|
A:2HN200
|
3.6
|
30.2
|
1.0
|
N
|
A:LEU14
|
3.8
|
28.2
|
1.0
|
CA
|
A:LEU11
|
3.9
|
22.4
|
1.0
|
CA
|
A:LEU14
|
4.0
|
31.2
|
1.0
|
CAS
|
A:2HN200
|
4.0
|
31.7
|
1.0
|
C
|
A:ASN10
|
4.1
|
21.8
|
1.0
|
CB
|
A:LEU14
|
4.2
|
29.9
|
1.0
|
O
|
A:LEU11
|
4.2
|
23.4
|
1.0
|
CD1
|
A:LEU14
|
4.3
|
27.4
|
1.0
|
CD2
|
A:TYR22
|
4.3
|
58.5
|
1.0
|
CD1
|
A:LEU11
|
4.3
|
24.5
|
1.0
|
C
|
A:LEU11
|
4.4
|
23.7
|
1.0
|
C
|
A:MET13
|
4.4
|
26.6
|
1.0
|
N
|
A:LEU11
|
4.4
|
22.4
|
1.0
|
O
|
A:HOH2013
|
4.4
|
53.3
|
1.0
|
CG
|
A:TYR22
|
4.5
|
59.0
|
1.0
|
FAH
|
A:2HN200
|
4.6
|
36.9
|
1.0
|
CE2
|
A:TYR22
|
4.7
|
57.3
|
1.0
|
N
|
A:MET13
|
4.8
|
24.6
|
1.0
|
CD1
|
A:LEU103
|
4.9
|
24.8
|
1.0
|
CB
|
A:TYR22
|
4.9
|
60.1
|
1.0
|
CAL
|
A:2HN200
|
4.9
|
26.0
|
1.0
|
O
|
A:MET13
|
4.9
|
27.6
|
1.0
|
CA
|
A:MET13
|
5.0
|
25.3
|
1.0
|
O
|
A:HOH2012
|
5.0
|
25.6
|
1.0
|
CB
|
A:LEU11
|
5.0
|
23.4
|
1.0
|
|
Fluorine binding site 3 out
of 15 in 4b6s
Go back to
Fluorine Binding Sites List in 4b6s
Fluorine binding site 3 out
of 15 in the Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 3 of Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F200
b:31.0
occ:1.00
|
FAG
|
A:2HN200
|
0.0
|
31.0
|
1.0
|
CAP
|
A:2HN200
|
1.3
|
32.7
|
1.0
|
CAQ
|
A:2HN200
|
2.3
|
32.9
|
1.0
|
CAR
|
A:2HN200
|
2.4
|
30.9
|
1.0
|
FAH
|
A:2HN200
|
2.7
|
36.9
|
1.0
|
FAI
|
A:2HN200
|
2.7
|
30.2
|
1.0
|
O
|
A:ASN10
|
3.0
|
24.1
|
1.0
|
CD2
|
C:LEU93
|
3.1
|
25.8
|
1.0
|
O
|
A:HOH2013
|
3.3
|
53.3
|
1.0
|
CAS
|
A:2HN200
|
3.6
|
31.7
|
1.0
|
CAT
|
A:2HN200
|
3.6
|
31.6
|
1.0
|
CB
|
A:ASN10
|
3.7
|
21.2
|
1.0
|
C
|
A:ASN10
|
3.8
|
21.8
|
1.0
|
CB
|
A:MET13
|
3.9
|
25.2
|
1.0
|
CAU
|
A:2HN200
|
4.1
|
30.2
|
1.0
|
CA
|
A:ASN10
|
4.3
|
20.9
|
1.0
|
CE2
|
A:TYR22
|
4.4
|
57.3
|
1.0
|
C
|
A:MET13
|
4.5
|
26.6
|
1.0
|
CA
|
A:MET13
|
4.6
|
25.3
|
1.0
|
CD2
|
A:TYR22
|
4.6
|
58.5
|
1.0
|
CG
|
C:LEU93
|
4.6
|
26.8
|
1.0
|
FAJ
|
A:2HN200
|
4.6
|
34.8
|
1.0
|
N
|
A:LEU14
|
4.7
|
28.2
|
1.0
|
O
|
C:HOH2033
|
4.7
|
25.7
|
1.0
|
FAK
|
A:2HN200
|
4.7
|
33.5
|
1.0
|
O
|
A:MET13
|
4.7
|
27.6
|
1.0
|
CG
|
A:ASN10
|
4.7
|
20.9
|
1.0
|
CG
|
A:MET13
|
4.7
|
24.6
|
1.0
|
N
|
A:LEU11
|
4.8
|
22.4
|
1.0
|
N
|
A:MET13
|
4.9
|
24.6
|
1.0
|
|
Fluorine binding site 4 out
of 15 in 4b6s
Go back to
Fluorine Binding Sites List in 4b6s
Fluorine binding site 4 out
of 15 in the Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 4 of Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F200
b:36.9
occ:1.00
|
FAH
|
A:2HN200
|
0.0
|
36.9
|
1.0
|
CAQ
|
A:2HN200
|
1.3
|
32.9
|
1.0
|
CAP
|
A:2HN200
|
2.3
|
32.7
|
1.0
|
CAS
|
A:2HN200
|
2.4
|
31.7
|
1.0
|
FAJ
|
A:2HN200
|
2.7
|
34.8
|
1.0
|
FAG
|
A:2HN200
|
2.7
|
31.0
|
1.0
|
O
|
C:HOH2033
|
3.0
|
25.7
|
1.0
|
CAR
|
A:2HN200
|
3.6
|
30.9
|
1.0
|
CB
|
C:ASP89
|
3.6
|
17.9
|
1.0
|
O
|
A:HOH2017
|
3.6
|
33.3
|
1.0
|
CD2
|
C:LEU93
|
3.6
|
25.8
|
1.0
|
CAU
|
A:2HN200
|
3.7
|
30.2
|
1.0
|
CB
|
A:ASN10
|
3.7
|
21.2
|
1.0
|
CG
|
C:ASP89
|
4.1
|
23.1
|
1.0
|
O
|
C:ASP89
|
4.1
|
20.8
|
1.0
|
CAT
|
A:2HN200
|
4.1
|
31.6
|
1.0
|
CE2
|
A:TYR22
|
4.2
|
57.3
|
1.0
|
OH
|
A:TYR22
|
4.2
|
51.2
|
1.0
|
OD2
|
C:ASP89
|
4.3
|
25.4
|
1.0
|
CG
|
A:ASN10
|
4.3
|
20.9
|
1.0
|
C
|
C:ASP89
|
4.3
|
20.3
|
1.0
|
ND2
|
A:ASN10
|
4.4
|
19.9
|
1.0
|
CA
|
C:ASP89
|
4.4
|
19.6
|
1.0
|
CZ
|
A:TYR22
|
4.5
|
55.4
|
1.0
|
FAI
|
A:2HN200
|
4.6
|
30.2
|
1.0
|
O
|
A:HOH2013
|
4.7
|
53.3
|
1.0
|
OD1
|
C:ASP89
|
4.7
|
25.2
|
1.0
|
CG
|
C:LEU93
|
4.7
|
26.8
|
1.0
|
O
|
A:HOH2005
|
4.9
|
24.6
|
1.0
|
OAB
|
A:2HN200
|
4.9
|
27.4
|
1.0
|
O
|
A:ASN10
|
4.9
|
24.1
|
1.0
|
CAL
|
A:2HN200
|
5.0
|
26.0
|
1.0
|
|
Fluorine binding site 5 out
of 15 in 4b6s
Go back to
Fluorine Binding Sites List in 4b6s
Fluorine binding site 5 out
of 15 in the Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 5 of Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F200
b:34.8
occ:1.00
|
FAJ
|
A:2HN200
|
0.0
|
34.8
|
1.0
|
CAS
|
A:2HN200
|
1.3
|
31.7
|
1.0
|
CAQ
|
A:2HN200
|
2.3
|
32.9
|
1.0
|
CAU
|
A:2HN200
|
2.4
|
30.2
|
1.0
|
FAH
|
A:2HN200
|
2.7
|
36.9
|
1.0
|
OH
|
A:TYR22
|
2.9
|
51.2
|
1.0
|
CAL
|
A:2HN200
|
3.0
|
26.0
|
1.0
|
CAO
|
A:2HN200
|
3.1
|
22.7
|
1.0
|
OD2
|
C:ASP89
|
3.1
|
25.4
|
1.0
|
OAB
|
A:2HN200
|
3.2
|
27.4
|
1.0
|
CAW
|
A:2HN200
|
3.2
|
19.6
|
1.0
|
O
|
A:HOH2017
|
3.3
|
33.3
|
1.0
|
CG
|
C:ASP89
|
3.5
|
23.1
|
1.0
|
OAE
|
A:2HN200
|
3.5
|
24.5
|
1.0
|
CAP
|
A:2HN200
|
3.6
|
32.7
|
1.0
|
CZ
|
A:TYR22
|
3.6
|
55.4
|
1.0
|
CAT
|
A:2HN200
|
3.6
|
31.6
|
1.0
|
CAX
|
A:2HN200
|
3.6
|
23.1
|
1.0
|
OD1
|
C:ASP89
|
3.9
|
25.2
|
1.0
|
CAR
|
A:2HN200
|
4.0
|
30.9
|
1.0
|
CB
|
C:ASP89
|
4.1
|
17.9
|
1.0
|
CE2
|
A:TYR22
|
4.2
|
57.3
|
1.0
|
CE1
|
A:TYR22
|
4.4
|
56.3
|
1.0
|
NH1
|
A:ARG113
|
4.4
|
21.4
|
1.0
|
O
|
A:HOH2005
|
4.4
|
24.6
|
1.0
|
O
|
C:HOH2033
|
4.6
|
25.7
|
1.0
|
FAG
|
A:2HN200
|
4.6
|
31.0
|
1.0
|
CAV
|
A:2HN200
|
4.7
|
20.8
|
1.0
|
FAK
|
A:2HN200
|
4.8
|
33.5
|
1.0
|
CAY
|
A:2HN200
|
4.9
|
20.8
|
1.0
|
CAM
|
A:2HN200
|
4.9
|
21.4
|
1.0
|
CZ
|
A:ARG113
|
5.0
|
27.0
|
1.0
|
NH2
|
A:ARG113
|
5.0
|
27.9
|
1.0
|
|
Fluorine binding site 6 out
of 15 in 4b6s
Go back to
Fluorine Binding Sites List in 4b6s
Fluorine binding site 6 out
of 15 in the Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 6 of Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:F200
b:28.4
occ:1.00
|
FAK
|
B:2HN200
|
0.0
|
28.4
|
1.0
|
CAT
|
B:2HN200
|
1.3
|
29.1
|
1.0
|
CAR
|
B:2HN200
|
2.3
|
28.1
|
1.0
|
CAU
|
B:2HN200
|
2.4
|
27.8
|
1.0
|
FAI
|
B:2HN200
|
2.8
|
29.3
|
1.0
|
CAL
|
B:2HN200
|
2.8
|
24.9
|
1.0
|
CD1
|
B:LEU103
|
3.4
|
26.1
|
1.0
|
CD1
|
B:LEU11
|
3.4
|
23.3
|
1.0
|
CAX
|
B:2HN200
|
3.5
|
24.6
|
1.0
|
CAP
|
B:2HN200
|
3.6
|
28.7
|
1.0
|
CAS
|
B:2HN200
|
3.6
|
28.9
|
1.0
|
CD2
|
B:LEU14
|
3.8
|
26.5
|
1.0
|
CD1
|
B:TYR22
|
4.0
|
61.0
|
1.0
|
CAQ
|
B:2HN200
|
4.1
|
29.5
|
1.0
|
OAC
|
B:2HN200
|
4.1
|
20.8
|
1.0
|
CE1
|
B:TYR22
|
4.2
|
59.5
|
1.0
|
CG
|
B:LEU103
|
4.3
|
21.6
|
1.0
|
CAN
|
B:2HN200
|
4.3
|
19.0
|
1.0
|
CG
|
B:LEU14
|
4.3
|
27.2
|
1.0
|
CG
|
B:TYR22
|
4.3
|
62.5
|
1.0
|
CAY
|
B:2HN200
|
4.6
|
22.6
|
1.0
|
CG
|
B:LEU11
|
4.6
|
23.1
|
1.0
|
CD2
|
B:LEU11
|
4.6
|
23.0
|
1.0
|
CAO
|
B:2HN200
|
4.6
|
24.4
|
1.0
|
CZ
|
B:TYR22
|
4.6
|
58.2
|
1.0
|
FAG
|
B:2HN200
|
4.7
|
30.3
|
1.0
|
CB
|
B:LEU103
|
4.7
|
21.6
|
1.0
|
OAA
|
B:2HN200
|
4.7
|
21.3
|
1.0
|
CD2
|
B:TYR22
|
4.7
|
61.0
|
1.0
|
FAJ
|
B:2HN200
|
4.8
|
30.8
|
1.0
|
OAB
|
B:2HN200
|
4.8
|
26.9
|
1.0
|
CB
|
B:TYR22
|
4.8
|
63.4
|
1.0
|
CD1
|
B:LEU14
|
4.8
|
26.4
|
1.0
|
CA
|
B:LEU11
|
4.9
|
21.1
|
1.0
|
CE2
|
B:TYR22
|
4.9
|
59.9
|
1.0
|
|
Fluorine binding site 7 out
of 15 in 4b6s
Go back to
Fluorine Binding Sites List in 4b6s
Fluorine binding site 7 out
of 15 in the Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 7 of Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:F200
b:29.3
occ:1.00
|
FAI
|
B:2HN200
|
0.0
|
29.3
|
1.0
|
CAR
|
B:2HN200
|
1.3
|
28.1
|
1.0
|
CAP
|
B:2HN200
|
2.3
|
28.7
|
1.0
|
CAT
|
B:2HN200
|
2.4
|
29.1
|
1.0
|
FAG
|
B:2HN200
|
2.6
|
30.3
|
1.0
|
FAK
|
B:2HN200
|
2.8
|
28.4
|
1.0
|
O
|
B:ASN10
|
3.1
|
21.2
|
1.0
|
CD2
|
B:LEU14
|
3.1
|
26.5
|
1.0
|
CG
|
B:LEU14
|
3.2
|
27.2
|
1.0
|
CAQ
|
B:2HN200
|
3.6
|
29.5
|
1.0
|
N
|
B:LEU14
|
3.6
|
26.4
|
1.0
|
CAU
|
B:2HN200
|
3.7
|
27.8
|
1.0
|
CA
|
B:LEU14
|
3.8
|
28.8
|
1.0
|
CA
|
B:LEU11
|
3.9
|
21.1
|
1.0
|
O
|
B:HOH2007
|
4.0
|
47.2
|
1.0
|
C
|
B:ASN10
|
4.0
|
19.6
|
1.0
|
CB
|
B:LEU14
|
4.0
|
27.7
|
1.0
|
CAS
|
B:2HN200
|
4.1
|
28.9
|
1.0
|
O
|
B:LEU11
|
4.2
|
19.7
|
1.0
|
C
|
B:MET13
|
4.2
|
24.5
|
1.0
|
C
|
B:LEU11
|
4.4
|
20.8
|
1.0
|
CD1
|
B:LEU11
|
4.4
|
23.3
|
1.0
|
N
|
B:LEU11
|
4.4
|
20.3
|
1.0
|
CD1
|
B:LEU14
|
4.5
|
26.4
|
1.0
|
FAH
|
B:2HN200
|
4.6
|
31.2
|
1.0
|
CD2
|
B:TYR22
|
4.6
|
61.0
|
1.0
|
CG
|
B:TYR22
|
4.7
|
62.5
|
1.0
|
O
|
B:MET13
|
4.8
|
25.2
|
1.0
|
N
|
B:MET13
|
4.8
|
22.3
|
1.0
|
CA
|
B:MET13
|
4.9
|
23.3
|
1.0
|
CB
|
B:TYR22
|
4.9
|
63.4
|
1.0
|
CB
|
B:MET13
|
4.9
|
22.2
|
1.0
|
CAL
|
B:2HN200
|
5.0
|
24.9
|
1.0
|
O
|
B:HOH2006
|
5.0
|
26.1
|
1.0
|
|
Fluorine binding site 8 out
of 15 in 4b6s
Go back to
Fluorine Binding Sites List in 4b6s
Fluorine binding site 8 out
of 15 in the Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 8 of Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:F200
b:30.3
occ:1.00
|
FAG
|
B:2HN200
|
0.0
|
30.3
|
1.0
|
CAP
|
B:2HN200
|
1.3
|
28.7
|
1.0
|
CAR
|
B:2HN200
|
2.3
|
28.1
|
1.0
|
CAQ
|
B:2HN200
|
2.3
|
29.5
|
1.0
|
FAI
|
B:2HN200
|
2.6
|
29.3
|
1.0
|
FAH
|
B:2HN200
|
2.7
|
31.2
|
1.0
|
O
|
B:ASN10
|
2.8
|
21.2
|
1.0
|
CD2
|
A:LEU93
|
3.2
|
27.5
|
1.0
|
O
|
B:HOH2007
|
3.4
|
47.2
|
1.0
|
CAT
|
B:2HN200
|
3.6
|
29.1
|
1.0
|
CAS
|
B:2HN200
|
3.6
|
28.9
|
1.0
|
CB
|
B:ASN10
|
3.6
|
17.9
|
1.0
|
C
|
B:ASN10
|
3.7
|
19.6
|
1.0
|
CB
|
B:MET13
|
3.8
|
22.2
|
1.0
|
CAU
|
B:2HN200
|
4.1
|
27.8
|
1.0
|
CA
|
B:ASN10
|
4.2
|
18.3
|
1.0
|
C
|
B:MET13
|
4.4
|
24.5
|
1.0
|
CG
|
B:MET13
|
4.5
|
24.0
|
1.0
|
CA
|
B:MET13
|
4.6
|
23.3
|
1.0
|
N
|
B:LEU14
|
4.6
|
26.4
|
1.0
|
FAJ
|
B:2HN200
|
4.6
|
30.8
|
1.0
|
O
|
A:HOH2063
|
4.6
|
27.0
|
1.0
|
FAK
|
B:2HN200
|
4.7
|
28.4
|
1.0
|
O
|
B:MET13
|
4.7
|
25.2
|
1.0
|
CG
|
A:LEU93
|
4.7
|
24.0
|
1.0
|
CG
|
B:ASN10
|
4.7
|
20.5
|
1.0
|
N
|
B:LEU11
|
4.8
|
20.3
|
1.0
|
CD2
|
B:TYR22
|
4.8
|
61.0
|
1.0
|
CE2
|
B:TYR22
|
4.8
|
59.9
|
1.0
|
N
|
B:MET13
|
4.9
|
22.3
|
1.0
|
|
Fluorine binding site 9 out
of 15 in 4b6s
Go back to
Fluorine Binding Sites List in 4b6s
Fluorine binding site 9 out
of 15 in the Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 9 of Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:F200
b:31.2
occ:1.00
|
FAH
|
B:2HN200
|
0.0
|
31.2
|
1.0
|
CAQ
|
B:2HN200
|
1.3
|
29.5
|
1.0
|
CAP
|
B:2HN200
|
2.3
|
28.7
|
1.0
|
CAS
|
B:2HN200
|
2.4
|
28.9
|
1.0
|
FAJ
|
B:2HN200
|
2.6
|
30.8
|
1.0
|
FAG
|
B:2HN200
|
2.7
|
30.3
|
1.0
|
O
|
A:HOH2063
|
2.9
|
27.0
|
1.0
|
CAR
|
B:2HN200
|
3.6
|
28.1
|
1.0
|
CB
|
B:ASN10
|
3.6
|
17.9
|
1.0
|
CB
|
A:ASP89
|
3.6
|
17.6
|
1.0
|
CAU
|
B:2HN200
|
3.7
|
27.8
|
1.0
|
CD2
|
A:LEU93
|
3.7
|
27.5
|
1.0
|
O
|
A:HOH2064
|
3.8
|
37.5
|
1.0
|
CAT
|
B:2HN200
|
4.1
|
29.1
|
1.0
|
O
|
A:ASP89
|
4.1
|
18.4
|
1.0
|
CG
|
A:ASP89
|
4.1
|
22.4
|
1.0
|
CG
|
B:ASN10
|
4.2
|
20.5
|
1.0
|
CE2
|
B:TYR22
|
4.3
|
59.9
|
1.0
|
ND2
|
B:ASN10
|
4.3
|
20.6
|
1.0
|
C
|
A:ASP89
|
4.3
|
17.8
|
1.0
|
CA
|
A:ASP89
|
4.4
|
18.5
|
1.0
|
OD2
|
A:ASP89
|
4.4
|
26.4
|
1.0
|
O
|
B:ASN10
|
4.6
|
21.2
|
1.0
|
FAI
|
B:2HN200
|
4.6
|
29.3
|
1.0
|
OH
|
B:TYR22
|
4.6
|
55.1
|
1.0
|
O
|
A:HOH2066
|
4.7
|
21.4
|
1.0
|
CZ
|
B:TYR22
|
4.7
|
58.2
|
1.0
|
OD1
|
A:ASP89
|
4.8
|
23.3
|
1.0
|
CG
|
A:LEU93
|
4.8
|
24.0
|
1.0
|
OAB
|
B:2HN200
|
4.8
|
26.9
|
1.0
|
O
|
B:HOH2007
|
4.8
|
47.2
|
1.0
|
CA
|
B:ASN10
|
4.9
|
18.3
|
1.0
|
OD1
|
B:ASN10
|
5.0
|
21.2
|
1.0
|
CAL
|
B:2HN200
|
5.0
|
24.9
|
1.0
|
|
Fluorine binding site 10 out
of 15 in 4b6s
Go back to
Fluorine Binding Sites List in 4b6s
Fluorine binding site 10 out
of 15 in the Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 10 of Structure of Helicobacter Pylori Type II Dehydroquinase Inhibited By (2S)-2-Perfluorobenzyl-3-Dehydroquinic Acid within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:F200
b:30.8
occ:1.00
|
FAJ
|
B:2HN200
|
0.0
|
30.8
|
1.0
|
CAS
|
B:2HN200
|
1.3
|
28.9
|
1.0
|
CAQ
|
B:2HN200
|
2.3
|
29.5
|
1.0
|
CAU
|
B:2HN200
|
2.4
|
27.8
|
1.0
|
FAH
|
B:2HN200
|
2.6
|
31.2
|
1.0
|
OH
|
B:TYR22
|
3.0
|
55.1
|
1.0
|
CAL
|
B:2HN200
|
3.0
|
24.9
|
1.0
|
CAO
|
B:2HN200
|
3.1
|
24.4
|
1.0
|
OAB
|
B:2HN200
|
3.2
|
26.9
|
1.0
|
O
|
A:HOH2064
|
3.2
|
37.5
|
1.0
|
OD2
|
A:ASP89
|
3.2
|
26.4
|
1.0
|
CAW
|
B:2HN200
|
3.3
|
25.4
|
1.0
|
CG
|
A:ASP89
|
3.5
|
22.4
|
1.0
|
CAP
|
B:2HN200
|
3.6
|
28.7
|
1.0
|
CZ
|
B:TYR22
|
3.6
|
58.2
|
1.0
|
CAT
|
B:2HN200
|
3.6
|
29.1
|
1.0
|
CAX
|
B:2HN200
|
3.7
|
24.6
|
1.0
|
OAE
|
B:2HN200
|
3.7
|
27.0
|
1.0
|
OD1
|
A:ASP89
|
3.9
|
23.3
|
1.0
|
CB
|
A:ASP89
|
4.0
|
17.6
|
1.0
|
CE2
|
B:TYR22
|
4.1
|
59.9
|
1.0
|
CAR
|
B:2HN200
|
4.1
|
28.1
|
1.0
|
O
|
A:HOH2063
|
4.3
|
27.0
|
1.0
|
O
|
A:HOH2066
|
4.3
|
21.4
|
1.0
|
NH1
|
B:ARG113
|
4.4
|
21.2
|
1.0
|
CE1
|
B:TYR22
|
4.5
|
59.5
|
1.0
|
FAG
|
B:2HN200
|
4.6
|
30.3
|
1.0
|
CAV
|
B:2HN200
|
4.7
|
25.2
|
1.0
|
FAK
|
B:2HN200
|
4.8
|
28.4
|
1.0
|
CAY
|
B:2HN200
|
4.9
|
22.6
|
1.0
|
NH1
|
B:ARG109
|
4.9
|
30.4
|
1.0
|
CAM
|
B:2HN200
|
5.0
|
24.6
|
1.0
|
|
Reference:
E.Lence,
L.Tizon,
J.M.Otero,
A.Peon,
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ISSN: ESSN 1554-8937
PubMed: 23198883
DOI: 10.1021/CB300493S
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