Fluorine in PDB 6eb7: Yycf Homologue (SP1227) Receiver Domain Activated By BEF3
Protein crystallography data
The structure of Yycf Homologue (SP1227) Receiver Domain Activated By BEF3, PDB code: 6eb7
was solved by
A.Riboldi-Tunnicliffe,
N.W.Issacs,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
29.21 /
1.58
|
Space group
|
C 2 2 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
74.563,
93.324,
37.456,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
19.5 /
21.6
|
Other elements in 6eb7:
The structure of Yycf Homologue (SP1227) Receiver Domain Activated By BEF3 also contains other interesting chemical elements:
Fluorine Binding Sites:
The binding sites of Fluorine atom in the Yycf Homologue (SP1227) Receiver Domain Activated By BEF3
(pdb code 6eb7). This binding sites where shown within
5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the
Yycf Homologue (SP1227) Receiver Domain Activated By BEF3, PDB code: 6eb7:
Jump to Fluorine binding site number:
1;
2;
3;
Fluorine binding site 1 out
of 3 in 6eb7
Go back to
Fluorine Binding Sites List in 6eb7
Fluorine binding site 1 out
of 3 in the Yycf Homologue (SP1227) Receiver Domain Activated By BEF3
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 1 of Yycf Homologue (SP1227) Receiver Domain Activated By BEF3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F201
b:24.8
occ:1.00
|
F1
|
A:BEF201
|
0.0
|
24.8
|
1.0
|
BE
|
A:BEF201
|
1.5
|
23.9
|
1.0
|
OD1
|
A:ASP52
|
2.5
|
22.7
|
1.0
|
F2
|
A:BEF201
|
2.5
|
24.5
|
1.0
|
F3
|
A:BEF201
|
2.5
|
25.0
|
1.0
|
NZ
|
A:LYS101
|
2.8
|
30.8
|
1.0
|
O
|
A:HOH368
|
2.9
|
42.6
|
1.0
|
N
|
A:ALA80
|
3.0
|
26.6
|
1.0
|
CA
|
A:SER79
|
3.4
|
20.9
|
1.0
|
CE
|
A:LYS101
|
3.4
|
28.4
|
1.0
|
OG
|
A:SER79
|
3.5
|
24.7
|
1.0
|
CG
|
A:ASP52
|
3.6
|
24.7
|
1.0
|
CD
|
A:LYS101
|
3.6
|
31.9
|
1.0
|
C
|
A:SER79
|
3.7
|
28.0
|
1.0
|
CB
|
A:SER79
|
3.9
|
22.3
|
1.0
|
O
|
A:HOH306
|
3.9
|
28.2
|
1.0
|
O
|
A:HOH392
|
3.9
|
50.2
|
1.0
|
CB
|
A:ALA80
|
3.9
|
29.1
|
1.0
|
CA
|
A:ALA80
|
4.1
|
30.2
|
1.0
|
OD2
|
A:ASP52
|
4.1
|
23.3
|
1.0
|
MN
|
A:MN202
|
4.2
|
27.6
|
1.0
|
O
|
A:LEU78
|
4.3
|
21.5
|
1.0
|
O
|
A:HOH349
|
4.5
|
50.9
|
1.0
|
N
|
A:SER79
|
4.6
|
17.9
|
1.0
|
CG
|
A:LYS101
|
4.6
|
30.4
|
1.0
|
CB
|
A:ASP52
|
4.8
|
20.4
|
1.0
|
C
|
A:LEU78
|
4.8
|
19.6
|
1.0
|
O
|
A:SER79
|
4.9
|
23.3
|
1.0
|
N
|
A:LEU53
|
4.9
|
22.6
|
1.0
|
N
|
A:LYS81
|
4.9
|
24.7
|
1.0
|
OD2
|
A:ASP8
|
5.0
|
23.7
|
1.0
|
N
|
A:MET54
|
5.0
|
26.9
|
1.0
|
|
Fluorine binding site 2 out
of 3 in 6eb7
Go back to
Fluorine Binding Sites List in 6eb7
Fluorine binding site 2 out
of 3 in the Yycf Homologue (SP1227) Receiver Domain Activated By BEF3
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 2 of Yycf Homologue (SP1227) Receiver Domain Activated By BEF3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F201
b:24.5
occ:1.00
|
F2
|
A:BEF201
|
0.0
|
24.5
|
1.0
|
BE
|
A:BEF201
|
1.6
|
23.9
|
1.0
|
MN
|
A:MN202
|
2.0
|
27.6
|
1.0
|
OD1
|
A:ASP52
|
2.4
|
22.7
|
1.0
|
F3
|
A:BEF201
|
2.5
|
25.0
|
1.0
|
F1
|
A:BEF201
|
2.5
|
24.8
|
1.0
|
OD2
|
A:ASP52
|
2.7
|
23.3
|
1.0
|
CG
|
A:ASP52
|
2.9
|
24.7
|
1.0
|
O
|
A:HOH306
|
3.0
|
28.2
|
1.0
|
O
|
A:MET54
|
3.0
|
30.4
|
1.0
|
CB
|
A:MET54
|
3.1
|
30.0
|
1.0
|
O
|
A:HOH347
|
3.3
|
42.9
|
1.0
|
N
|
A:MET54
|
3.4
|
26.9
|
1.0
|
O
|
A:HOH392
|
3.4
|
50.2
|
1.0
|
CA
|
A:MET54
|
3.6
|
28.7
|
1.0
|
O
|
A:HOH368
|
3.7
|
42.6
|
1.0
|
C
|
A:MET54
|
3.7
|
27.8
|
1.0
|
CG
|
A:MET54
|
3.8
|
39.5
|
1.0
|
NZ
|
A:LYS101
|
4.1
|
30.8
|
1.0
|
OD1
|
A:ASP9
|
4.2
|
24.6
|
1.0
|
N
|
A:LEU53
|
4.3
|
22.6
|
1.0
|
CB
|
A:ASP52
|
4.4
|
20.4
|
1.0
|
C
|
A:LEU53
|
4.5
|
26.0
|
1.0
|
SD
|
A:MET54
|
4.5
|
46.2
|
1.0
|
OE2
|
A:GLU10
|
4.7
|
37.5
|
1.0
|
OG
|
A:SER79
|
4.8
|
24.7
|
1.0
|
|
Fluorine binding site 3 out
of 3 in 6eb7
Go back to
Fluorine Binding Sites List in 6eb7
Fluorine binding site 3 out
of 3 in the Yycf Homologue (SP1227) Receiver Domain Activated By BEF3
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 3 of Yycf Homologue (SP1227) Receiver Domain Activated By BEF3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F201
b:25.0
occ:1.00
|
F3
|
A:BEF201
|
0.0
|
25.0
|
1.0
|
BE
|
A:BEF201
|
1.5
|
23.9
|
1.0
|
F2
|
A:BEF201
|
2.5
|
24.5
|
1.0
|
OD1
|
A:ASP52
|
2.5
|
22.7
|
1.0
|
F1
|
A:BEF201
|
2.5
|
24.8
|
1.0
|
OG
|
A:SER79
|
2.6
|
24.7
|
1.0
|
N
|
A:MET54
|
2.8
|
26.9
|
1.0
|
N
|
A:LEU53
|
3.0
|
22.6
|
1.0
|
CB
|
A:SER79
|
3.2
|
22.3
|
1.0
|
CG
|
A:ASP52
|
3.4
|
24.7
|
1.0
|
CA
|
A:LEU53
|
3.5
|
24.1
|
1.0
|
CB
|
A:LEU53
|
3.5
|
25.0
|
1.0
|
CG
|
A:MET54
|
3.6
|
39.5
|
1.0
|
C
|
A:LEU53
|
3.6
|
26.0
|
1.0
|
CB
|
A:MET54
|
3.7
|
30.0
|
1.0
|
CA
|
A:SER79
|
3.7
|
20.9
|
1.0
|
CA
|
A:MET54
|
3.8
|
28.7
|
1.0
|
OD2
|
A:ASP52
|
4.0
|
23.3
|
1.0
|
C
|
A:ASP52
|
4.1
|
21.0
|
1.0
|
N
|
A:ALA80
|
4.1
|
26.6
|
1.0
|
MN
|
A:MN202
|
4.3
|
27.6
|
1.0
|
CG
|
A:LEU53
|
4.3
|
27.3
|
1.0
|
CA
|
A:ASP52
|
4.4
|
19.6
|
1.0
|
CB
|
A:ASP52
|
4.5
|
20.4
|
1.0
|
C
|
A:SER79
|
4.5
|
28.0
|
1.0
|
O
|
A:MET54
|
4.5
|
30.4
|
1.0
|
O
|
A:LEU78
|
4.6
|
21.5
|
1.0
|
C
|
A:MET54
|
4.6
|
27.8
|
1.0
|
CG
|
A:LYS81
|
4.7
|
34.7
|
1.0
|
SD
|
A:MET54
|
4.7
|
46.2
|
1.0
|
O
|
A:HOH392
|
4.8
|
50.2
|
1.0
|
O
|
A:LEU53
|
4.8
|
26.8
|
1.0
|
NZ
|
A:LYS101
|
4.8
|
30.8
|
1.0
|
N
|
A:LYS81
|
4.9
|
24.7
|
1.0
|
CD1
|
A:LEU53
|
4.9
|
31.7
|
1.0
|
O
|
A:HOH368
|
4.9
|
42.6
|
1.0
|
N
|
A:SER79
|
5.0
|
17.9
|
1.0
|
|
Reference:
A.Riboldi-Tunnicliffe,
A.Riboldi-Tunnicliffe,
N.W.Issacs.
N/A N/A.
Page generated: Thu Aug 1 19:28:21 2024
|