Fluorine in PDB 4m8n: Crystal Structure of PLEXINC1/RAP1B Complex
Protein crystallography data
The structure of Crystal Structure of PLEXINC1/RAP1B Complex, PDB code: 4m8n
was solved by
H.G.Pascoe,
Y.Wang,
C.A.Brautigam,
H.He,
X.Zhang,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
41.05 /
3.29
|
|
Space group
|
P 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
76.276,
84.734,
138.752,
91.09,
95.15,
90.32
|
|
R / Rfree (%)
|
24.3 /
29.9
|
Other elements in 4m8n:
The structure of Crystal Structure of PLEXINC1/RAP1B Complex also contains other interesting chemical elements:
Fluorine Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
12;
Binding sites:
The binding sites of Fluorine atom in the Crystal Structure of PLEXINC1/RAP1B Complex
(pdb code 4m8n). This binding sites where shown within
5.0 Angstroms radius around Fluorine atom.
In total 12 binding sites of Fluorine where determined in the
Crystal Structure of PLEXINC1/RAP1B Complex, PDB code: 4m8n:
Jump to Fluorine binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Fluorine binding site 1 out
of 12 in 4m8n
Go back to
Fluorine Binding Sites List in 4m8n
Fluorine binding site 1 out
of 12 in the Crystal Structure of PLEXINC1/RAP1B Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Fluorine with other atoms in the F binding
site number 1 of Crystal Structure of PLEXINC1/RAP1B Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:F202
b:0.6
occ:1.00
|
F1
|
E:AF3202
|
0.0
|
0.6
|
1.0
|
|
AL
|
E:AF3202
|
1.6
|
89.2
|
1.0
|
|
O3B
|
E:GDP201
|
2.6
|
91.3
|
1.0
|
|
F2
|
E:AF3202
|
2.8
|
0.1
|
1.0
|
|
F3
|
E:AF3202
|
2.8
|
0.8
|
1.0
|
|
N
|
E:GLY60
|
2.9
|
0.4
|
1.0
|
|
NZ
|
E:LYS16
|
3.2
|
89.3
|
1.0
|
|
NE2
|
E:GLN63
|
3.3
|
86.3
|
1.0
|
|
CA
|
E:GLY60
|
3.3
|
0.9
|
1.0
|
|
O
|
E:SER11
|
3.4
|
0.2
|
1.0
|
|
CA
|
E:GLY12
|
3.5
|
0.1
|
1.0
|
|
C
|
E:ALA59
|
3.6
|
0.2
|
1.0
|
|
N
|
E:GLY13
|
3.6
|
0.2
|
1.0
|
|
PB
|
E:GDP201
|
3.9
|
0.8
|
1.0
|
|
CD
|
E:GLN63
|
4.0
|
84.3
|
1.0
|
|
MG
|
E:MG200
|
4.0
|
88.3
|
1.0
|
|
CA
|
E:ALA59
|
4.0
|
1.0
|
1.0
|
|
OE1
|
E:GLN63
|
4.0
|
82.9
|
1.0
|
|
CE
|
E:LYS16
|
4.1
|
88.6
|
1.0
|
|
C
|
E:GLY12
|
4.1
|
0.1
|
1.0
|
|
C
|
E:SER11
|
4.1
|
0.8
|
1.0
|
|
N
|
E:GLY12
|
4.2
|
0.4
|
1.0
|
|
O
|
E:ALA59
|
4.3
|
0.4
|
1.0
|
|
O1B
|
E:GDP201
|
4.3
|
94.2
|
1.0
|
|
O2B
|
E:GDP201
|
4.5
|
92.5
|
1.0
|
|
CB
|
E:ALA59
|
4.7
|
1.0
|
1.0
|
|
CA
|
E:GLY13
|
4.8
|
0.3
|
1.0
|
|
O
|
E:THR58
|
4.8
|
0.7
|
1.0
|
|
C
|
E:GLY60
|
4.8
|
0.3
|
1.0
|
|
O
|
E:THR35
|
4.8
|
1.0
|
1.0
|
|
Fluorine binding site 2 out
of 12 in 4m8n
Go back to
Fluorine Binding Sites List in 4m8n
Fluorine binding site 2 out
of 12 in the Crystal Structure of PLEXINC1/RAP1B Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Fluorine with other atoms in the F binding
site number 2 of Crystal Structure of PLEXINC1/RAP1B Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:F202
b:0.1
occ:1.00
|
F2
|
E:AF3202
|
0.0
|
0.1
|
1.0
|
|
AL
|
E:AF3202
|
1.6
|
89.2
|
1.0
|
|
MG
|
E:MG200
|
1.8
|
88.3
|
1.0
|
|
O3B
|
E:GDP201
|
2.6
|
91.3
|
1.0
|
|
N
|
E:THR35
|
2.8
|
0.2
|
1.0
|
|
F1
|
E:AF3202
|
2.8
|
0.6
|
1.0
|
|
F3
|
E:AF3202
|
2.8
|
0.8
|
1.0
|
|
CB
|
E:THR35
|
2.9
|
94.3
|
1.0
|
|
OG1
|
E:THR35
|
2.9
|
0.4
|
1.0
|
|
O2B
|
E:GDP201
|
2.9
|
92.5
|
1.0
|
|
CA
|
E:THR35
|
3.3
|
98.0
|
1.0
|
|
PB
|
E:GDP201
|
3.3
|
0.8
|
1.0
|
|
O
|
E:THR35
|
3.7
|
1.0
|
1.0
|
|
OG
|
E:SER17
|
3.7
|
0.9
|
1.0
|
|
C
|
E:PRO34
|
3.9
|
99.3
|
1.0
|
|
C
|
E:THR35
|
4.0
|
0.2
|
1.0
|
|
CA
|
E:PRO34
|
4.1
|
0.5
|
1.0
|
|
NH1
|
A:ARG711
|
4.2
|
0.8
|
1.0
|
|
CG2
|
E:THR35
|
4.2
|
88.2
|
1.0
|
|
O1B
|
E:GDP201
|
4.3
|
94.2
|
1.0
|
|
O
|
E:THR58
|
4.4
|
0.7
|
1.0
|
|
O
|
E:ASP33
|
4.4
|
0.3
|
1.0
|
|
O3A
|
E:GDP201
|
4.6
|
0.0
|
1.0
|
|
CA
|
E:ALA59
|
4.6
|
1.0
|
1.0
|
|
O2A
|
E:GDP201
|
4.7
|
0.2
|
1.0
|
|
NZ
|
E:LYS16
|
4.7
|
89.3
|
1.0
|
|
NE
|
A:ARG711
|
4.9
|
0.1
|
1.0
|
|
N
|
E:GLY60
|
4.9
|
0.4
|
1.0
|
|
CE
|
E:LYS16
|
5.0
|
88.6
|
1.0
|
|
CZ
|
A:ARG711
|
5.0
|
0.3
|
1.0
|
|
Fluorine binding site 3 out
of 12 in 4m8n
Go back to
Fluorine Binding Sites List in 4m8n
Fluorine binding site 3 out
of 12 in the Crystal Structure of PLEXINC1/RAP1B Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Fluorine with other atoms in the F binding
site number 3 of Crystal Structure of PLEXINC1/RAP1B Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:F202
b:0.8
occ:1.00
|
F3
|
E:AF3202
|
0.0
|
0.8
|
1.0
|
|
AL
|
E:AF3202
|
1.6
|
89.2
|
1.0
|
|
NE
|
A:ARG711
|
2.4
|
0.1
|
1.0
|
|
O3B
|
E:GDP201
|
2.7
|
91.3
|
1.0
|
|
F2
|
E:AF3202
|
2.8
|
0.1
|
1.0
|
|
F1
|
E:AF3202
|
2.8
|
0.6
|
1.0
|
|
CZ
|
A:ARG711
|
3.0
|
0.3
|
1.0
|
|
NH1
|
A:ARG711
|
3.1
|
0.8
|
1.0
|
|
CD
|
A:ARG711
|
3.3
|
0.5
|
1.0
|
|
CG
|
A:ARG711
|
3.4
|
0.4
|
1.0
|
|
NE2
|
E:GLN63
|
3.7
|
86.3
|
1.0
|
|
N
|
E:GLY13
|
3.7
|
0.2
|
1.0
|
|
CA
|
E:PRO34
|
3.7
|
0.5
|
1.0
|
|
PB
|
E:GDP201
|
4.0
|
0.8
|
1.0
|
|
N
|
E:THR35
|
4.2
|
0.2
|
1.0
|
|
CA
|
E:GLY13
|
4.2
|
0.3
|
1.0
|
|
NH2
|
A:ARG711
|
4.3
|
0.6
|
1.0
|
|
CB
|
E:PRO34
|
4.3
|
0.7
|
1.0
|
|
OE1
|
E:GLN63
|
4.4
|
82.9
|
1.0
|
|
C
|
E:GLY12
|
4.4
|
0.1
|
1.0
|
|
CA
|
E:GLY12
|
4.4
|
0.1
|
1.0
|
|
MG
|
E:MG200
|
4.5
|
88.3
|
1.0
|
|
CD
|
E:GLN63
|
4.5
|
84.3
|
1.0
|
|
O2B
|
E:GDP201
|
4.5
|
92.5
|
1.0
|
|
O3A
|
E:GDP201
|
4.5
|
0.0
|
1.0
|
|
C
|
E:PRO34
|
4.5
|
99.3
|
1.0
|
|
O2A
|
E:GDP201
|
4.5
|
0.2
|
1.0
|
|
N
|
E:PRO34
|
4.6
|
0.5
|
1.0
|
|
CB
|
A:ARG711
|
4.7
|
0.2
|
1.0
|
|
O
|
E:ASP33
|
4.8
|
0.3
|
1.0
|
|
CG
|
E:PRO34
|
4.8
|
0.9
|
1.0
|
|
Fluorine binding site 4 out
of 12 in 4m8n
Go back to
Fluorine Binding Sites List in 4m8n
Fluorine binding site 4 out
of 12 in the Crystal Structure of PLEXINC1/RAP1B Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Fluorine with other atoms in the F binding
site number 4 of Crystal Structure of PLEXINC1/RAP1B Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:F202
b:0.4
occ:1.00
|
F1
|
F:AF3202
|
0.0
|
0.4
|
1.0
|
|
AL
|
F:AF3202
|
1.6
|
91.3
|
1.0
|
|
O3B
|
F:GDP201
|
2.6
|
0.6
|
1.0
|
|
F3
|
F:AF3202
|
2.8
|
0.5
|
1.0
|
|
F2
|
F:AF3202
|
2.8
|
0.3
|
1.0
|
|
N
|
F:GLY60
|
2.9
|
0.3
|
1.0
|
|
CA
|
F:GLY60
|
3.1
|
0.2
|
1.0
|
|
NZ
|
F:LYS16
|
3.2
|
93.5
|
1.0
|
|
NE2
|
F:GLN63
|
3.5
|
99.0
|
1.0
|
|
C
|
F:ALA59
|
3.7
|
0.8
|
1.0
|
|
CA
|
F:GLY12
|
3.7
|
0.7
|
1.0
|
|
PB
|
F:GDP201
|
3.8
|
0.6
|
1.0
|
|
O1B
|
F:GDP201
|
3.8
|
0.6
|
1.0
|
|
O
|
F:SER11
|
3.8
|
0.1
|
1.0
|
|
N
|
F:GLY13
|
4.0
|
0.3
|
1.0
|
|
CE
|
F:LYS16
|
4.1
|
96.8
|
1.0
|
|
CD
|
F:GLN63
|
4.1
|
97.7
|
1.0
|
|
MG
|
F:MG200
|
4.2
|
88.4
|
1.0
|
|
O
|
F:ALA59
|
4.3
|
0.0
|
1.0
|
|
OE1
|
F:GLN63
|
4.3
|
94.5
|
1.0
|
|
CA
|
F:ALA59
|
4.3
|
0.1
|
1.0
|
|
C
|
F:SER11
|
4.3
|
0.8
|
1.0
|
|
C
|
F:GLY12
|
4.3
|
0.5
|
1.0
|
|
N
|
F:GLY12
|
4.4
|
0.3
|
1.0
|
|
O2B
|
F:GDP201
|
4.5
|
0.7
|
1.0
|
|
C
|
F:GLY60
|
4.6
|
0.1
|
1.0
|
|
O
|
F:THR58
|
4.9
|
0.3
|
1.0
|
|
O
|
F:THR35
|
4.9
|
0.3
|
1.0
|
|
O
|
F:GLY10
|
5.0
|
0.9
|
1.0
|
|
O3A
|
F:GDP201
|
5.0
|
0.4
|
1.0
|
|
Fluorine binding site 5 out
of 12 in 4m8n
Go back to
Fluorine Binding Sites List in 4m8n
Fluorine binding site 5 out
of 12 in the Crystal Structure of PLEXINC1/RAP1B Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Fluorine with other atoms in the F binding
site number 5 of Crystal Structure of PLEXINC1/RAP1B Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:F202
b:0.3
occ:1.00
|
F2
|
F:AF3202
|
0.0
|
0.3
|
1.0
|
|
AL
|
F:AF3202
|
1.6
|
91.3
|
1.0
|
|
MG
|
F:MG200
|
2.0
|
88.4
|
1.0
|
|
O3B
|
F:GDP201
|
2.6
|
0.6
|
1.0
|
|
CB
|
F:THR35
|
2.7
|
0.2
|
1.0
|
|
O2B
|
F:GDP201
|
2.8
|
0.7
|
1.0
|
|
F1
|
F:AF3202
|
2.8
|
0.4
|
1.0
|
|
OG1
|
F:THR35
|
2.8
|
0.5
|
1.0
|
|
F3
|
F:AF3202
|
2.8
|
0.5
|
1.0
|
|
N
|
F:THR35
|
2.9
|
0.8
|
1.0
|
|
PB
|
F:GDP201
|
3.1
|
0.6
|
1.0
|
|
CA
|
F:THR35
|
3.2
|
0.7
|
1.0
|
|
O
|
F:THR35
|
3.6
|
0.3
|
1.0
|
|
O1B
|
F:GDP201
|
3.6
|
0.6
|
1.0
|
|
NZ
|
F:LYS16
|
3.7
|
93.5
|
1.0
|
|
C
|
F:THR35
|
3.8
|
0.7
|
1.0
|
|
OG
|
F:SER17
|
3.9
|
0.3
|
1.0
|
|
O
|
F:THR58
|
4.0
|
0.3
|
1.0
|
|
CG2
|
F:THR35
|
4.0
|
99.2
|
1.0
|
|
C
|
F:PRO34
|
4.0
|
1.0
|
1.0
|
|
CA
|
F:PRO34
|
4.4
|
0.9
|
1.0
|
|
CA
|
F:ALA59
|
4.4
|
0.1
|
1.0
|
|
N
|
F:GLY60
|
4.5
|
0.3
|
1.0
|
|
O3A
|
F:GDP201
|
4.6
|
0.4
|
1.0
|
|
C
|
F:ALA59
|
4.7
|
0.8
|
1.0
|
|
O
|
F:ASP33
|
4.9
|
0.8
|
1.0
|
|
C
|
F:THR58
|
5.0
|
0.8
|
1.0
|
|
NH2
|
C:ARG711
|
5.0
|
0.4
|
1.0
|
|
Fluorine binding site 6 out
of 12 in 4m8n
Go back to
Fluorine Binding Sites List in 4m8n
Fluorine binding site 6 out
of 12 in the Crystal Structure of PLEXINC1/RAP1B Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Fluorine with other atoms in the F binding
site number 6 of Crystal Structure of PLEXINC1/RAP1B Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:F202
b:0.5
occ:1.00
|
F3
|
F:AF3202
|
0.0
|
0.5
|
1.0
|
|
AL
|
F:AF3202
|
1.6
|
91.3
|
1.0
|
|
O3B
|
F:GDP201
|
2.2
|
0.6
|
1.0
|
|
F1
|
F:AF3202
|
2.8
|
0.4
|
1.0
|
|
F2
|
F:AF3202
|
2.8
|
0.3
|
1.0
|
|
NE
|
C:ARG711
|
2.9
|
0.2
|
1.0
|
|
NH2
|
C:ARG711
|
3.1
|
0.4
|
1.0
|
|
CZ
|
C:ARG711
|
3.3
|
0.7
|
1.0
|
|
CA
|
F:PRO34
|
3.5
|
0.9
|
1.0
|
|
PB
|
F:GDP201
|
3.5
|
0.6
|
1.0
|
|
NE2
|
F:GLN63
|
3.7
|
99.0
|
1.0
|
|
N
|
F:THR35
|
3.8
|
0.8
|
1.0
|
|
O2B
|
F:GDP201
|
3.9
|
0.7
|
1.0
|
|
CD
|
C:ARG711
|
3.9
|
0.7
|
1.0
|
|
N
|
F:GLY13
|
4.0
|
0.3
|
1.0
|
|
CG
|
C:ARG711
|
4.1
|
0.3
|
1.0
|
|
CB
|
F:PRO34
|
4.1
|
0.7
|
1.0
|
|
C
|
F:PRO34
|
4.2
|
1.0
|
1.0
|
|
OE1
|
F:GLN63
|
4.3
|
94.5
|
1.0
|
|
O3A
|
F:GDP201
|
4.3
|
0.4
|
1.0
|
|
N
|
F:PRO34
|
4.4
|
0.3
|
1.0
|
|
MG
|
F:MG200
|
4.4
|
88.4
|
1.0
|
|
CD
|
F:GLN63
|
4.4
|
97.7
|
1.0
|
|
O1B
|
F:GDP201
|
4.6
|
0.6
|
1.0
|
|
NH1
|
C:ARG711
|
4.6
|
0.6
|
1.0
|
|
O
|
F:ASP33
|
4.6
|
0.8
|
1.0
|
|
CG
|
F:PRO34
|
4.7
|
0.3
|
1.0
|
|
CA
|
F:GLY13
|
4.7
|
0.3
|
1.0
|
|
O2A
|
F:GDP201
|
4.7
|
0.8
|
1.0
|
|
CA
|
F:GLY12
|
4.8
|
0.7
|
1.0
|
|
C
|
F:ASP33
|
4.9
|
0.2
|
1.0
|
|
CA
|
F:THR35
|
4.9
|
0.7
|
1.0
|
|
C
|
F:GLY12
|
4.9
|
0.5
|
1.0
|
|
O
|
F:THR35
|
5.0
|
0.3
|
1.0
|
|
OG1
|
F:THR35
|
5.0
|
0.5
|
1.0
|
|
Fluorine binding site 7 out
of 12 in 4m8n
Go back to
Fluorine Binding Sites List in 4m8n
Fluorine binding site 7 out
of 12 in the Crystal Structure of PLEXINC1/RAP1B Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Fluorine with other atoms in the F binding
site number 7 of Crystal Structure of PLEXINC1/RAP1B Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:F202
b:0.2
occ:1.00
|
F1
|
G:AF3202
|
0.0
|
0.2
|
1.0
|
|
AL
|
G:AF3202
|
1.6
|
97.5
|
1.0
|
|
N
|
G:GLY60
|
2.5
|
0.9
|
1.0
|
|
NE2
|
G:GLN63
|
2.8
|
98.9
|
1.0
|
|
F2
|
G:AF3202
|
2.8
|
87.5
|
1.0
|
|
F3
|
G:AF3202
|
2.8
|
91.9
|
1.0
|
|
CA
|
G:GLY60
|
2.9
|
0.1
|
1.0
|
|
O3B
|
G:GDP201
|
3.0
|
0.1
|
1.0
|
|
C
|
G:ALA59
|
3.1
|
0.9
|
1.0
|
|
CA
|
G:GLY12
|
3.5
|
0.9
|
1.0
|
|
CD
|
G:GLN63
|
3.5
|
95.5
|
1.0
|
|
NZ
|
G:LYS16
|
3.6
|
0.6
|
1.0
|
|
OE1
|
G:GLN63
|
3.6
|
93.8
|
1.0
|
|
CA
|
G:ALA59
|
3.7
|
0.0
|
1.0
|
|
O
|
G:ALA59
|
3.8
|
0.5
|
1.0
|
|
CE
|
G:LYS16
|
4.1
|
0.5
|
1.0
|
|
N
|
G:GLY12
|
4.2
|
0.9
|
1.0
|
|
O
|
G:SER11
|
4.2
|
0.8
|
1.0
|
|
PB
|
G:GDP201
|
4.2
|
0.5
|
1.0
|
|
N
|
G:GLY13
|
4.3
|
0.7
|
1.0
|
|
CB
|
G:ALA59
|
4.4
|
0.7
|
1.0
|
|
C
|
G:GLY60
|
4.4
|
0.4
|
1.0
|
|
C
|
G:GLY12
|
4.4
|
0.2
|
1.0
|
|
C
|
G:SER11
|
4.5
|
0.7
|
1.0
|
|
O1B
|
G:GDP201
|
4.5
|
0.9
|
1.0
|
|
MG
|
G:MG200
|
4.6
|
0.8
|
1.0
|
|
O
|
G:THR58
|
4.7
|
0.4
|
1.0
|
|
O
|
G:THR35
|
4.8
|
0.4
|
1.0
|
|
O2B
|
G:GDP201
|
4.8
|
0.1
|
1.0
|
|
CG
|
G:GLN63
|
4.8
|
95.4
|
1.0
|
|
N
|
G:ALA59
|
4.9
|
0.2
|
1.0
|
|
Fluorine binding site 8 out
of 12 in 4m8n
Go back to
Fluorine Binding Sites List in 4m8n
Fluorine binding site 8 out
of 12 in the Crystal Structure of PLEXINC1/RAP1B Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Fluorine with other atoms in the F binding
site number 8 of Crystal Structure of PLEXINC1/RAP1B Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:F202
b:87.5
occ:1.00
|
F2
|
G:AF3202
|
0.0
|
87.5
|
1.0
|
|
AL
|
G:AF3202
|
1.6
|
97.5
|
1.0
|
|
MG
|
G:MG200
|
1.9
|
0.8
|
1.0
|
|
O3B
|
G:GDP201
|
2.5
|
0.1
|
1.0
|
|
O2B
|
G:GDP201
|
2.7
|
0.1
|
1.0
|
|
F1
|
G:AF3202
|
2.8
|
0.2
|
1.0
|
|
F3
|
G:AF3202
|
2.8
|
91.9
|
1.0
|
|
CB
|
G:THR35
|
3.0
|
0.6
|
1.0
|
|
OG1
|
G:THR35
|
3.0
|
0.1
|
1.0
|
|
PB
|
G:GDP201
|
3.1
|
0.5
|
1.0
|
|
N
|
G:THR35
|
3.5
|
0.2
|
1.0
|
|
O
|
G:THR58
|
3.7
|
0.4
|
1.0
|
|
OG
|
G:SER17
|
3.8
|
0.4
|
1.0
|
|
CA
|
G:THR35
|
3.8
|
0.3
|
1.0
|
|
O1B
|
G:GDP201
|
3.8
|
0.9
|
1.0
|
|
O
|
G:THR35
|
4.0
|
0.4
|
1.0
|
|
CA
|
G:ALA59
|
4.2
|
0.0
|
1.0
|
|
CG2
|
G:THR35
|
4.2
|
0.9
|
1.0
|
|
CE
|
G:LYS16
|
4.2
|
0.5
|
1.0
|
|
C
|
G:THR35
|
4.3
|
0.4
|
1.0
|
|
C
|
G:ALA59
|
4.5
|
0.9
|
1.0
|
|
NZ
|
G:LYS16
|
4.5
|
0.6
|
1.0
|
|
O3A
|
G:GDP201
|
4.5
|
0.0
|
1.0
|
|
N
|
G:GLY60
|
4.6
|
0.9
|
1.0
|
|
NH2
|
B:ARG711
|
4.6
|
0.6
|
1.0
|
|
C
|
G:THR58
|
4.7
|
0.7
|
1.0
|
|
C
|
G:PRO34
|
4.7
|
1.0
|
1.0
|
|
O2A
|
G:GDP201
|
4.9
|
0.0
|
1.0
|
|
N
|
G:ALA59
|
4.9
|
0.2
|
1.0
|
|
CB
|
G:SER17
|
5.0
|
0.7
|
1.0
|
|
Fluorine binding site 9 out
of 12 in 4m8n
Go back to
Fluorine Binding Sites List in 4m8n
Fluorine binding site 9 out
of 12 in the Crystal Structure of PLEXINC1/RAP1B Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Fluorine with other atoms in the F binding
site number 9 of Crystal Structure of PLEXINC1/RAP1B Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:F202
b:91.9
occ:1.00
|
F3
|
G:AF3202
|
0.0
|
91.9
|
1.0
|
|
AL
|
G:AF3202
|
1.6
|
97.5
|
1.0
|
|
O3B
|
G:GDP201
|
2.1
|
0.1
|
1.0
|
|
NE
|
B:ARG711
|
2.7
|
0.7
|
1.0
|
|
F1
|
G:AF3202
|
2.8
|
0.2
|
1.0
|
|
F2
|
G:AF3202
|
2.8
|
87.5
|
1.0
|
|
NH2
|
B:ARG711
|
2.9
|
0.6
|
1.0
|
|
CZ
|
B:ARG711
|
3.1
|
0.7
|
1.0
|
|
PB
|
G:GDP201
|
3.4
|
0.5
|
1.0
|
|
NE2
|
G:GLN63
|
3.7
|
98.9
|
1.0
|
|
CD
|
B:ARG711
|
3.8
|
0.2
|
1.0
|
|
N
|
G:GLY13
|
3.8
|
0.7
|
1.0
|
|
O2B
|
G:GDP201
|
3.9
|
0.1
|
1.0
|
|
CG
|
B:ARG711
|
4.0
|
0.8
|
1.0
|
|
O3A
|
G:GDP201
|
4.1
|
0.0
|
1.0
|
|
N
|
G:THR35
|
4.1
|
0.2
|
1.0
|
|
CA
|
G:PRO34
|
4.1
|
0.3
|
1.0
|
|
NH1
|
B:ARG711
|
4.3
|
0.2
|
1.0
|
|
MG
|
G:MG200
|
4.3
|
0.8
|
1.0
|
|
CA
|
G:GLY12
|
4.4
|
0.9
|
1.0
|
|
OE1
|
G:GLN63
|
4.4
|
93.8
|
1.0
|
|
C
|
G:GLY12
|
4.5
|
0.2
|
1.0
|
|
CA
|
G:GLY13
|
4.5
|
0.8
|
1.0
|
|
CD
|
G:GLN63
|
4.5
|
95.5
|
1.0
|
|
O1B
|
G:GDP201
|
4.5
|
0.9
|
1.0
|
|
O2A
|
G:GDP201
|
4.6
|
0.0
|
1.0
|
|
CB
|
G:PRO34
|
4.6
|
0.3
|
1.0
|
|
C
|
G:PRO34
|
4.7
|
1.0
|
1.0
|
|
OG1
|
G:THR35
|
4.9
|
0.1
|
1.0
|
|
Fluorine binding site 10 out
of 12 in 4m8n
Go back to
Fluorine Binding Sites List in 4m8n
Fluorine binding site 10 out
of 12 in the Crystal Structure of PLEXINC1/RAP1B Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Fluorine with other atoms in the F binding
site number 10 of Crystal Structure of PLEXINC1/RAP1B Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
H:F202
b:0.6
occ:1.00
|
F1
|
H:AF3202
|
0.0
|
0.6
|
1.0
|
|
AL
|
H:AF3202
|
1.6
|
0.1
|
1.0
|
|
O3B
|
H:GDP201
|
2.7
|
0.9
|
1.0
|
|
N
|
H:GLY60
|
2.8
|
0.2
|
1.0
|
|
F3
|
H:AF3202
|
2.8
|
0.4
|
1.0
|
|
F2
|
H:AF3202
|
2.8
|
0.9
|
1.0
|
|
NE2
|
H:GLN63
|
3.2
|
0.4
|
1.0
|
|
CA
|
H:GLY60
|
3.2
|
0.3
|
1.0
|
|
C
|
H:ALA59
|
3.3
|
0.7
|
1.0
|
|
NZ
|
H:LYS16
|
3.4
|
0.9
|
1.0
|
|
CA
|
H:GLY12
|
3.5
|
0.0
|
1.0
|
|
N
|
H:GLY13
|
3.7
|
0.5
|
1.0
|
|
CD
|
H:GLN63
|
3.7
|
0.9
|
1.0
|
|
OE1
|
H:GLN63
|
3.9
|
0.7
|
1.0
|
|
CA
|
H:ALA59
|
3.9
|
0.7
|
1.0
|
|
O
|
H:ALA59
|
3.9
|
0.2
|
1.0
|
|
PB
|
H:GDP201
|
4.1
|
0.4
|
1.0
|
|
C
|
H:GLY12
|
4.2
|
0.4
|
1.0
|
|
O
|
H:SER11
|
4.2
|
0.2
|
1.0
|
|
CE
|
H:LYS16
|
4.3
|
0.3
|
1.0
|
|
N
|
H:GLY12
|
4.4
|
0.1
|
1.0
|
|
MG
|
H:MG200
|
4.5
|
0.1
|
1.0
|
|
C
|
H:SER11
|
4.6
|
0.9
|
1.0
|
|
O2B
|
H:GDP201
|
4.6
|
0.8
|
1.0
|
|
O
|
H:THR35
|
4.6
|
0.5
|
1.0
|
|
C
|
H:GLY60
|
4.7
|
0.8
|
1.0
|
|
O
|
H:THR58
|
4.7
|
0.9
|
1.0
|
|
O1B
|
H:GDP201
|
4.7
|
0.1
|
1.0
|
|
CB
|
H:ALA59
|
4.8
|
0.9
|
1.0
|
|
N
|
H:THR35
|
4.9
|
0.2
|
1.0
|
|
CA
|
H:GLY13
|
4.9
|
0.5
|
1.0
|
|
CG
|
H:GLN63
|
4.9
|
0.5
|
1.0
|
|
Reference:
Y.Wang,
H.G.Pascoe,
C.A.Brautigam,
H.He,
X.Zhang.
Structural Basis For Activation and Non-Canonical Catalysis of the Rap Gtpase Activating Protein Domain of Plexin. Elife V. 2 01279 2013.
ISSN: ESSN 2050-084X
PubMed: 24137545
DOI: 10.7554/ELIFE.01279
Page generated: Mon Jul 14 23:14:26 2025
|
