Fluorine in PDB 7v5c: Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound)

Enzymatic activity of Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound)

All present enzymatic activity of Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound):
7.4.2.6;

Other elements in 7v5c:

The structure of Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound) also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound) (pdb code 7v5c). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 6 binding sites of Fluorine where determined in the Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound), PDB code: 7v5c:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6;

Fluorine binding site 1 out of 6 in 7v5c

Go back to Fluorine Binding Sites List in 7v5c
Fluorine binding site 1 out of 6 in the Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F802

b:87.2
occ:1.00
 F1 A:BEF802 0.0 87.2 1.0
BE A:BEF802 1.8 87.2 1.0
NZ A:LYS541 2.4 85.1 1.0
CE A:LYS541 2.8 85.1 1.0
F2 A:BEF802 3.0 87.2 1.0
F3 A:BEF802 3.1 87.2 1.0
NE2 A:HIS695 3.2 111.4 1.0
CE1 A:HIS695 3.3 111.4 1.0
O3B A:ADP801 3.4 79.9 1.0
CA A:SER537 3.9 95.8 1.0
OE2 A:GLU664 4.0 102.4 1.0
PB A:ADP801 4.2 79.9 1.0
CD A:LYS541 4.3 85.1 1.0
CD2 A:HIS695 4.3 111.4 1.0
O1B A:ADP801 4.4 79.9 1.0
O A:SER537 4.4 95.8 1.0
C A:SER537 4.4 95.8 1.0
ND1 A:HIS695 4.4 111.4 1.0
MG A:MG803 4.5 83.1 1.0
N A:SER537 4.5 95.8 1.0
NE2 A:GLN583 4.6 92.1 1.0
O2B A:ADP801 4.7 79.9 1.0
CB A:SER537 4.8 95.8 1.0
CB A:LYS541 4.9 85.1 1.0
CG A:HIS695 5.0 111.4 1.0

Fluorine binding site 2 out of 6 in 7v5c

Go back to Fluorine Binding Sites List in 7v5c
Fluorine binding site 2 out of 6 in the Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F802

b:87.2
occ:1.00
 F2 A:BEF802 0.0 87.2 1.0
BE A:BEF802 1.8 87.2 1.0
O3B A:ADP801 2.5 79.9 1.0
O A:SER537 2.6 95.8 1.0
O1B A:ADP801 2.7 79.9 1.0
PB A:ADP801 3.0 79.9 1.0
F1 A:BEF802 3.0 87.2 1.0
F3 A:BEF802 3.1 87.2 1.0
N B:GLY642 3.4 83.2 1.0
C A:SER537 3.4 95.8 1.0
CB B:SER640 3.5 79.0 1.0
OG B:SER640 3.7 79.0 1.0
O3A A:ADP801 3.9 79.9 1.0
N B:GLY641 3.9 80.3 1.0
CA A:SER537 3.9 95.8 1.0
CA B:GLY642 4.0 83.2 1.0
O2B A:ADP801 4.3 79.9 1.0
N A:GLY538 4.3 90.6 1.0
C B:GLY641 4.4 80.3 1.0
C B:SER640 4.5 79.0 1.0
CA B:SER640 4.5 79.0 1.0
CA B:GLY641 4.5 80.3 1.0
CA A:GLY538 4.6 90.6 1.0
CB A:SER537 4.6 95.8 1.0
MG A:MG803 4.7 83.1 1.0
NE2 A:GLN583 4.7 92.1 1.0
N B:GLN643 4.9 81.0 1.0
C B:GLY642 4.9 83.2 1.0

Fluorine binding site 3 out of 6 in 7v5c

Go back to Fluorine Binding Sites List in 7v5c
Fluorine binding site 3 out of 6 in the Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F802

b:87.2
occ:1.00
 F3 A:BEF802 0.0 87.2 1.0
BE A:BEF802 1.8 87.2 1.0
MG A:MG803 1.8 83.1 1.0
O1B A:ADP801 2.6 79.9 1.0
NE2 A:GLN583 2.7 92.1 1.0
OE1 A:GLN583 2.9 92.1 1.0
CD A:GLN583 3.0 92.1 1.0
F1 A:BEF802 3.1 87.2 1.0
F2 A:BEF802 3.1 87.2 1.0
PB A:ADP801 3.3 79.9 1.0
OG A:SER542 3.5 83.2 1.0
O2B A:ADP801 3.7 79.9 1.0
O3B A:ADP801 3.7 79.9 1.0
N B:GLY641 4.1 80.3 1.0
CA B:GLY641 4.4 80.3 1.0
CG A:GLN583 4.4 92.1 1.0
OE2 A:GLU664 4.6 102.4 1.0
CB A:SER542 4.6 83.2 1.0
OD1 A:ASP663 4.7 93.8 1.0
N B:GLY642 4.8 83.2 1.0
O3A A:ADP801 4.8 79.9 1.0
CE A:LYS541 4.8 85.1 1.0
C B:GLY641 5.0 80.3 1.0
NZ A:LYS541 5.0 85.1 1.0
N A:SER542 5.0 83.2 1.0

Fluorine binding site 4 out of 6 in 7v5c

Go back to Fluorine Binding Sites List in 7v5c
Fluorine binding site 4 out of 6 in the Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F802

b:88.4
occ:1.00
 F1 B:BEF802 0.0 88.4 1.0
BE B:BEF802 1.8 88.4 1.0
NZ B:LYS541 2.4 85.0 1.0
CE B:LYS541 2.8 85.0 1.0
OE1 B:GLU664 3.0 101.0 1.0
F2 B:BEF802 3.0 88.4 1.0
F3 B:BEF802 3.1 88.4 1.0
NE2 B:HIS695 3.3 109.3 1.0
CE1 B:HIS695 3.4 109.3 1.0
O3B B:ADP801 3.5 81.0 1.0
CA B:SER537 4.0 98.8 1.0
CD B:GLU664 4.0 101.0 1.0
PB B:ADP801 4.2 81.0 1.0
CD B:LYS541 4.3 85.0 1.0
OE2 B:GLU664 4.3 101.0 1.0
O1B B:ADP801 4.4 81.0 1.0
CD2 B:HIS695 4.4 109.3 1.0
MG B:MG803 4.5 87.7 1.0
O B:SER537 4.5 98.8 1.0
ND1 B:HIS695 4.5 109.3 1.0
C B:SER537 4.5 98.8 1.0
NE2 B:GLN583 4.6 91.8 1.0
N B:SER537 4.6 98.8 1.0
O2B B:ADP801 4.6 81.0 1.0
O A:LEU669 4.8 105.0 1.0
CB B:LYS541 4.8 85.0 1.0
CB B:SER537 4.9 98.8 1.0

Fluorine binding site 5 out of 6 in 7v5c

Go back to Fluorine Binding Sites List in 7v5c
Fluorine binding site 5 out of 6 in the Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F802

b:88.4
occ:1.00
 F2 B:BEF802 0.0 88.4 1.0
BE B:BEF802 1.8 88.4 1.0
O3B B:ADP801 2.5 81.0 1.0
O B:SER537 2.6 98.8 1.0
O1B B:ADP801 2.7 81.0 1.0
PB B:ADP801 3.0 81.0 1.0
F1 B:BEF802 3.0 88.4 1.0
F3 B:BEF802 3.1 88.4 1.0
C B:SER537 3.4 98.8 1.0
N A:GLY642 3.4 83.8 1.0
CB A:SER640 3.5 78.9 1.0
OG A:SER640 3.7 78.9 1.0
CA B:SER537 3.9 98.8 1.0
N A:GLY641 3.9 81.6 1.0
O3A B:ADP801 4.0 81.0 1.0
CA A:GLY642 4.0 83.8 1.0
O2B B:ADP801 4.3 81.0 1.0
N B:GLY538 4.3 91.4 1.0
C A:GLY641 4.3 81.6 1.0
C A:SER640 4.5 78.9 1.0
CA A:GLY641 4.5 81.6 1.0
CA A:SER640 4.5 78.9 1.0
CA B:GLY538 4.6 91.4 1.0
CB B:SER537 4.6 98.8 1.0
NE2 B:GLN583 4.7 91.8 1.0
MG B:MG803 4.8 87.7 1.0
C A:GLY642 4.9 83.8 1.0
N A:GLN643 4.9 80.8 1.0

Fluorine binding site 6 out of 6 in 7v5c

Go back to Fluorine Binding Sites List in 7v5c
Fluorine binding site 6 out of 6 in the Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of Cryo-Em Structure of the Mouse ABCB9 (Adp.BEF3-Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F802

b:88.4
occ:1.00
 F3 B:BEF802 0.0 88.4 1.0
BE B:BEF802 1.8 88.4 1.0
MG B:MG803 1.8 87.7 1.0
O1B B:ADP801 2.6 81.0 1.0
NE2 B:GLN583 2.7 91.8 1.0
OE1 B:GLN583 3.0 91.8 1.0
F1 B:BEF802 3.1 88.4 1.0
F2 B:BEF802 3.1 88.4 1.0
CD B:GLN583 3.1 91.8 1.0
PB B:ADP801 3.3 81.0 1.0
OG B:SER542 3.3 84.8 1.0
O2B B:ADP801 3.6 81.0 1.0
OE1 B:GLU664 3.6 101.0 1.0
O3B B:ADP801 3.7 81.0 1.0
N A:GLY641 4.1 81.6 1.0
CA A:GLY641 4.4 81.6 1.0
CG B:GLN583 4.5 91.8 1.0
CB B:SER542 4.5 84.8 1.0
O3A B:ADP801 4.7 81.0 1.0
CE B:LYS541 4.8 85.0 1.0
N A:GLY642 4.9 83.8 1.0
CD B:GLU664 4.9 101.0 1.0
N B:SER542 4.9 84.8 1.0
O1A B:ADP801 4.9 81.0 1.0
NZ B:LYS541 5.0 85.0 1.0

Reference:

J.G.Park, S.Kim, E.Jang, S.H.Choi, H.Han, S.Ju, J.W.Kim, D.S.Min, M.S.Jin. The Lysosomal Transporter Tapl Has A Dual Role As Peptide Translocator and Phosphatidylserine Floppase. Nat Commun V. 13 5851 2022.
ISSN: ESSN 2041-1723
PubMed: 36195619
DOI: 10.1038/S41467-022-33593-2
Page generated: Fri Aug 2 14:24:03 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy