Atomistry » Fluorine » PDB 6ap1-6b3c » 6ap1
Atomistry »
  Fluorine »
    PDB 6ap1-6b3c »
      6ap1 »

Fluorine in PDB 6ap1: VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P

Other elements in 6ap1:

The structure of VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P also contains other interesting chemical elements:

Magnesium (Mg) 4 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P (pdb code 6ap1). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 9 binding sites of Fluorine where determined in the VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P, PDB code: 6ap1:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Fluorine binding site 1 out of 9 in 6ap1

Go back to Fluorine Binding Sites List in 6ap1
Fluorine binding site 1 out of 9 in the VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F702

b:37.8
occ:1.00
 F1 A:BEF702 0.0 37.8 1.0
BE A:BEF702 1.5 37.8 1.0
MG A:MG703 2.0 37.8 1.0
O2B A:ADP701 2.5 37.8 1.0
O3B A:ADP701 2.6 37.8 1.0
F2 A:BEF702 2.6 37.8 1.0
F3 A:BEF702 2.6 37.8 1.0
PB A:ADP701 3.0 37.8 1.0
O1B A:ADP701 3.3 37.8 1.0
OG A:SER180 3.8 16.1 1.0
CE A:LYS179 4.0 12.8 1.0
OD1 A:ASN277 4.2 13.2 1.0
NZ A:LYS179 4.2 12.8 1.0
O3A A:ADP701 4.4 37.8 1.0
ND2 A:ASN277 4.5 13.2 1.0
CG A:ASN277 4.8 13.2 1.0
CB A:SER180 4.8 16.1 1.0
N A:GLY176 4.8 11.2 1.0
CB A:LYS179 4.8 12.8 1.0
N A:SER180 4.8 16.1 1.0
O2A A:ADP701 4.9 37.8 1.0
OE2 A:GLU233 4.9 20.6 1.0

Fluorine binding site 2 out of 9 in 6ap1

Go back to Fluorine Binding Sites List in 6ap1
Fluorine binding site 2 out of 9 in the VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F702

b:37.8
occ:1.00
 F2 A:BEF702 0.0 37.8 1.0
BE A:BEF702 1.5 37.8 1.0
O1B A:ADP701 2.2 37.8 1.0
O3B A:ADP701 2.4 37.8 1.0
NZ A:LYS179 2.4 12.8 1.0
F3 A:BEF702 2.6 37.8 1.0
F1 A:BEF702 2.6 37.8 1.0
N A:GLY176 2.8 11.2 1.0
PB A:ADP701 2.9 37.8 1.0
CE A:LYS179 3.1 12.8 1.0
O A:PRO174 3.5 12.3 1.0
OD1 A:ASN277 3.6 13.2 1.0
O2B A:ADP701 3.6 37.8 1.0
CA A:PRO175 3.6 9.6 1.0
C A:PRO175 3.7 9.6 1.0
CA A:GLY176 3.7 11.2 1.0
N A:THR177 3.8 10.8 1.0
O3A A:ADP701 4.2 37.8 1.0
C A:GLY176 4.2 11.2 1.0
CD A:LYS179 4.3 12.8 1.0
MG A:MG703 4.3 37.8 1.0
CG A:LYS179 4.4 12.8 1.0
C A:PRO174 4.4 12.3 1.0
CG A:ASN277 4.5 13.2 1.0
N A:PRO175 4.5 9.6 1.0
CB A:LYS179 4.6 12.8 1.0
OG1 A:THR177 4.6 10.8 1.0
ND2 A:ASN277 4.7 13.2 1.0
CB A:PRO175 4.7 9.6 1.0
N A:GLY178 4.8 15.5 1.0
N A:LYS179 4.8 12.8 1.0
O A:PRO175 4.8 9.6 1.0
CA A:THR177 5.0 10.8 1.0

Fluorine binding site 3 out of 9 in 6ap1

Go back to Fluorine Binding Sites List in 6ap1
Fluorine binding site 3 out of 9 in the VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F702

b:37.8
occ:1.00
 F3 A:BEF702 0.0 37.8 1.0
BE A:BEF702 1.5 37.8 1.0
O3B A:ADP701 2.4 37.8 1.0
F2 A:BEF702 2.6 37.8 1.0
F1 A:BEF702 2.6 37.8 1.0
N A:GLY176 3.0 11.2 1.0
NE B:ARG288 3.3 27.4 1.0
CA A:PRO175 3.5 9.6 1.0
C A:PRO175 3.7 9.6 1.0
CA A:GLY176 3.8 11.2 1.0
PB A:ADP701 3.8 37.8 1.0
CB A:PRO175 3.8 9.6 1.0
CD B:ARG288 3.9 27.4 1.0
CZ B:ARG288 3.9 27.4 1.0
ND2 A:ASN277 4.0 13.2 1.0
NH2 B:ARG288 4.0 27.4 1.0
NH1 B:ARG289 4.0 27.4 1.0
O1B A:ADP701 4.1 37.8 1.0
OD1 A:ASN277 4.1 13.2 1.0
MG A:MG703 4.2 37.8 1.0
O2B A:ADP701 4.2 37.8 1.0
CG A:ASN277 4.4 13.2 1.0
O A:PRO175 4.7 9.6 1.0
NZ A:LYS179 4.8 12.8 1.0
O3A A:ADP701 4.8 37.8 1.0
NH1 B:ARG288 4.9 27.4 1.0
N A:PRO175 4.9 9.6 1.0
CG A:PRO175 4.9 9.6 1.0
CZ B:ARG289 4.9 27.4 1.0
NH2 B:ARG289 5.0 27.4 1.0

Fluorine binding site 4 out of 9 in 6ap1

Go back to Fluorine Binding Sites List in 6ap1
Fluorine binding site 4 out of 9 in the VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F702

b:19.7
occ:1.00
 F1 B:BEF702 0.0 19.7 1.0
BE B:BEF702 1.5 19.7 1.0
MG B:MG703 2.0 19.7 1.0
O2B B:ADP701 2.1 19.7 1.0
O1B B:ADP701 2.5 19.7 1.0
F2 B:BEF702 2.6 19.7 1.0
PB B:ADP701 2.6 19.7 1.0
F3 B:BEF702 2.6 19.7 1.0
O3B B:ADP701 2.8 19.7 1.0
OG B:SER180 3.4 20.8 1.0
CE B:LYS179 3.9 19.7 1.0
O3A B:ADP701 4.1 19.7 1.0
NZ B:LYS179 4.2 19.7 1.0
CB B:SER180 4.4 20.8 1.0
N B:SER180 4.5 20.8 1.0
CB B:LYS179 4.5 19.7 1.0
OD1 B:ASN277 4.8 24.5 1.0
O1A B:ADP701 4.8 19.7 1.0
PA B:ADP701 4.9 19.7 1.0

Fluorine binding site 5 out of 9 in 6ap1

Go back to Fluorine Binding Sites List in 6ap1
Fluorine binding site 5 out of 9 in the VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F702

b:19.7
occ:1.00
 F2 B:BEF702 0.0 19.7 1.0
BE B:BEF702 1.5 19.7 1.0
O3B B:ADP701 2.2 19.7 1.0
O1B B:ADP701 2.3 19.7 1.0
F1 B:BEF702 2.6 19.7 1.0
NZ B:LYS179 2.6 19.7 1.0
F3 B:BEF702 2.6 19.7 1.0
N B:GLY176 2.8 23.1 1.0
PB B:ADP701 2.9 19.7 1.0
CE B:LYS179 3.2 19.7 1.0
CA B:PRO175 3.5 18.3 1.0
O B:PRO174 3.6 21.5 1.0
C B:PRO175 3.6 18.3 1.0
O2B B:ADP701 3.7 19.7 1.0
CA B:GLY176 3.7 23.1 1.0
OD1 B:ASN277 3.9 24.5 1.0
N B:THR177 4.1 23.8 1.0
O3A B:ADP701 4.1 19.7 1.0
C B:GLY176 4.4 23.1 1.0
C B:PRO174 4.4 21.5 1.0
N B:PRO175 4.5 18.3 1.0
CD B:LYS179 4.5 19.7 1.0
MG B:MG703 4.5 19.7 1.0
CB B:PRO175 4.6 18.3 1.0
CG B:LYS179 4.6 19.7 1.0
CG B:ASN277 4.8 24.5 1.0
CB B:LYS179 4.8 19.7 1.0
O B:PRO175 4.8 18.3 1.0
OG1 B:THR177 4.9 23.8 1.0
ND2 B:ASN277 4.9 24.5 1.0

Fluorine binding site 6 out of 9 in 6ap1

Go back to Fluorine Binding Sites List in 6ap1
Fluorine binding site 6 out of 9 in the VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F702

b:19.7
occ:1.00
 F3 B:BEF702 0.0 19.7 1.0
BE B:BEF702 1.5 19.7 1.0
O1B B:ADP701 2.4 19.7 1.0
F1 B:BEF702 2.6 19.7 1.0
F2 B:BEF702 2.6 19.7 1.0
NE C:ARG288 3.6 18.5 1.0
NH1 C:ARG289 3.7 19.1 1.0
PB B:ADP701 3.7 19.7 1.0
MG B:MG703 3.8 19.7 1.0
N B:GLY176 3.8 23.1 1.0
O2B B:ADP701 4.0 19.7 1.0
O3B B:ADP701 4.0 19.7 1.0
NH2 C:ARG288 4.1 18.5 1.0
CA B:PRO175 4.1 18.3 1.0
ND2 B:ASN277 4.2 24.5 1.0
CZ C:ARG288 4.2 18.5 1.0
NH2 C:ARG289 4.3 19.1 1.0
CB B:PRO175 4.3 18.3 1.0
CZ C:ARG289 4.4 19.1 1.0
CD C:ARG288 4.4 18.5 1.0
C B:PRO175 4.4 18.3 1.0
OD1 B:ASN277 4.5 24.5 1.0
CA B:GLY176 4.6 23.1 1.0
CG B:ASN277 4.8 24.5 1.0
O3A B:ADP701 4.8 19.7 1.0
CB C:ALA285 4.9 20.8 1.0
NZ B:LYS179 5.0 19.7 1.0

Fluorine binding site 7 out of 9 in 6ap1

Go back to Fluorine Binding Sites List in 6ap1
Fluorine binding site 7 out of 9 in the VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 7 of VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F702

b:17.2
occ:1.00
 F1 C:BEF702 0.0 17.2 1.0
BE C:BEF702 1.5 17.2 1.0
MG C:MG703 2.0 17.2 1.0
O2B C:ADP701 2.4 17.2 1.0
F3 C:BEF702 2.5 17.2 1.0
O1B C:ADP701 2.6 17.2 1.0
F2 C:BEF702 2.6 17.2 1.0
PB C:ADP701 2.8 17.2 1.0
O3B C:ADP701 2.8 17.2 1.0
OG C:SER180 3.5 20.1 1.0
CE C:LYS179 4.0 18.0 1.0
NZ C:LYS179 4.2 18.0 1.0
O3A C:ADP701 4.3 17.2 1.0
CB C:SER180 4.6 20.1 1.0
N C:SER180 4.6 20.1 1.0
O1A C:ADP701 4.6 17.2 1.0
CB C:LYS179 4.6 18.0 1.0
OE2 C:GLU233 4.8 25.5 1.0
OD1 C:ASN277 4.9 20.6 1.0
NH2 D:ARG289 4.9 18.8 1.0

Fluorine binding site 8 out of 9 in 6ap1

Go back to Fluorine Binding Sites List in 6ap1
Fluorine binding site 8 out of 9 in the VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 8 of VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F702

b:17.2
occ:1.00
 F2 C:BEF702 0.0 17.2 1.0
BE C:BEF702 1.5 17.2 1.0
O3B C:ADP701 2.1 17.2 1.0
O1B C:ADP701 2.3 17.2 1.0
NZ C:LYS179 2.5 18.0 1.0
F1 C:BEF702 2.6 17.2 1.0
F3 C:BEF702 2.6 17.2 1.0
N C:GLY176 2.9 21.3 1.0
PB C:ADP701 2.9 17.2 1.0
CE C:LYS179 3.2 18.0 1.0
CA C:GLY176 3.7 21.3 1.0
O C:PRO174 3.7 20.6 1.0
O2B C:ADP701 3.7 17.2 1.0
CA C:PRO175 3.8 20.2 1.0
C C:PRO175 3.8 20.2 1.0
N C:THR177 3.9 18.8 1.0
O3A C:ADP701 4.0 17.2 1.0
C C:GLY176 4.3 21.3 1.0
OD1 C:ASN277 4.3 20.6 1.0
CD C:LYS179 4.4 18.0 1.0
CG C:LYS179 4.4 18.0 1.0
MG C:MG703 4.4 17.2 1.0
CB C:LYS179 4.5 18.0 1.0
C C:PRO174 4.6 20.6 1.0
N C:PRO175 4.7 20.2 1.0
OG1 C:THR177 4.7 18.8 1.0
N C:LYS179 4.7 18.0 1.0
N C:GLY178 4.8 20.6 1.0
CB C:PRO175 4.8 20.2 1.0
O C:PRO175 4.9 20.2 1.0

Fluorine binding site 9 out of 9 in 6ap1

Go back to Fluorine Binding Sites List in 6ap1
Fluorine binding site 9 out of 9 in the VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 9 of VPS4P-VTA1P Complex with Peptide Binding to the Central Pore of VPS4P within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F702

b:17.2
occ:1.00
 F3 C:BEF702 0.0 17.2 1.0
BE C:BEF702 1.5 17.2 1.0
O1B C:ADP701 2.4 17.2 1.0
F1 C:BEF702 2.5 17.2 1.0
F2 C:BEF702 2.6 17.2 1.0
NE D:ARG288 3.5 15.5 1.0
N C:GLY176 3.5 21.3 1.0
NH1 D:ARG289 3.6 18.8 1.0
PB C:ADP701 3.8 17.2 1.0
NH2 D:ARG288 3.8 15.5 1.0
CA C:PRO175 3.9 20.2 1.0
CZ D:ARG288 3.9 15.5 1.0
MG C:MG703 4.0 17.2 1.0
O3B C:ADP701 4.0 17.2 1.0
O2B C:ADP701 4.0 17.2 1.0
C C:PRO175 4.1 20.2 1.0
CB C:PRO175 4.1 20.2 1.0
CA C:GLY176 4.3 21.3 1.0
NH2 D:ARG289 4.3 18.8 1.0
CD D:ARG288 4.3 15.5 1.0
CZ D:ARG289 4.3 18.8 1.0
ND2 C:ASN277 4.6 20.6 1.0
OD1 C:ASN277 4.7 20.6 1.0
NZ C:LYS179 4.8 18.0 1.0
O1A C:ADP701 4.8 17.2 1.0
O3A C:ADP701 4.9 17.2 1.0

Reference:

H.Han, N.Monroe, W.I.Sundquist, P.S.Shen, C.P.Hill. The Aaa Atpase VPS4 Binds Escrt-III Substrates Through A Repeating Array of Dipeptide-Binding Pockets. Elife V. 6 2017.
ISSN: ESSN 2050-084X
PubMed: 29165244
DOI: 10.7554/ELIFE.31324
Page generated: Tue Jul 15 09:45:21 2025

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy