Atomistry » Fluorine » PDB 6aol-6b38 » 6ap1
Atomistry »
  Fluorine »
    PDB 6aol-6b38 »
      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: Thu Aug 1 17:42:41 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy