Atomistry » Fluorine » PDB 3ccw-3d39 » 3cf1
Atomistry »
  Fluorine »
    PDB 3ccw-3d39 »
      3cf1 »

Fluorine in PDB 3cf1: Structure of P97/Vcp in Complex with Adp/Adp.Alfx

Protein crystallography data

The structure of Structure of P97/Vcp in Complex with Adp/Adp.Alfx, PDB code: 3cf1 was solved by J.M.Davies, B.Delabarre, A.T.Brunger, W.I.Weis, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.87 / 4.40
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 162.660, 178.020, 321.140, 90.00, 90.00, 90.00
R / Rfree (%) 22.9 / 28.6

Other elements in 3cf1:

The structure of Structure of P97/Vcp in Complex with Adp/Adp.Alfx also contains other interesting chemical elements:

Aluminium (Al) 3 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Structure of P97/Vcp in Complex with Adp/Adp.Alfx (pdb code 3cf1). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 9 binding sites of Fluorine where determined in the Structure of P97/Vcp in Complex with Adp/Adp.Alfx, PDB code: 3cf1:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Fluorine binding site 1 out of 9 in 3cf1

Go back to Fluorine Binding Sites List in 3cf1
Fluorine binding site 1 out of 9 in the Structure of P97/Vcp in Complex with Adp/Adp.Alfx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Structure of P97/Vcp in Complex with Adp/Adp.Alfx within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F915

b:0.3
occ:0.94
 F1 A:AF3915 0.0 0.3 0.9
AL A:AF3915 1.9 0.3 0.9
O3B A:ADP900 2.2 0.3 1.0
O2B A:ADP900 2.5 0.3 1.0
PB A:ADP900 2.7 0.3 1.0
N A:GLY521 2.9 0.3 1.0
CA A:PRO520 3.2 0.1 1.0
F3 A:AF3915 3.2 0.3 0.9
F2 A:AF3915 3.2 0.3 0.9
O3A A:ADP900 3.3 0.3 1.0
C A:PRO520 3.4 0.1 1.0
CB A:PRO520 3.8 0.5 1.0
CA A:GLY521 3.9 0.3 1.0
N A:CYS522 4.1 0.4 1.0
O1B A:ADP900 4.1 0.3 1.0
N A:PRO520 4.4 0.1 1.0
C A:GLY521 4.6 0.3 1.0
O A:PRO520 4.6 0.1 1.0
CG A:PRO520 4.7 0.5 1.0
O A:PRO519 4.7 0.5 1.0
PA A:ADP900 4.7 0.3 1.0
O2A A:ADP900 4.9 0.3 1.0
N A:GLY523 5.0 0.5 1.0

Fluorine binding site 2 out of 9 in 3cf1

Go back to Fluorine Binding Sites List in 3cf1
Fluorine binding site 2 out of 9 in the Structure of P97/Vcp in Complex with Adp/Adp.Alfx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Structure of P97/Vcp in Complex with Adp/Adp.Alfx within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F915

b:0.3
occ:0.94
 F2 A:AF3915 0.0 0.3 0.9
AL A:AF3915 1.9 0.3 0.9
O3B A:ADP900 2.5 0.3 1.0
CB A:LYS524 2.9 0.5 1.0
O2B A:ADP900 3.0 0.3 1.0
PB A:ADP900 3.0 0.3 1.0
O1B A:ADP900 3.2 0.3 1.0
F3 A:AF3915 3.2 0.3 0.9
F1 A:AF3915 3.2 0.3 0.9
N A:THR525 3.6 0.8 1.0
CG A:LYS524 3.6 0.5 1.0
OG1 A:THR525 3.7 0.7 1.0
CD A:LYS524 3.7 0.5 1.0
N A:LYS524 3.7 0.1 1.0
CA A:LYS524 3.8 0.1 1.0
CB A:ALA622 3.9 1.0 1.0
C A:LYS524 4.1 0.1 1.0
OD1 A:ASP577 4.4 0.7 1.0
O3A A:ADP900 4.5 0.3 1.0
CA A:THR525 4.6 0.8 1.0
CB A:THR525 4.6 0.7 1.0
C A:GLY523 4.8 0.5 1.0

Fluorine binding site 3 out of 9 in 3cf1

Go back to Fluorine Binding Sites List in 3cf1
Fluorine binding site 3 out of 9 in the Structure of P97/Vcp in Complex with Adp/Adp.Alfx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Structure of P97/Vcp in Complex with Adp/Adp.Alfx within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F915

b:0.3
occ:0.94
 F3 A:AF3915 0.0 0.3 0.9
AL A:AF3915 1.9 0.3 0.9
O2B A:ADP900 2.3 0.3 1.0
CG A:LYS524 2.9 0.5 1.0
NZ A:LYS524 3.0 0.5 1.0
CD A:LYS524 3.1 0.5 1.0
F2 A:AF3915 3.2 0.3 0.9
F1 A:AF3915 3.2 0.3 0.9
O A:PRO519 3.4 0.5 1.0
CB A:LYS524 3.4 0.5 1.0
CB A:CYS522 3.5 0.5 1.0
N A:CYS522 3.6 0.4 1.0
CE A:LYS524 3.6 0.5 1.0
N A:LYS524 3.6 0.1 1.0
PB A:ADP900 3.8 0.3 1.0
C A:CYS522 3.8 0.4 1.0
CA A:CYS522 3.8 0.4 1.0
O A:CYS522 4.0 0.4 1.0
O3B A:ADP900 4.1 0.3 1.0
CA A:LYS524 4.1 0.1 1.0
CA A:PRO520 4.2 0.1 1.0
C A:PRO520 4.3 0.1 1.0
C A:PRO519 4.3 0.5 1.0
N A:GLY523 4.3 0.5 1.0
N A:GLY521 4.3 0.3 1.0
O1B A:ADP900 4.5 0.3 1.0
SG A:CYS522 4.5 0.5 1.0
N A:PRO520 4.6 0.1 1.0
C A:GLY521 4.7 0.3 1.0
C A:GLY523 4.7 0.5 1.0
O A:PRO520 4.8 0.1 1.0
O3A A:ADP900 4.8 0.3 1.0
O A:GLY518 4.9 0.3 1.0
CA A:GLY523 5.0 0.5 1.0

Fluorine binding site 4 out of 9 in 3cf1

Go back to Fluorine Binding Sites List in 3cf1
Fluorine binding site 4 out of 9 in the Structure of P97/Vcp in Complex with Adp/Adp.Alfx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Structure of P97/Vcp in Complex with Adp/Adp.Alfx within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F915

b:0.3
occ:0.94
 F1 B:AF3915 0.0 0.3 0.9
AL B:AF3915 1.9 0.3 0.9
O3B B:ADP900 2.2 0.3 1.0
O2B B:ADP900 2.2 0.3 1.0
N B:GLY521 2.3 0.0 1.0
PB B:ADP900 2.7 0.3 1.0
CA B:GLY521 3.2 0.0 1.0
F2 B:AF3915 3.2 0.3 0.9
F3 B:AF3915 3.2 0.3 0.9
C B:PRO520 3.3 0.2 1.0
CA B:PRO520 3.4 0.2 1.0
O1B B:ADP900 3.6 0.3 1.0
O3A B:ADP900 3.9 0.3 1.0
CB B:PRO520 4.0 0.3 1.0
N B:CYS522 4.0 0.2 1.0
C B:GLY521 4.1 0.0 1.0
O B:PRO520 4.4 0.2 1.0
N B:PRO520 4.7 0.2 1.0
NH2 A:ARG635 4.8 0.5 1.0
O B:PRO519 4.8 0.1 1.0
C5' B:ADP900 4.9 0.3 1.0
NZ B:LYS524 4.9 0.0 1.0

Fluorine binding site 5 out of 9 in 3cf1

Go back to Fluorine Binding Sites List in 3cf1
Fluorine binding site 5 out of 9 in the Structure of P97/Vcp in Complex with Adp/Adp.Alfx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Structure of P97/Vcp in Complex with Adp/Adp.Alfx within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F915

b:0.3
occ:0.94
 F2 B:AF3915 0.0 0.3 0.9
AL B:AF3915 1.9 0.3 0.9
O B:PRO519 2.6 0.1 1.0
CA B:PRO520 2.7 0.2 1.0
C B:PRO519 2.9 0.1 1.0
N B:PRO520 2.9 0.2 1.0
CE B:LYS524 3.0 0.0 1.0
F1 B:AF3915 3.2 0.3 0.9
F3 B:AF3915 3.2 0.3 0.9
C B:PRO520 3.4 0.2 1.0
N B:GLY521 3.7 0.0 1.0
NZ B:LYS524 3.8 0.0 1.0
CD B:LYS524 3.8 0.0 1.0
O B:GLY518 3.9 0.7 1.0
CB B:PRO520 3.9 0.3 1.0
CD B:PRO520 4.0 0.3 1.0
CG B:PRO520 4.1 0.3 1.0
CB B:ASN624 4.1 0.5 1.0
CA B:PRO519 4.1 0.1 1.0
O2B B:ADP900 4.2 0.3 1.0
CG B:LYS524 4.2 0.0 1.0
C B:GLY518 4.2 0.7 1.0
O B:PRO520 4.3 0.2 1.0
N B:PRO519 4.3 0.1 1.0
N B:CYS522 4.4 0.2 1.0
CA B:ASN624 4.6 0.4 1.0
O3B B:ADP900 4.7 0.3 1.0
PB B:ADP900 4.8 0.3 1.0
CB B:LYS524 4.8 0.0 1.0
CB B:CYS522 4.8 0.6 1.0
CA B:GLY521 4.9 0.0 1.0
O1B B:ADP900 4.9 0.3 1.0

Fluorine binding site 6 out of 9 in 3cf1

Go back to Fluorine Binding Sites List in 3cf1
Fluorine binding site 6 out of 9 in the Structure of P97/Vcp in Complex with Adp/Adp.Alfx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of Structure of P97/Vcp in Complex with Adp/Adp.Alfx within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F915

b:0.3
occ:0.94
 F3 B:AF3915 0.0 0.3 0.9
AL B:AF3915 1.9 0.3 0.9
O1B B:ADP900 2.2 0.3 1.0
O2B B:ADP900 2.3 0.3 1.0
N B:LYS524 2.6 0.2 1.0
PB B:ADP900 2.6 0.3 1.0
CB B:LYS524 2.7 0.0 1.0
CG B:LYS524 3.0 0.0 1.0
F2 B:AF3915 3.2 0.3 0.9
CA B:LYS524 3.2 0.2 1.0
F1 B:AF3915 3.2 0.3 0.9
NZ B:LYS524 3.2 0.0 1.0
CE B:LYS524 3.3 0.0 1.0
O3B B:ADP900 3.4 0.3 1.0
N B:GLY523 3.6 0.3 1.0
N B:CYS522 3.7 0.2 1.0
CD B:LYS524 3.7 0.0 1.0
C B:GLY523 3.7 0.3 1.0
N B:THR525 3.8 0.4 1.0
C B:CYS522 4.0 0.2 1.0
O3A B:ADP900 4.0 0.3 1.0
C B:LYS524 4.1 0.2 1.0
O1A B:ADP900 4.1 0.3 1.0
CA B:GLY523 4.1 0.3 1.0
CA B:CYS522 4.3 0.2 1.0
N B:GLY521 4.3 0.0 1.0
O B:PRO519 4.5 0.1 1.0
CB B:CYS522 4.6 0.6 1.0
O B:CYS522 4.6 0.2 1.0
C B:GLY521 4.7 0.0 1.0
PA B:ADP900 4.7 0.3 1.0
CA B:GLY521 4.7 0.0 1.0
O B:GLY523 4.8 0.3 1.0
OG1 B:THR525 4.8 0.1 1.0
C B:PRO520 4.9 0.2 1.0

Fluorine binding site 7 out of 9 in 3cf1

Go back to Fluorine Binding Sites List in 3cf1
Fluorine binding site 7 out of 9 in the Structure of P97/Vcp in Complex with Adp/Adp.Alfx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 7 of Structure of P97/Vcp in Complex with Adp/Adp.Alfx within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F915

b:0.3
occ:0.94
 F1 C:AF3915 0.0 0.3 0.9
AL C:AF3915 1.9 0.3 0.9
O3B C:ADP900 2.1 0.3 1.0
O2B C:ADP900 2.7 0.3 1.0
PB C:ADP900 2.9 0.3 1.0
F3 C:AF3915 3.2 0.3 0.9
F2 C:AF3915 3.2 0.3 0.9
N C:GLY521 3.6 0.3 1.0
CA C:PRO520 3.7 0.2 1.0
O3A C:ADP900 3.8 0.3 1.0
CB C:PRO520 3.9 0.5 1.0
O1B C:ADP900 4.1 0.3 1.0
C C:PRO520 4.2 0.2 1.0
NH2 B:ARG635 4.3 0.9 1.0
CG C:PRO520 4.5 0.5 1.0
CA C:GLY521 4.7 0.3 1.0
N C:PRO520 4.8 0.2 1.0

Fluorine binding site 8 out of 9 in 3cf1

Go back to Fluorine Binding Sites List in 3cf1
Fluorine binding site 8 out of 9 in the Structure of P97/Vcp in Complex with Adp/Adp.Alfx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 8 of Structure of P97/Vcp in Complex with Adp/Adp.Alfx within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F915

b:0.3
occ:0.94
 F2 C:AF3915 0.0 0.3 0.9
AL C:AF3915 1.8 0.3 0.9
O1B C:ADP900 2.3 0.3 1.0
O3B C:ADP900 2.5 0.3 1.0
PB C:ADP900 2.6 0.3 1.0
CB C:LYS524 2.7 0.2 1.0
O2B C:ADP900 2.8 0.3 1.0
N C:LYS524 3.1 0.7 1.0
CG C:LYS524 3.1 0.2 1.0
CD C:LYS524 3.2 0.2 1.0
F3 C:AF3915 3.2 0.3 0.9
F1 C:AF3915 3.2 0.3 0.9
CA C:LYS524 3.4 0.7 1.0
N C:THR525 3.8 0.2 1.0
C C:GLY523 4.0 0.5 1.0
C C:LYS524 4.1 0.7 1.0
O3A C:ADP900 4.1 0.3 1.0
N C:GLY523 4.3 0.5 1.0
CE C:LYS524 4.3 0.2 1.0
OG1 C:THR525 4.4 0.5 1.0
NZ C:LYS524 4.4 0.2 1.0
CA C:GLY523 4.5 0.5 1.0
CB C:ALA622 4.8 0.6 1.0
O C:GLY523 4.9 0.5 1.0
CA C:THR525 5.0 0.2 1.0

Fluorine binding site 9 out of 9 in 3cf1

Go back to Fluorine Binding Sites List in 3cf1
Fluorine binding site 9 out of 9 in the Structure of P97/Vcp in Complex with Adp/Adp.Alfx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 9 of Structure of P97/Vcp in Complex with Adp/Adp.Alfx within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F915

b:0.3
occ:0.94
 F3 C:AF3915 0.0 0.3 0.9
AL C:AF3915 1.8 0.3 0.9
O2B C:ADP900 2.2 0.3 1.0
N C:CYS522 2.7 1.0 1.0
CB C:CYS522 2.8 0.3 1.0
N C:GLY523 3.0 0.5 1.0
N C:GLY521 3.1 0.3 1.0
CA C:CYS522 3.1 1.0 1.0
F2 C:AF3915 3.2 0.3 0.9
F1 C:AF3915 3.2 0.3 0.9
O C:PRO519 3.3 0.3 1.0
C C:GLY521 3.5 0.3 1.0
C C:CYS522 3.5 1.0 1.0
PB C:ADP900 3.6 0.3 1.0
CA C:PRO520 3.6 0.2 1.0
C C:PRO520 3.6 0.2 1.0
NZ C:LYS524 3.7 0.2 1.0
SG C:CYS522 3.7 0.3 1.0
N C:LYS524 3.9 0.7 1.0
CA C:GLY521 3.9 0.3 1.0
O3B C:ADP900 4.0 0.3 1.0
CA C:GLY523 4.0 0.5 1.0
C C:PRO519 4.1 0.3 1.0
CG C:LYS524 4.2 0.2 1.0
O1B C:ADP900 4.2 0.3 1.0
N C:PRO520 4.2 0.2 1.0
CD C:LYS524 4.4 0.2 1.0
O C:GLY521 4.5 0.3 1.0
C C:GLY523 4.5 0.5 1.0
CE C:LYS524 4.6 0.2 1.0
O C:PRO520 4.6 0.2 1.0
CB C:LYS524 4.7 0.2 1.0
O C:CYS522 4.7 1.0 1.0
O3A C:ADP900 4.8 0.3 1.0
CB C:PRO520 4.9 0.5 1.0
CA C:LYS524 4.9 0.7 1.0

Reference:

J.M.Davies, A.T.Brunger, W.I.Weis. Improved Structures of Full-Length P97, An Aaa Atpase: Implications For Mechanisms of Nucleotide-Dependent Conformational Change. Structure V. 16 715 2008.
ISSN: ISSN 0969-2126
PubMed: 18462676
DOI: 10.1016/J.STR.2008.02.010
Page generated: Wed Jul 31 17:27:59 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