Atomistry » Fluorine » PDB 4qte-4rv6 » 4r84
Atomistry »
  Fluorine »
    PDB 4qte-4rv6 »
      4r84 »

Fluorine in PDB 4r84: Crystal Structure of Sialyltransferase From Photobacterium Damsela with Cmp-3F(A)NEU5AC Bound

Enzymatic activity of Crystal Structure of Sialyltransferase From Photobacterium Damsela with Cmp-3F(A)NEU5AC Bound

All present enzymatic activity of Crystal Structure of Sialyltransferase From Photobacterium Damsela with Cmp-3F(A)NEU5AC Bound:
2.4.99.1;

Protein crystallography data

The structure of Crystal Structure of Sialyltransferase From Photobacterium Damsela with Cmp-3F(A)NEU5AC Bound, PDB code: 4r84 was solved by A.J.Fisher, X.Chen, Y.Li, N.Huynh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.75 / 1.70
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 64.340, 81.450, 111.210, 99.02, 91.59, 101.20
R / Rfree (%) 17.2 / 20.3

Other elements in 4r84:

The structure of Crystal Structure of Sialyltransferase From Photobacterium Damsela with Cmp-3F(A)NEU5AC Bound also contains other interesting chemical elements:

Calcium (Ca) 4 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of Sialyltransferase From Photobacterium Damsela with Cmp-3F(A)NEU5AC Bound (pdb code 4r84). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 4 binding sites of Fluorine where determined in the Crystal Structure of Sialyltransferase From Photobacterium Damsela with Cmp-3F(A)NEU5AC Bound, PDB code: 4r84:
Jump to Fluorine binding site number: 1; 2; 3; 4;

Fluorine binding site 1 out of 4 in 4r84

Go back to Fluorine Binding Sites List in 4r84
Fluorine binding site 1 out of 4 in the Crystal Structure of Sialyltransferase From Photobacterium Damsela with Cmp-3F(A)NEU5AC Bound


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 Sialyltransferase From Photobacterium Damsela with Cmp-3F(A)NEU5AC Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F501

b:29.1
occ:1.00
 F3A A:CSF501 0.0 29.1 1.0
C3A A:CSF501 1.4 21.5 1.0
C2A A:CSF501 2.4 29.4 1.0
C4A A:CSF501 2.4 21.0 1.0
C1A A:CSF501 2.7 34.2 1.0
O4A A:CSF501 2.8 23.0 1.0
O6A A:CSF501 2.9 24.6 1.0
C5A A:CSF501 3.0 21.7 1.0
O A:HOH660 3.1 28.7 1.0
OAA A:CSF501 3.3 34.2 1.0
OBA A:CSF501 3.3 31.6 1.0
C6A A:CSF501 3.5 23.6 1.0
O1A A:CSF501 3.6 26.5 1.0
O A:HOH1236 3.7 65.1 1.0
O A:HOH773 4.2 36.1 1.0
N5A A:CSF501 4.3 26.0 1.0
O7A A:CSF501 4.4 25.7 1.0
O A:HOH642 4.4 26.4 1.0
C7A A:CSF501 4.6 21.9 1.0
O A:HOH738 4.9 34.7 1.0
O10 A:CSF501 4.9 35.8 1.0

Fluorine binding site 2 out of 4 in 4r84

Go back to Fluorine Binding Sites List in 4r84
Fluorine binding site 2 out of 4 in the Crystal Structure of Sialyltransferase From Photobacterium Damsela with Cmp-3F(A)NEU5AC Bound


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 Sialyltransferase From Photobacterium Damsela with Cmp-3F(A)NEU5AC Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F501

b:29.2
occ:1.00
 F3A B:CSF501 0.0 29.2 1.0
C3A B:CSF501 1.4 26.6 1.0
C2A B:CSF501 2.3 29.6 1.0
C4A B:CSF501 2.4 21.5 1.0
C1A B:CSF501 2.6 34.8 1.0
O4A B:CSF501 2.7 22.7 1.0
O6A B:CSF501 2.9 28.3 1.0
C5A B:CSF501 2.9 25.3 1.0
O B:HOH704 3.1 34.2 1.0
OBA B:CSF501 3.1 33.6 1.0
OAA B:CSF501 3.1 29.4 1.0
C6A B:CSF501 3.5 25.1 1.0
O1A B:CSF501 3.6 30.1 1.0
O B:HOH624 4.3 24.9 1.0
N5A B:CSF501 4.3 27.4 1.0
O7A B:CSF501 4.4 23.9 1.0
O B:HOH630 4.5 26.0 1.0
C7A B:CSF501 4.6 22.2 1.0
O B:HOH968 4.6 48.9 1.0
O10 B:CSF501 4.9 32.0 1.0
O B:HOH765 4.9 38.0 1.0

Fluorine binding site 3 out of 4 in 4r84

Go back to Fluorine Binding Sites List in 4r84
Fluorine binding site 3 out of 4 in the Crystal Structure of Sialyltransferase From Photobacterium Damsela with Cmp-3F(A)NEU5AC Bound


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 Sialyltransferase From Photobacterium Damsela with Cmp-3F(A)NEU5AC Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F501

b:30.3
occ:1.00
 F3A C:CSF501 0.0 30.3 1.0
C3A C:CSF501 1.4 31.1 1.0
C2A C:CSF501 2.3 33.5 1.0
C4A C:CSF501 2.4 29.0 1.0
C1A C:CSF501 2.7 41.1 1.0
O4A C:CSF501 2.8 27.8 1.0
O6A C:CSF501 2.8 32.6 1.0
C5A C:CSF501 2.9 25.4 1.0
O C:HOH723 2.9 33.5 1.0
OAA C:CSF501 3.2 43.2 1.0
OBA C:CSF501 3.3 30.8 1.0
C6A C:CSF501 3.4 28.8 1.0
O1A C:CSF501 3.6 33.7 1.0
O C:HOH814 4.0 39.0 1.0
N5A C:CSF501 4.2 27.7 1.0
O7A C:CSF501 4.4 25.9 1.0
O C:HOH686 4.5 31.6 1.0
C7A C:CSF501 4.5 21.3 1.0
O C:HOH936 4.8 45.4 1.0
O10 C:CSF501 4.8 35.7 1.0
O C:HOH1046 5.0 50.8 1.0
C10 C:CSF501 5.0 34.7 1.0

Fluorine binding site 4 out of 4 in 4r84

Go back to Fluorine Binding Sites List in 4r84
Fluorine binding site 4 out of 4 in the Crystal Structure of Sialyltransferase From Photobacterium Damsela with Cmp-3F(A)NEU5AC Bound


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 Sialyltransferase From Photobacterium Damsela with Cmp-3F(A)NEU5AC Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
D:F501

b:27.9
occ:1.00
 F3A D:CSF501 0.0 27.9 1.0
C3A D:CSF501 1.4 24.8 1.0
C2A D:CSF501 2.3 33.3 1.0
C4A D:CSF501 2.4 25.4 1.0
C1A D:CSF501 2.7 39.8 1.0
O4A D:CSF501 2.8 25.6 1.0
O6A D:CSF501 2.8 29.3 1.0
C5A D:CSF501 2.9 19.1 1.0
O D:HOH646 3.1 29.7 1.0
OBA D:CSF501 3.1 33.6 1.0
OAA D:CSF501 3.3 28.4 1.0
C6A D:CSF501 3.4 18.8 1.0
O1A D:CSF501 3.6 28.4 1.0
N5A D:CSF501 4.2 26.2 1.0
O7A D:CSF501 4.3 26.1 1.0
O D:HOH612 4.4 24.4 1.0
C7A D:CSF501 4.5 23.3 1.0
O D:HOH698 4.6 34.0 1.0
O10 D:CSF501 4.8 33.3 1.0
C10 D:CSF501 5.0 36.4 1.0
PA D:CSF501 5.0 36.6 1.0

Reference:

N.Huynh, Y.Li, H.Yu, S.Huang, K.Lau, X.Chen, A.J.Fisher. Crystal Structures of Sialyltransferase From Photobacterium Damselae Febs Lett. 2014.
ISSN: ISSN 0014-5793
DOI: 10.1016/J.FEBSLET.2014.11.003
Page generated: Thu Aug 1 05:31:59 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