Atomistry » Fluorine » PDB 4kbk-4l3l » 4kgj
Atomistry »
  Fluorine »
    PDB 4kbk-4l3l »
      4kgj »

Fluorine in PDB 4kgj: Crystal Structure of Human Alpha-L-Iduronidase Complex with 5-Fluoro- Alpha-L-Idopyranosyluronic Acid Fluoride

Enzymatic activity of Crystal Structure of Human Alpha-L-Iduronidase Complex with 5-Fluoro- Alpha-L-Idopyranosyluronic Acid Fluoride

All present enzymatic activity of Crystal Structure of Human Alpha-L-Iduronidase Complex with 5-Fluoro- Alpha-L-Idopyranosyluronic Acid Fluoride:
3.2.1.76;

Protein crystallography data

The structure of Crystal Structure of Human Alpha-L-Iduronidase Complex with 5-Fluoro- Alpha-L-Idopyranosyluronic Acid Fluoride, PDB code: 4kgj was solved by H.Bie, J.Yin, X.He, A.R.Kermode, E.D.Goddard-Borger, S.G.Withers, M.N.G.James, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.05 / 2.99
Space group H 3
Cell size a, b, c (Å), α, β, γ (°) 259.343, 259.343, 71.379, 90.00, 90.00, 120.00
R / Rfree (%) 17.8 / 22.7

Other elements in 4kgj:

The structure of Crystal Structure of Human Alpha-L-Iduronidase Complex with 5-Fluoro- Alpha-L-Idopyranosyluronic Acid Fluoride also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of Human Alpha-L-Iduronidase Complex with 5-Fluoro- Alpha-L-Idopyranosyluronic Acid Fluoride (pdb code 4kgj). 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 Human Alpha-L-Iduronidase Complex with 5-Fluoro- Alpha-L-Idopyranosyluronic Acid Fluoride, PDB code: 4kgj:
Jump to Fluorine binding site number: 1; 2; 3; 4;

Fluorine binding site 1 out of 4 in 4kgj

Go back to Fluorine Binding Sites List in 4kgj
Fluorine binding site 1 out of 4 in the Crystal Structure of Human Alpha-L-Iduronidase Complex with 5-Fluoro- Alpha-L-Idopyranosyluronic Acid Fluoride


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 Human Alpha-L-Iduronidase Complex with 5-Fluoro- Alpha-L-Idopyranosyluronic Acid Fluoride within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F911

b:59.5
occ:1.00
 F5 A:IDF911 0.0 59.5 1.0
C5 A:IDF911 1.4 58.7 1.0
O5 A:IDF911 2.3 60.8 1.0
C6 A:IDF911 2.4 58.2 1.0
C4 A:IDF911 2.4 58.1 1.0
O6B A:IDF911 2.5 57.7 1.0
C1 A:IDF911 2.8 60.3 1.0
F1 A:IDF911 2.9 59.7 1.0
C2 A:IDF911 3.0 60.2 1.0
C3 A:IDF911 3.2 58.2 1.0
O6A A:IDF911 3.4 57.4 1.0
O4 A:IDF911 3.7 55.6 1.0
O3 A:IDF911 3.9 57.1 1.0
O2 A:IDF911 4.4 61.8 1.0
CD1 A:TRP306 4.9 34.3 1.0

Fluorine binding site 2 out of 4 in 4kgj

Go back to Fluorine Binding Sites List in 4kgj
Fluorine binding site 2 out of 4 in the Crystal Structure of Human Alpha-L-Iduronidase Complex with 5-Fluoro- Alpha-L-Idopyranosyluronic Acid Fluoride


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 Human Alpha-L-Iduronidase Complex with 5-Fluoro- Alpha-L-Idopyranosyluronic Acid Fluoride within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F911

b:59.7
occ:1.00
 F1 A:IDF911 0.0 59.7 1.0
C1 A:IDF911 1.4 60.3 1.0
O5 A:IDF911 2.3 60.8 1.0
C2 A:IDF911 2.4 60.2 1.0
F5 A:IDF911 2.9 59.5 1.0
OE1 A:GLU182 3.1 39.0 1.0
O2 A:IDF911 3.1 61.8 1.0
C5 A:IDF911 3.1 58.7 1.0
C3 A:IDF911 3.7 58.2 1.0
CD A:GLU182 3.9 37.9 1.0
C4 A:IDF911 4.0 58.1 1.0
OE2 A:GLU182 4.1 38.9 1.0
C6 A:IDF911 4.3 58.2 1.0
OE1 A:GLU299 4.6 44.9 1.0
O3 A:IDF911 4.7 57.1 1.0
O6A A:IDF911 4.8 57.4 1.0
CG2 A:VAL304 4.9 31.8 1.0

Fluorine binding site 3 out of 4 in 4kgj

Go back to Fluorine Binding Sites List in 4kgj
Fluorine binding site 3 out of 4 in the Crystal Structure of Human Alpha-L-Iduronidase Complex with 5-Fluoro- Alpha-L-Idopyranosyluronic Acid Fluoride


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 Human Alpha-L-Iduronidase Complex with 5-Fluoro- Alpha-L-Idopyranosyluronic Acid Fluoride within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F920

b:54.8
occ:1.00
 F5 B:IDF920 0.0 54.8 1.0
C5 B:IDF920 1.4 52.5 1.0
O5 B:IDF920 2.3 54.0 1.0
C6 B:IDF920 2.3 51.2 1.0
C4 B:IDF920 2.5 52.1 1.0
O6B B:IDF920 2.6 50.5 1.0
O3 B:MAN910 2.6 0.9 1.0
F1 B:IDF920 2.8 53.1 1.0
C1 B:IDF920 2.8 53.2 1.0
C2 B:IDF920 3.1 52.4 1.0
C4 B:MAN910 3.2 0.3 1.0
C3 B:IDF920 3.2 51.7 1.0
O6A B:IDF920 3.3 49.0 1.0
O4 B:MAN910 3.4 0.5 1.0
C3 B:MAN910 3.4 1.0 1.0
O4 B:IDF920 3.7 51.1 1.0
O2 B:MAN910 3.9 0.3 1.0
O3 B:IDF920 4.1 49.8 1.0
C2 B:MAN910 4.3 1.0 1.0
O2 B:IDF920 4.5 51.6 1.0
C5 B:MAN910 4.6 0.5 1.0
NZ B:LYS264 4.8 29.9 1.0
CD1 B:TRP306 4.9 26.6 1.0
N B:GLY305 5.0 28.0 1.0

Fluorine binding site 4 out of 4 in 4kgj

Go back to Fluorine Binding Sites List in 4kgj
Fluorine binding site 4 out of 4 in the Crystal Structure of Human Alpha-L-Iduronidase Complex with 5-Fluoro- Alpha-L-Idopyranosyluronic Acid Fluoride


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 Human Alpha-L-Iduronidase Complex with 5-Fluoro- Alpha-L-Idopyranosyluronic Acid Fluoride within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F920

b:53.1
occ:1.00
 F1 B:IDF920 0.0 53.1 1.0
C1 B:IDF920 1.4 53.2 1.0
O5 B:IDF920 2.3 54.0 1.0
C2 B:IDF920 2.4 52.4 1.0
F5 B:IDF920 2.8 54.8 1.0
OE1 B:GLU182 2.9 44.7 1.0
C5 B:IDF920 3.1 52.5 1.0
O2 B:IDF920 3.1 51.6 1.0
O3 B:MAN910 3.4 0.9 1.0
OE2 B:GLU182 3.5 45.0 1.0
CD B:GLU182 3.5 43.8 1.0
C3 B:IDF920 3.7 51.7 1.0
C4 B:IDF920 3.9 52.1 1.0
C6 B:IDF920 4.3 51.2 1.0
OE1 B:GLU299 4.5 44.0 1.0
O3 B:IDF920 4.7 49.8 1.0
C3 B:MAN910 4.7 1.0 1.0
O6A B:IDF920 4.8 49.0 1.0
ND2 B:ASN181 4.8 35.5 1.0
CG B:GLU182 4.9 41.6 1.0
NZ B:LYS264 4.9 29.9 1.0

Reference:

H.Bie, J.Yin, X.He, A.R.Kermode, E.D.Goddard-Borger, S.G.Withers, M.N.James. Insights Into Mucopolysaccharidosis I From the Structure and Action of Alpha-L-Iduronidase. Nat.Chem.Biol. V. 9 739 2013.
ISSN: ISSN 1552-4450
PubMed: 24036510
DOI: 10.1038/NCHEMBIO.1357
Page generated: Thu Aug 1 03:12:41 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