Atomistry » Chlorine » PDB 5nke-5nry » 5nn3
Atomistry »
  Chlorine »
    PDB 5nke-5nry »
      5nn3 »

Chlorine in PDB 5nn3: Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa

Enzymatic activity of Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa

All present enzymatic activity of Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa:
3.2.1.20;

Protein crystallography data

The structure of Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa, PDB code: 5nn3 was solved by V.Roig-Zamboni, B.Cobucci-Ponzano, R.Iacono, M.C.Ferrara, S.Germany, G.Parenti, Y.Bourne, M.Moracci, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.88 / 1.90
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 97.660, 102.401, 128.751, 90.00, 90.00, 90.00
R / Rfree (%) 16.2 / 18.9

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa (pdb code 5nn3). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 8 binding sites of Chlorine where determined in the Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa, PDB code: 5nn3:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Chlorine binding site 1 out of 8 in 5nn3

Go back to Chlorine Binding Sites List in 5nn3
Chlorine binding site 1 out of 8 in the Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1018

b:41.5
occ:1.00
 OG A:SER918 3.0 33.8 1.0
O A:HOH1658 3.2 41.0 1.0
N A:SER940 3.2 35.8 1.0
O A:HOH1629 3.4 40.5 1.0
CB A:SER918 3.5 35.5 1.0
CA A:VAL939 3.8 34.3 1.0
CB A:VAL939 4.0 33.3 1.0
C A:VAL939 4.0 34.2 1.0
O A:SER940 4.1 34.6 1.0
CA A:SER940 4.1 37.8 1.0
C A:SER940 4.3 34.7 1.0
CB A:SER940 4.4 43.7 1.0
CD2 A:LEU941 4.4 33.8 1.0
CG A:LEU941 4.5 33.1 1.0
O A:HOH1541 4.5 33.2 1.0
CG1 A:VAL939 4.5 33.7 1.0
CA A:SER918 4.9 33.4 1.0
O A:SER918 4.9 33.5 1.0
OG A:SER940 4.9 51.8 1.0

Chlorine binding site 2 out of 8 in 5nn3

Go back to Chlorine Binding Sites List in 5nn3
Chlorine binding site 2 out of 8 in the Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1019

b:57.9
occ:1.00
 N A:GLN100 3.8 43.5 1.0
OH A:TYR110 3.9 49.0 1.0
CA A:THR99 4.0 44.1 1.0
CB A:THR99 4.1 46.9 1.0
C A:THR99 4.4 42.0 1.0
CZ A:TYR110 4.6 42.5 1.0
CB A:GLN100 4.6 48.2 1.0
CG2 A:THR99 4.6 49.2 1.0
CA A:GLN100 4.8 45.9 1.0
CE1 A:TYR110 5.0 40.3 1.0

Chlorine binding site 3 out of 8 in 5nn3

Go back to Chlorine Binding Sites List in 5nn3
Chlorine binding site 3 out of 8 in the Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1020

b:31.1
occ:1.00
 O A:HOH1465 3.0 25.2 1.0
O A:HOH1750 3.0 34.8 1.0
O A:HOH1357 3.1 28.1 1.0
NH1 A:ARG224 3.1 24.3 1.0
CD A:ARG224 3.6 24.9 1.0
CB A:PRO345 3.7 24.4 1.0
CG A:ARG224 3.8 25.1 1.0
CB A:LEU226 3.9 31.0 1.0
CD2 A:LEU226 4.1 31.7 1.0
CZ A:ARG224 4.1 25.0 1.0
CG A:PRO345 4.1 25.5 1.0
CD1 A:LEU208 4.3 29.8 1.0
NE A:ARG224 4.3 26.0 1.0
O A:HOH1577 4.5 39.3 1.0
CD2 A:LEU208 4.6 32.0 1.0
O A:HOH1734 4.6 34.4 1.0
CD A:PRO345 4.6 24.9 1.0
CG A:LEU226 4.7 31.9 1.0
CB A:LEU208 4.7 27.0 1.0
O A:HOH1768 4.7 43.2 1.0
O A:HOH1402 4.7 33.1 1.0
CG A:LEU208 4.8 29.2 1.0
CA A:PRO345 4.8 23.4 1.0
N A:LEU226 5.0 29.4 1.0

Chlorine binding site 4 out of 8 in 5nn3

Go back to Chlorine Binding Sites List in 5nn3
Chlorine binding site 4 out of 8 in the Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1021

b:46.4
occ:1.00
 O A:HOH1293 3.0 34.9 1.0
N A:ASP741 3.2 28.1 1.0
N A:HIS742 3.2 28.8 1.0
CA A:VAL740 3.6 29.4 1.0
CB A:HIS742 3.7 31.8 1.0
OD1 A:ASP741 3.8 30.0 1.0
CG1 A:VAL740 3.8 29.9 1.0
C A:VAL740 3.8 29.6 1.0
ND1 A:HIS742 3.8 41.4 1.0
CA A:HIS742 4.0 28.8 1.0
C A:ASP741 4.1 29.2 1.0
O A:THR739 4.1 32.5 1.0
CG A:HIS742 4.1 35.0 1.0
CA A:ASP741 4.2 28.7 1.0
CB A:VAL740 4.2 28.6 1.0
C A:HIS742 4.6 29.0 1.0
CG2 A:VAL740 4.6 31.0 1.0
N A:VAL740 4.6 30.0 1.0
N A:GLN743 4.6 27.5 1.0
C A:THR739 4.8 31.1 1.0
CG A:ASP741 4.8 31.8 1.0
CH2 A:TRP804 4.8 35.3 1.0
CE1 A:HIS742 4.9 40.9 1.0

Chlorine binding site 5 out of 8 in 5nn3

Go back to Chlorine Binding Sites List in 5nn3
Chlorine binding site 5 out of 8 in the Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1022

b:49.7
occ:1.00
 O A:HOH1757 2.6 39.6 1.0
O A:HOH1620 3.3 38.5 1.0
N A:LEU677 3.3 27.8 1.0
CE3 A:TRP376 3.4 35.6 1.0
CB A:SER676 3.6 27.0 1.0
CB A:LEU677 3.8 29.1 1.0
CZ3 A:TRP376 3.8 38.7 1.0
CZ A:PHE649 3.9 25.2 1.0
CA A:SER676 4.0 27.1 1.0
CD2 A:TRP376 4.1 33.0 1.0
C A:SER676 4.2 28.1 1.0
CA A:LEU677 4.2 29.5 1.0
O A:HOH1762 4.3 44.1 1.0
CE2 A:PHE649 4.5 25.5 1.0
OG A:SER676 4.5 32.9 1.0
CG A:TRP376 4.7 30.3 1.0
CB A:TRP376 4.7 28.3 1.0
CH2 A:TRP376 4.8 37.7 1.0
O A:HOH1650 4.8 45.4 1.0
CE1 A:PHE649 4.8 25.1 1.0
CE2 A:TRP376 5.0 33.6 1.0

Chlorine binding site 6 out of 8 in 5nn3

Go back to Chlorine Binding Sites List in 5nn3
Chlorine binding site 6 out of 8 in the Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1023

b:44.2
occ:1.00
 O A:HOH1416 2.8 39.0 1.0
O A:HOH1690 3.0 41.1 1.0
N A:LEU756 3.0 28.8 1.0
OE1 A:GLN757 3.3 42.0 1.0
CG A:GLN757 3.7 37.5 1.0
N A:GLN757 3.8 32.4 1.0
CA A:VAL755 3.8 29.9 1.0
C A:VAL755 3.9 29.6 1.0
CA A:LEU756 3.9 31.0 1.0
CD A:GLN757 3.9 40.4 1.0
C A:LEU756 4.1 32.5 1.0
CB A:LEU756 4.1 29.7 1.0
CG1 A:VAL755 4.2 30.7 1.0
CB A:GLN757 4.2 36.2 1.0
O A:PRO754 4.3 28.7 1.0
CG2 A:VAL763 4.3 34.1 1.0
O A:HOH1625 4.4 46.4 1.0
CB A:VAL755 4.4 30.9 1.0
CA A:GLN757 4.6 35.1 1.0
CG A:LYS760 4.7 43.4 1.0
CG A:LEU756 4.8 28.7 1.0
CG2 A:VAL755 4.8 31.3 1.0
N A:VAL755 4.9 29.8 1.0
CB A:VAL763 4.9 33.8 1.0
O A:HOH1733 5.0 52.3 1.0

Chlorine binding site 7 out of 8 in 5nn3

Go back to Chlorine Binding Sites List in 5nn3
Chlorine binding site 7 out of 8 in the Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1024

b:67.6
occ:1.00
 NE A:ARG106 3.5 41.1 1.0
NH2 A:ARG106 3.5 40.7 1.0
O A:HOH1526 3.6 50.3 1.0
CZ A:ARG106 4.0 40.2 1.0
NZ A:LYS96 4.3 65.5 1.0
CG A:ARG106 4.5 40.7 1.0
CB A:PHE159 4.6 36.3 1.0
CD A:ARG106 4.6 39.6 1.0

Chlorine binding site 8 out of 8 in 5nn3

Go back to Chlorine Binding Sites List in 5nn3
Chlorine binding site 8 out of 8 in the Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of Crystal Structure of Human Lysosomal Acid-Alpha-Glucosidase, Gaa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1025

b:53.8
occ:1.00
 O A:HOH1702 2.6 46.4 1.0
OG A:SER566 3.2 22.8 1.0
O A:HOH1558 3.4 47.1 1.0
O A:HOH1700 3.7 36.9 1.0
CB A:SER566 3.9 23.4 1.0
CB A:TYR191 4.0 25.5 1.0
NH1 A:ARG189 4.1 68.5 1.0
CA A:TYR191 4.2 25.5 1.0
ND2 A:ASN570 4.4 23.1 1.0
O A:HOH1552 4.4 37.9 1.0
O A:LEU565 4.4 24.9 1.0
N A:TYR191 4.4 26.3 1.0
CD1 A:TYR191 4.5 24.1 1.0
CA A:SER566 4.6 23.7 1.0
NH2 A:ARG189 4.6 75.9 1.0
CG A:TYR191 4.8 24.2 1.0
CZ A:ARG189 4.8 71.3 1.0
O A:HOH1544 4.9 33.6 1.0
O A:HOH1566 5.0 26.8 1.0

Reference:

V.Roig-Zamboni, B.Cobucci-Ponzano, R.Iacono, M.C.Ferrara, S.Germany, Y.Bourne, G.Parenti, M.Moracci, G.Sulzenbacher. Structure of Human Lysosomal Acid Alpha-Glucosidase-A Guide For the Treatment of Pompe Disease. Nat Commun V. 8 1111 2017.
ISSN: ESSN 2041-1723
PubMed: 29061980
DOI: 10.1038/S41467-017-01263-3
Page generated: Sat Jul 12 06:15:29 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