Atomistry » Chlorine » PDB 5syv-5t6h » 5t03
Atomistry »
  Chlorine »
    PDB 5syv-5t6h »
      5t03 »

Chlorine in PDB 5t03: Crystal Structure of Heparan Sulfate 6-O-Sulfotransferase with Bound Pap and Glucuronic Acid Containing Hexasaccharide Substrate

Protein crystallography data

The structure of Crystal Structure of Heparan Sulfate 6-O-Sulfotransferase with Bound Pap and Glucuronic Acid Containing Hexasaccharide Substrate, PDB code: 5t03 was solved by L.C.Pedersen, A.F.Moon, J.M.Krahn, J.Liu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.65 / 2.10
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 75.778, 128.396, 179.722, 90.00, 90.00, 90.00
R / Rfree (%) 17.4 / 21.2

Other elements in 5t03:

The structure of Crystal Structure of Heparan Sulfate 6-O-Sulfotransferase with Bound Pap and Glucuronic Acid Containing Hexasaccharide Substrate also contains other interesting chemical elements:

Sodium (Na) 6 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Heparan Sulfate 6-O-Sulfotransferase with Bound Pap and Glucuronic Acid Containing Hexasaccharide Substrate (pdb code 5t03). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 5 binding sites of Chlorine where determined in the Crystal Structure of Heparan Sulfate 6-O-Sulfotransferase with Bound Pap and Glucuronic Acid Containing Hexasaccharide Substrate, PDB code: 5t03:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5;

Chlorine binding site 1 out of 5 in 5t03

Go back to Chlorine Binding Sites List in 5t03
Chlorine binding site 1 out of 5 in the Crystal Structure of Heparan Sulfate 6-O-Sulfotransferase with Bound Pap and Glucuronic Acid Containing Hexasaccharide Substrate


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 Heparan Sulfate 6-O-Sulfotransferase with Bound Pap and Glucuronic Acid Containing Hexasaccharide Substrate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1424

b:28.8
occ:1.00
 O A:HOH1594 2.9 23.1 1.0
N A:LYS1305 3.3 19.5 1.0
O A:HOH1582 3.4 63.2 1.0
CG A:LYS1305 3.4 22.1 1.0
CA A:PHE1302 3.5 26.6 1.0
C A:PHE1302 3.6 20.9 1.0
N A:ARG1304 3.6 23.9 1.0
NZ A:LYS1305 3.7 31.3 1.0
CB A:PHE1302 3.7 19.0 1.0
CB A:ARG1304 3.8 27.1 1.0
CD A:LYS1305 3.8 23.9 1.0
CD1 A:PHE1302 3.8 23.8 1.0
CB A:LYS1305 3.9 21.4 1.0
O A:PHE1302 4.0 24.6 1.0
N A:GLN1303 4.0 19.7 1.0
CA B:ALA239 4.0 28.8 1.0
CA A:ARG1304 4.0 25.2 1.0
C A:ARG1304 4.1 25.5 1.0
CA A:LYS1305 4.2 24.3 1.0
CG A:PHE1302 4.2 20.4 1.0
O B:HOH1570 4.2 37.9 1.0
CB B:ALA239 4.3 25.8 1.0
CE A:LYS1305 4.3 26.0 1.0
O B:SER238 4.5 29.6 1.0
C A:GLN1303 4.6 23.1 1.0
O B:ALA239 4.6 32.0 1.0
O A:HOH1862 4.6 45.5 1.0
C B:ALA239 4.7 31.6 1.0
N A:PHE1302 4.8 18.8 1.0
O A:GLU1301 4.8 21.7 1.0
CG A:ARG1304 4.8 36.5 1.0
OE1 A:GLN1324 4.9 24.1 1.0
CA A:GLN1303 4.9 21.2 1.0
N B:ALA239 4.9 29.6 1.0

Chlorine binding site 2 out of 5 in 5t03

Go back to Chlorine Binding Sites List in 5t03
Chlorine binding site 2 out of 5 in the Crystal Structure of Heparan Sulfate 6-O-Sulfotransferase with Bound Pap and Glucuronic Acid Containing Hexasaccharide Substrate


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 Heparan Sulfate 6-O-Sulfotransferase with Bound Pap and Glucuronic Acid Containing Hexasaccharide Substrate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1425

b:45.7
occ:1.00
 NZ A:LYS1132 3.0 44.0 1.0
O3 A:GNS1404 3.1 41.5 1.0
N A:TRP1153 3.2 26.0 1.0
O A:HOH1578 3.3 38.5 1.0
O A:HOH1934 3.4 61.6 1.0
CE A:LYS1132 3.5 41.9 1.0
CA A:GLY1152 3.6 27.7 1.0
C3 A:GNS1404 3.7 37.6 1.0
C A:GLY1152 3.9 30.5 1.0
O A:HOH1717 3.9 46.3 1.0
CD1 A:TRP1153 4.0 21.2 1.0
CB A:TRP1153 4.1 28.0 1.0
CA A:TRP1153 4.2 22.7 1.0
N A:GNS1404 4.3 43.9 1.0
CG A:TRP1153 4.3 24.8 1.0
O4 A:GNS1404 4.5 33.9 1.0
C2 A:GNS1404 4.7 37.3 1.0
C4 A:GNS1404 4.8 36.7 1.0
C A:TRP1153 4.8 30.4 1.0
CD A:LYS1132 4.9 42.2 1.0
N A:GLY1152 4.9 29.3 1.0
NZ A:LYS1131 5.0 39.4 1.0
NE1 A:TRP1153 5.0 24.0 1.0

Chlorine binding site 3 out of 5 in 5t03

Go back to Chlorine Binding Sites List in 5t03
Chlorine binding site 3 out of 5 in the Crystal Structure of Heparan Sulfate 6-O-Sulfotransferase with Bound Pap and Glucuronic Acid Containing Hexasaccharide Substrate


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 Heparan Sulfate 6-O-Sulfotransferase with Bound Pap and Glucuronic Acid Containing Hexasaccharide Substrate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1426

b:52.4
occ:1.00
 NH2 A:ARG1317 3.1 35.0 1.0
O A:HOH1556 3.1 40.6 1.0
NH1 A:ARG1317 3.3 30.9 1.0
ND1 A:HIS1315 3.5 47.3 1.0
CZ A:ARG1317 3.6 32.8 1.0
O A:GLU1311 3.9 27.9 1.0
CA A:HIS1315 4.0 30.3 1.0
CA A:ARG1312 4.0 25.2 1.0
CE1 A:HIS1315 4.2 46.8 1.0
CG A:HIS1315 4.2 44.2 1.0
CG A:ARG1312 4.3 31.3 1.0
CB A:HIS1315 4.4 32.3 1.0
O A:ARG1312 4.4 29.4 1.0
CD A:ARG1312 4.5 37.8 1.0
C A:GLU1311 4.6 25.6 1.0
O A:HOH1928 4.6 52.5 1.0
C A:ARG1312 4.6 27.8 1.0
N A:ARG1312 4.6 28.9 1.0
NE A:ARG1312 4.7 30.5 1.0
N A:HIS1315 4.7 31.2 1.0
CB A:ARG1312 4.7 32.1 1.0
C A:HIS1315 4.8 32.9 1.0
NE A:ARG1317 5.0 32.8 1.0

Chlorine binding site 4 out of 5 in 5t03

Go back to Chlorine Binding Sites List in 5t03
Chlorine binding site 4 out of 5 in the Crystal Structure of Heparan Sulfate 6-O-Sulfotransferase with Bound Pap and Glucuronic Acid Containing Hexasaccharide Substrate


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 Heparan Sulfate 6-O-Sulfotransferase with Bound Pap and Glucuronic Acid Containing Hexasaccharide Substrate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl1418

b:47.9
occ:1.00
 N B:GLU1276 3.2 26.6 1.0
O B:HOH1834 3.4 31.3 1.0
CB B:GLU1276 3.7 27.6 1.0
CA B:ASN1275 3.9 24.9 1.0
C B:ASN1275 4.0 26.9 1.0
CA B:GLU1276 4.1 26.1 1.0
CB B:ASN1275 4.4 32.4 1.0
OD1 B:ASN1275 4.6 60.9 1.0
O B:MET1274 4.8 24.7 1.0
CG B:ASN1275 4.8 53.9 1.0
NH2 B:ARG1279 4.9 21.8 1.0

Chlorine binding site 5 out of 5 in 5t03

Go back to Chlorine Binding Sites List in 5t03
Chlorine binding site 5 out of 5 in the Crystal Structure of Heparan Sulfate 6-O-Sulfotransferase with Bound Pap and Glucuronic Acid Containing Hexasaccharide Substrate


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 Heparan Sulfate 6-O-Sulfotransferase with Bound Pap and Glucuronic Acid Containing Hexasaccharide Substrate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl1419

b:35.1
occ:1.00
 O B:HOH1613 2.9 24.6 1.0
N B:LYS1305 3.1 22.5 1.0
CA B:PHE1302 3.3 22.2 1.0
C B:PHE1302 3.3 22.0 1.0
N B:ARG1304 3.4 26.8 1.0
CG B:LYS1305 3.4 24.1 1.0
CB B:PHE1302 3.5 17.7 1.0
N B:GLN1303 3.7 23.5 1.0
O B:PHE1302 3.7 19.7 1.0
CB B:LYS1305 3.8 20.2 1.0
CA B:ARG1304 3.9 25.7 1.0
CB B:ARG1304 4.0 21.8 1.0
C B:ARG1304 4.0 26.3 1.0
NZ B:LYS1305 4.0 48.5 1.0
CD1 B:PHE1302 4.0 22.6 1.0
CA B:LYS1305 4.1 19.2 1.0
CD B:LYS1305 4.1 29.4 1.0
CG B:PHE1302 4.2 23.4 1.0
C B:GLN1303 4.3 17.0 1.0
OE1 B:GLN1324 4.5 23.6 1.0
CA B:GLN1303 4.6 18.6 1.0
N B:PHE1302 4.6 19.5 1.0
CE B:LYS1305 4.7 34.4 1.0
O B:GLU1301 4.8 19.8 1.0
O B:HOH1923 4.8 40.0 1.0

Reference:

Y.Xu, A.F.Moon, S.Xu, J.M.Krahn, J.Liu, L.C.Pedersen. Structure Based Substrate Specificity Analysis of Heparan Sulfate 6-O-Sulfotransferases. Acs Chem. Biol. V. 12 73 2017.
ISSN: ESSN 1554-8937
PubMed: 28103688
DOI: 10.1021/ACSCHEMBIO.6B00841
Page generated: Fri Jul 26 17:12:33 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