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Chlorine in PDB 2yd9: Crystal Structure of the N-Terminal IG1-3 Module of Human Receptor Protein Tyrosine Phosphatase Sigma

Enzymatic activity of Crystal Structure of the N-Terminal IG1-3 Module of Human Receptor Protein Tyrosine Phosphatase Sigma

All present enzymatic activity of Crystal Structure of the N-Terminal IG1-3 Module of Human Receptor Protein Tyrosine Phosphatase Sigma:
3.1.3.48;

Protein crystallography data

The structure of Crystal Structure of the N-Terminal IG1-3 Module of Human Receptor Protein Tyrosine Phosphatase Sigma, PDB code: 2yd9 was solved by C.H.Coles, Y.Shen, A.P.Tenney, C.Siebold, G.C.Sutton, W.Lu, J.T.Gallagher, E.Y.Jones, J.G.Flanagan, A.R.Aricescu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.16 / 2.60
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 71.699, 90.043, 143.283, 90.00, 90.00, 90.00
R / Rfree (%) 24.7 / 28.9

Other elements in 2yd9:

The structure of Crystal Structure of the N-Terminal IG1-3 Module of Human Receptor Protein Tyrosine Phosphatase Sigma also contains other interesting chemical elements:

Iodine (I) 4 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of the N-Terminal IG1-3 Module of Human Receptor Protein Tyrosine Phosphatase Sigma (pdb code 2yd9). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Crystal Structure of the N-Terminal IG1-3 Module of Human Receptor Protein Tyrosine Phosphatase Sigma, PDB code: 2yd9:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 2yd9

Go back to Chlorine Binding Sites List in 2yd9
Chlorine binding site 1 out of 4 in the Crystal Structure of the N-Terminal IG1-3 Module of Human Receptor Protein Tyrosine Phosphatase Sigma


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 the N-Terminal IG1-3 Module of Human Receptor Protein Tyrosine Phosphatase Sigma within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1315

b:49.0
occ:1.00
 NE2 A:GLN186 3.8 34.8 1.0
N A:ILE166 3.8 44.7 1.0
CB A:ILE166 4.3 40.1 1.0
O A:ARG188 4.4 38.6 1.0
O4 A:B3P1325 4.5 53.1 1.0
O A:PRO164 4.5 46.2 1.0
C6 A:B3P1325 4.5 49.3 1.0
CD1 A:ILE166 4.6 42.0 1.0
CA A:GLU165 4.6 50.3 1.0
CA A:ILE166 4.6 42.0 1.0
CA A:GLY190 4.7 33.0 1.0
C A:GLU165 4.7 47.3 1.0
O A:ILE166 4.8 39.2 1.0
N A:GLY190 4.8 33.7 1.0
C7 A:B3P1325 4.8 49.5 1.0
CG1 A:ILE166 4.9 41.0 1.0
O5 A:B3P1325 5.0 46.0 1.0

Chlorine binding site 2 out of 4 in 2yd9

Go back to Chlorine Binding Sites List in 2yd9
Chlorine binding site 2 out of 4 in the Crystal Structure of the N-Terminal IG1-3 Module of Human Receptor Protein Tyrosine Phosphatase Sigma


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 the N-Terminal IG1-3 Module of Human Receptor Protein Tyrosine Phosphatase Sigma within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1316

b:51.1
occ:1.00
 N A:PHE234 3.4 38.4 1.0
CB A:ARG233 3.7 45.0 1.0
CA A:ARG233 3.7 39.6 1.0
CD2 A:PHE234 4.0 37.2 1.0
C A:ARG233 4.1 37.8 1.0
CB A:PHE234 4.3 36.9 1.0
CA A:PHE234 4.4 36.4 1.0
CG A:PHE234 4.6 36.1 1.0
O A:PHE234 4.7 38.9 1.0
CD1 A:ILE307 4.7 36.0 1.0
CE2 A:PHE234 4.9 37.4 1.0
CG2 A:ILE307 4.9 39.1 1.0
CG A:ARG233 5.0 47.5 1.0

Chlorine binding site 3 out of 4 in 2yd9

Go back to Chlorine Binding Sites List in 2yd9
Chlorine binding site 3 out of 4 in the Crystal Structure of the N-Terminal IG1-3 Module of Human Receptor Protein Tyrosine Phosphatase Sigma


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 the N-Terminal IG1-3 Module of Human Receptor Protein Tyrosine Phosphatase Sigma within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1317

b:56.8
occ:1.00
 N A:LYS40 3.4 87.2 1.0
N A:VAL53 3.5 70.0 1.0
CA A:PRO39 3.9 87.2 1.0
O A:SER51 4.1 61.6 1.0
CA A:PHE52 4.1 67.2 1.0
C A:PRO39 4.2 89.6 1.0
CG2 A:VAL53 4.3 66.0 1.0
CB A:VAL53 4.3 68.8 1.0
CB A:LYS40 4.3 88.8 1.0
C A:PHE52 4.3 68.4 1.0
O A:VAL53 4.4 74.9 1.0
CA A:LYS40 4.4 89.0 1.0
O A:LYS40 4.4 85.3 1.0
CA A:VAL53 4.4 70.2 1.0
CB A:PRO39 4.6 87.2 1.0
O A:GLU38 4.7 90.1 1.0
CD1 A:PHE52 4.9 72.5 1.0
C A:LYS40 4.9 86.9 1.0
C A:VAL53 4.9 73.9 1.0
C A:SER51 5.0 61.2 1.0
CB A:PHE52 5.0 70.4 1.0

Chlorine binding site 4 out of 4 in 2yd9

Go back to Chlorine Binding Sites List in 2yd9
Chlorine binding site 4 out of 4 in the Crystal Structure of the N-Terminal IG1-3 Module of Human Receptor Protein Tyrosine Phosphatase Sigma


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 the N-Terminal IG1-3 Module of Human Receptor Protein Tyrosine Phosphatase Sigma within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl1318

b:56.3
occ:1.00
 N A:SER219 3.4 40.6 1.0
OG A:SER219 3.8 43.4 1.0
CB A:SER219 3.9 40.8 1.0
CG2 A:ILE137 3.9 38.9 1.0
CB A:SER218 4.1 41.5 1.0
CA A:SER218 4.1 41.9 1.0
CA A:GLY140 4.2 40.4 1.0
CB A:ILE137 4.2 39.6 1.0
CA A:SER219 4.3 40.7 1.0
C A:SER218 4.3 40.9 1.0
N A:GLY140 4.3 42.1 1.0
O A:HOH2011 4.4 47.5 1.0
CG1 A:ILE137 4.9 39.3 1.0
O A:SER219 4.9 34.9 1.0
O A:ILE137 4.9 41.3 1.0

Reference:

C.H.Coles, Y.Shen, A.P.Tenney, C.Siebold, G.C.Sutton, W.Lu, J.T.Gallagher, E.Y.Jones, J.G.Flanagan, A.R.Aricescu. Proteoglycan-Specific Molecular Switch For Rptp Sigma Clustering and Neuronal Extension. Science V. 332 484 2011.
ISSN: ISSN 0036-8075
PubMed: 21454754
DOI: 10.1126/SCIENCE.1200840
Page generated: Sat Jul 20 14:58:10 2024

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