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Arsenic in PDB 9e9g: Heligmosomoides Polygyrus Tgf-Beta Mimic 6 Domain 3 (TGM6-D3) Bound to Human Tgf-Beta Type II Receptor Extracellular Domain

Enzymatic activity of Heligmosomoides Polygyrus Tgf-Beta Mimic 6 Domain 3 (TGM6-D3) Bound to Human Tgf-Beta Type II Receptor Extracellular Domain

All present enzymatic activity of Heligmosomoides Polygyrus Tgf-Beta Mimic 6 Domain 3 (TGM6-D3) Bound to Human Tgf-Beta Type II Receptor Extracellular Domain:
2.7.11.30;

Protein crystallography data

The structure of Heligmosomoides Polygyrus Tgf-Beta Mimic 6 Domain 3 (TGM6-D3) Bound to Human Tgf-Beta Type II Receptor Extracellular Domain, PDB code: 9e9g was solved by S.E.White, T.A.Schwartze, A.P.Hinck, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.22 / 1.40
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 56.042, 128.387, 29.654, 90, 90, 90
R / Rfree (%) 16 / 18.2

Other elements in 9e9g:

The structure of Heligmosomoides Polygyrus Tgf-Beta Mimic 6 Domain 3 (TGM6-D3) Bound to Human Tgf-Beta Type II Receptor Extracellular Domain also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms
Sodium (Na) 5 atoms

Arsenic Binding Sites:

The binding sites of Arsenic atom in the Heligmosomoides Polygyrus Tgf-Beta Mimic 6 Domain 3 (TGM6-D3) Bound to Human Tgf-Beta Type II Receptor Extracellular Domain (pdb code 9e9g). This binding sites where shown within 5.0 Angstroms radius around Arsenic atom.
In total 2 binding sites of Arsenic where determined in the Heligmosomoides Polygyrus Tgf-Beta Mimic 6 Domain 3 (TGM6-D3) Bound to Human Tgf-Beta Type II Receptor Extracellular Domain, PDB code: 9e9g:
Jump to Arsenic binding site number: 1; 2;

Arsenic binding site 1 out of 2 in 9e9g

Go back to Arsenic Binding Sites List in 9e9g
Arsenic binding site 1 out of 2 in the Heligmosomoides Polygyrus Tgf-Beta Mimic 6 Domain 3 (TGM6-D3) Bound to Human Tgf-Beta Type II Receptor Extracellular Domain


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 1 of Heligmosomoides Polygyrus Tgf-Beta Mimic 6 Domain 3 (TGM6-D3) Bound to Human Tgf-Beta Type II Receptor Extracellular Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
A:As212

b:23.2
occ:0.50
 AS A:CAC212 0.0 23.2 0.5
O1 A:CAC212 1.7 25.2 0.5
O2 A:CAC212 1.7 19.4 0.5
C1 A:CAC212 1.9 28.1 0.5
C2 A:CAC212 1.9 20.5 0.5
HD1 A:HIS102 3.3 23.5 1.0
O A:CYS101 3.5 14.9 1.0
HA A:HIS102 3.9 17.2 1.0
O A:HOH313 3.9 17.6 0.7
O A:HOH369 3.9 45.0 0.5
ND1 A:HIS102 4.1 19.5 1.0
HE1 A:TYR108 4.2 22.6 1.0
HB2 A:HIS102 4.3 18.6 1.0
HH22 B:ARG95 4.4 26.7 1.0
HZ A:PHE53 4.5 20.6 1.0
HB A:VAL100 4.6 17.5 1.0
O A:HOH404 4.6 56.6 0.4
C A:CYS101 4.6 14.1 1.0
HH12 B:ARG95 4.7 36.0 1.0
CA A:HIS102 4.7 14.3 1.0
OE2 A:GLU82 4.8 22.5 1.0
HG21 A:VAL100 4.8 18.6 1.0
CE1 A:TYR108 4.8 18.7 1.0
CB A:HIS102 4.8 15.4 1.0
O A:HOH394 4.9 50.8 0.5
CG A:HIS102 5.0 16.7 1.0
O A:HOH320 5.0 26.9 0.7

Arsenic binding site 2 out of 2 in 9e9g

Go back to Arsenic Binding Sites List in 9e9g
Arsenic binding site 2 out of 2 in the Heligmosomoides Polygyrus Tgf-Beta Mimic 6 Domain 3 (TGM6-D3) Bound to Human Tgf-Beta Type II Receptor Extracellular Domain


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 2 of Heligmosomoides Polygyrus Tgf-Beta Mimic 6 Domain 3 (TGM6-D3) Bound to Human Tgf-Beta Type II Receptor Extracellular Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
A:As213

b:63.3
occ:0.45
 AS A:CAC213 0.0 63.3 0.5
O1 A:CAC213 1.7 62.0 0.5
O2 A:CAC213 1.7 65.4 0.5
C2 A:CAC213 1.9 59.9 0.5
C1 A:CAC213 2.0 53.6 0.5
HZ1 A:LYS126 3.0 47.9 1.0
HD2 A:LYS124 3.5 57.5 1.0
HE3 A:MET135 3.6 26.9 1.0
HE2 A:LYS126 3.6 46.2 1.0
OD1 A:ASP115 3.7 16.5 1.0
HA A:LEU113 3.7 22.6 1.0
NZ A:LYS126 3.8 39.8 1.0
O A:ILE112 4.0 20.1 1.0
HG2 A:MET135 4.0 21.8 1.0
HD23 A:LEU113 4.0 31.3 1.0
HB3 A:MET135 4.0 19.3 1.0
HB2 A:LYS124 4.0 31.1 1.0
HA A:CYS136 4.0 15.6 0.5
O A:MET135 4.1 15.3 1.0
H A:GLU114 4.1 22.6 1.0
CG A:ASP115 4.1 14.7 1.0
CE A:LYS126 4.1 38.4 1.0
HA A:CYS136 4.2 17.8 0.5
OD2 A:ASP115 4.2 17.2 1.0
HZ3 A:LYS126 4.3 47.9 1.0
HZ2 A:LYS126 4.3 47.9 1.0
HE3 A:LYS126 4.3 46.2 1.0
HE2 A:MET135 4.4 26.9 1.0
CE A:MET135 4.4 22.4 1.0
HD22 A:LEU113 4.5 31.3 1.0
H A:ASP115 4.5 19.4 1.0
CD A:LYS124 4.5 47.8 1.0
C A:MET135 4.5 12.6 1.0
HD3 A:LYS124 4.6 57.5 1.0
CA A:LEU113 4.6 18.8 1.0
CD2 A:LEU113 4.7 26.0 1.0
N A:GLU114 4.7 18.7 1.0
CG A:MET135 4.7 18.1 1.0
CB A:MET135 4.8 16.0 1.0
HB3 A:PHE111 4.8 28.2 1.0
HZ3 A:LYS124 4.8 56.1 1.0
CA A:CYS136 4.8 12.9 0.5
H A:SER137 4.9 17.8 1.0
CA A:CYS136 4.9 14.7 0.5
C A:ILE112 4.9 18.7 1.0
N A:CYS136 4.9 13.2 1.0
CB A:LYS124 5.0 25.8 1.0

Reference:

S.E.White, T.A.Schwartze, A.P.Hinck. Heligmosomoides Polygyrus Tgf-Beta Mimic 6 Domain 3 (TGM6-D3) Bound to Human Tgf-Beta Type II Receptor Extracellular Domain To Be Published.
Page generated: Sun Feb 9 06:00:44 2025

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