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Arsenic in PDB 2ilz: Crystal Structure of Poliovirus Polymerase Complexed with Gtp and MN2+

Enzymatic activity of Crystal Structure of Poliovirus Polymerase Complexed with Gtp and MN2+

All present enzymatic activity of Crystal Structure of Poliovirus Polymerase Complexed with Gtp and MN2+:
2.7.7.48;

Protein crystallography data

The structure of Crystal Structure of Poliovirus Polymerase Complexed with Gtp and MN2+, PDB code: 2ilz was solved by A.A.Thompson, O.B.Peersen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.30 / 2.50
Space group P 65
Cell size a, b, c (Å), α, β, γ (°) 128.159, 128.159, 112.610, 90.00, 90.00, 120.00
R / Rfree (%) 23 / 25.5

Other elements in 2ilz:

The structure of Crystal Structure of Poliovirus Polymerase Complexed with Gtp and MN2+ also contains other interesting chemical elements:

Manganese (Mn) 2 atoms
Sodium (Na) 2 atoms

Arsenic Binding Sites:

The binding sites of Arsenic atom in the Crystal Structure of Poliovirus Polymerase Complexed with Gtp and MN2+ (pdb code 2ilz). This binding sites where shown within 5.0 Angstroms radius around Arsenic atom.
In total 4 binding sites of Arsenic where determined in the Crystal Structure of Poliovirus Polymerase Complexed with Gtp and MN2+, PDB code: 2ilz:
Jump to Arsenic binding site number: 1; 2; 3; 4;

Arsenic binding site 1 out of 4 in 2ilz

Go back to Arsenic Binding Sites List in 2ilz
Arsenic binding site 1 out of 4 in the Crystal Structure of Poliovirus Polymerase Complexed with Gtp and MN2+


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 1 of Crystal Structure of Poliovirus Polymerase Complexed with Gtp and MN2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:As96

b:86.2
occ:1.00
 AS A:CAS96 0.0 86.2 1.0
CE2 A:CAS96 2.2 83.8 1.0
CE1 A:CAS96 2.3 84.5 1.0
SG A:CAS96 2.3 81.9 1.0
CB A:CAS96 3.1 77.3 1.0
OD2 A:ASP99 4.0 73.3 1.0
CG A:ASP99 4.4 72.0 1.0
CA A:CAS96 4.6 75.4 1.0
OD1 A:ASP99 4.6 73.0 1.0
CB A:GLU98 4.9 76.9 1.0
O A:CAS96 5.0 75.0 1.0

Arsenic binding site 2 out of 4 in 2ilz

Go back to Arsenic Binding Sites List in 2ilz
Arsenic binding site 2 out of 4 in the Crystal Structure of Poliovirus Polymerase Complexed with Gtp and MN2+


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 2 of Crystal Structure of Poliovirus Polymerase Complexed with Gtp and MN2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:As212

b:52.0
occ:1.00
 AS A:CAS212 0.0 52.0 1.0
CE2 A:CAS212 2.2 47.9 1.0
CE1 A:CAS212 2.2 52.9 1.0
SG A:CAS212 2.3 43.5 1.0
CB A:CAS212 3.2 38.8 1.0
O A:ALA209 3.5 31.5 1.0
CD1 A:LEU374 3.6 43.6 1.0
O A:CAS212 3.6 35.4 1.0
CA A:CAS212 3.9 36.2 1.0
C A:CAS212 3.9 34.5 1.0
N A:CAS212 4.0 36.7 1.0
CE2 A:TYR326 4.2 43.4 1.0
CG A:PRO214 4.3 29.5 1.0
CD2 A:TYR326 4.3 40.1 1.0
CD A:PRO214 4.3 30.0 1.0
C A:ALA209 4.5 30.5 1.0
N A:ASP213 4.8 33.7 1.0
CB A:ALA209 4.8 28.9 1.0
CZ A:TYR326 4.9 42.9 1.0
N A:GLY211 4.9 34.6 1.0
C A:GLY211 4.9 35.8 1.0
CG A:LEU374 5.0 42.5 1.0
O A:HOH525 5.0 54.3 1.0

Arsenic binding site 3 out of 4 in 2ilz

Go back to Arsenic Binding Sites List in 2ilz
Arsenic binding site 3 out of 4 in the Crystal Structure of Poliovirus Polymerase Complexed with Gtp and MN2+


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 3 of Crystal Structure of Poliovirus Polymerase Complexed with Gtp and MN2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:As281

b:47.6
occ:1.00
 AS A:CAS281 0.0 47.6 1.0
CE2 A:CAS281 2.2 45.0 1.0
CE1 A:CAS281 2.2 46.8 1.0
SG A:CAS281 2.2 41.1 1.0
CB A:CAS281 3.1 46.3 1.0
CA A:CAS281 3.8 48.2 1.0
O A:SER271 3.9 49.2 1.0
C A:SER271 4.1 50.8 1.0
CA A:HIS272 4.2 51.9 1.0
N A:HIS272 4.3 51.6 1.0
CZ2 A:TRP5 4.3 38.4 1.0
CB A:HIS272 4.3 51.8 1.0
C A:CAS281 4.7 48.3 1.0
CG A:HIS272 4.7 51.4 1.0
N A:VAL282 4.8 46.7 1.0
CD2 A:HIS272 4.8 51.8 1.0
CE2 A:TRP5 4.9 39.7 1.0
N A:CAS281 4.9 49.5 1.0
CA A:SER271 4.9 50.3 1.0
CH2 A:TRP5 5.0 39.5 1.0

Arsenic binding site 4 out of 4 in 2ilz

Go back to Arsenic Binding Sites List in 2ilz
Arsenic binding site 4 out of 4 in the Crystal Structure of Poliovirus Polymerase Complexed with Gtp and MN2+


Mono view


Stereo pair view

A full contact list of Arsenic with other atoms in the As binding site number 4 of Crystal Structure of Poliovirus Polymerase Complexed with Gtp and MN2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:As290

b:75.6
occ:1.00
 AS A:CAS290 0.0 75.6 1.0
CE2 A:CAS290 2.2 73.3 1.0
CE1 A:CAS290 2.3 74.0 1.0
SG A:CAS290 2.3 70.6 1.0
CB A:CAS290 3.1 65.1 1.0
SD A:MET187 3.7 58.6 1.0
CD2 A:LEU268 3.8 37.5 1.0
CB A:SER179 4.1 49.8 1.0
CA A:CAS290 4.2 61.7 1.0
CG A:LEU268 4.4 40.3 1.0
CD2 A:LEU154 4.6 47.4 1.0
CE A:MET187 4.7 59.3 1.0
OG A:SER179 4.8 48.5 1.0
N A:SER291 4.8 59.1 1.0
CB A:ASP183 4.9 58.6 1.0
CD2 A:TYR267 4.9 67.2 1.0

Reference:

A.A.Thompson, R.A.Albertini, O.B.Peersen. Stabilization of Poliovirus Polymerase By Ntp Binding and Fingers-Thumb Interactions. J.Mol.Biol. V. 366 1459 2007.
ISSN: ISSN 0022-2836
PubMed: 17223130
DOI: 10.1016/J.JMB.2006.11.070
Page generated: Wed Jul 10 11:24:10 2024

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