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Magnesium in PDB 5ulw: Structure of Human Dna Polymerase Iota Bound to Template 1-Methyl- Deoxyadenosine

Enzymatic activity of Structure of Human Dna Polymerase Iota Bound to Template 1-Methyl- Deoxyadenosine

All present enzymatic activity of Structure of Human Dna Polymerase Iota Bound to Template 1-Methyl- Deoxyadenosine:
2.7.7.7;

Protein crystallography data

The structure of Structure of Human Dna Polymerase Iota Bound to Template 1-Methyl- Deoxyadenosine, PDB code: 5ulw was solved by R.Jain, A.K.Aggarwal, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.96 / 2.62
Space group P 65 2 2
Cell size a, b, c (Å), α, β, γ (°) 97.918, 97.918, 202.473, 90.00, 90.00, 120.00
R / Rfree (%) 20.4 / 24.8

Other elements in 5ulw:

The structure of Structure of Human Dna Polymerase Iota Bound to Template 1-Methyl- Deoxyadenosine also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Human Dna Polymerase Iota Bound to Template 1-Methyl- Deoxyadenosine (pdb code 5ulw). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Structure of Human Dna Polymerase Iota Bound to Template 1-Methyl- Deoxyadenosine, PDB code: 5ulw:

Magnesium binding site 1 out of 1 in 5ulw

Go back to Magnesium Binding Sites List in 5ulw
Magnesium binding site 1 out of 1 in the Structure of Human Dna Polymerase Iota Bound to Template 1-Methyl- Deoxyadenosine


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Human Dna Polymerase Iota Bound to Template 1-Methyl- Deoxyadenosine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg502

b:41.3
occ:1.00
 OD1 A:ASP34 2.0 39.4 1.0
OD2 A:ASP126 2.1 46.6 1.0
O A:LEU35 2.1 36.0 1.0
O1B A:TTP501 2.3 41.5 1.0
O1A A:TTP501 2.4 44.3 1.0
O3G A:TTP501 2.5 43.9 1.0
CG A:ASP126 3.1 41.4 1.0
CG A:ASP34 3.2 39.1 1.0
C A:LEU35 3.3 38.3 1.0
PB A:TTP501 3.4 47.8 1.0
O A:HOH637 3.5 41.2 1.0
OD1 A:ASP126 3.5 45.2 1.0
N A:LEU35 3.5 38.0 1.0
H5'1 A:TTP501 3.6 47.3 1.0
PA A:TTP501 3.6 45.5 1.0
PG A:TTP501 3.7 45.5 1.0
OD2 A:ASP34 3.7 41.3 1.0
O3A A:TTP501 3.8 48.8 1.0
O A:HOH627 3.9 55.2 1.0
CA A:LEU35 3.9 38.6 1.0
C A:ASP34 3.9 37.3 1.0
O3B A:TTP501 4.0 53.5 1.0
O1G A:TTP501 4.2 45.9 1.0
CB A:ASP34 4.4 35.8 1.0
N A:ASP36 4.4 34.4 1.0
O A:ASP34 4.4 40.7 1.0
CB A:ASP126 4.4 35.0 1.0
C5' A:TTP501 4.5 39.4 1.0
CA A:ASP34 4.5 36.6 1.0
O5' A:TTP501 4.6 46.0 1.0
O A:ASP126 4.6 39.9 1.0
CB A:LEU35 4.6 38.2 1.0
H5'2 A:TTP501 4.7 47.3 1.0
N A:CYS37 4.7 39.3 1.0
O2A A:TTP501 4.7 44.9 1.0
O2B A:TTP501 4.8 51.3 1.0
CA A:ASP36 4.8 42.4 1.0
C A:ASP36 4.8 42.4 1.0
O2G A:TTP501 4.9 50.5 1.0

Reference:

R.Jain, J.R.Choudhury, A.Buku, R.E.Johnson, L.Prakash, S.Prakash, A.K.Aggarwal. Mechanism of Error-Free Dna Synthesis Across N1-Methyl-Deoxyadenosine By Human Dna Polymerase-Iota. Sci Rep V. 7 43904 2017.
ISSN: ESSN 2045-2322
PubMed: 28272441
DOI: 10.1038/SREP43904
Page generated: Mon Sep 30 05:22:29 2024

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