Magnesium in PDB 7n2m: Crystal Structure of Dna Polymerase Alpha Catalytic Core in Complex with Dctp and Template/Primer Having T-C Mismatch at the Post- Insertion Site

Enzymatic activity of Crystal Structure of Dna Polymerase Alpha Catalytic Core in Complex with Dctp and Template/Primer Having T-C Mismatch at the Post- Insertion Site

All present enzymatic activity of Crystal Structure of Dna Polymerase Alpha Catalytic Core in Complex with Dctp and Template/Primer Having T-C Mismatch at the Post- Insertion Site:
2.7.7.7;

Protein crystallography data

The structure of Crystal Structure of Dna Polymerase Alpha Catalytic Core in Complex with Dctp and Template/Primer Having T-C Mismatch at the Post- Insertion Site, PDB code: 7n2m was solved by T.H.Tahirov, A.G.Baranovskiy, N.D.Babayeva, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	44.51 / 2.90
*Space group*	P 3₂ 2 1
*Cell size a, b, c (Å), α, β, γ (°)*	140.285, 140.285, 181.066, 90, 90, 120
*R / R_free (%)*	19.5 / 22.8

Other elements in 7n2m:

The structure of Crystal Structure of Dna Polymerase Alpha Catalytic Core in Complex with Dctp and Template/Primer Having T-C Mismatch at the Post- Insertion Site also contains other interesting chemical elements:

Zinc	(Zn)	4 atoms
Potassium	(K)	1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Dna Polymerase Alpha Catalytic Core in Complex with Dctp and Template/Primer Having T-C Mismatch at the Post- Insertion Site (pdb code 7n2m). 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 Crystal Structure of Dna Polymerase Alpha Catalytic Core in Complex with Dctp and Template/Primer Having T-C Mismatch at the Post- Insertion Site, PDB code: 7n2m:

Magnesium binding site 1 out of 1 in 7n2m

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Magnesium Binding Sites List in 7n2m

Magnesium binding site 1 out of 1 in the Crystal Structure of Dna Polymerase Alpha Catalytic Core in Complex with Dctp and Template/Primer Having T-C Mismatch at the Post- Insertion Site

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Dna Polymerase Alpha Catalytic Core in Complex with Dctp and Template/Primer Having T-C Mismatch at the Post- Insertion Site within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mg1302 b:1.8 occ:1.00	OD2	A:ASP860	1.8	43.5	1.0
	OD1	A:ASP1004	1.8	20.7	1.0
	O	A:PHE861	1.9	34.9	1.0
	O1B	A:DCP1301	1.9	16.4	1.0
	O3G	A:DCP1301	2.0	26.5	1.0
	O1A	A:DCP1301	2.5	18.1	1.0
	CG	A:ASP860	2.7	41.4	1.0
	CG	A:ASP1004	3.1	22.5	1.0
	OD1	A:ASP860	3.1	30.6	1.0
	C	A:PHE861	3.1	34.2	1.0
	PB	A:DCP1301	3.3	24.8	1.0
	PG	A:DCP1301	3.3	24.1	1.0
	N	A:PHE861	3.7	30.9	1.0
	OD2	A:ASP1004	3.7	13.2	1.0
	ZN	A:ZN1303	3.7	38.4	1.0
	PA	A:DCP1301	3.8	26.2	1.0
	O1G	A:DCP1301	3.8	31.1	1.0
	O3B	A:DCP1301	3.8	22.2	1.0
	CA	A:PHE861	3.9	32.2	1.0
	CB	A:ASP860	4.0	35.7	1.0
	O3A	A:DCP1301	4.1	23.4	1.0
	C	A:ASP860	4.1	32.7	1.0
	N	A:ASN862	4.1	32.2	1.0
	CB	A:ASP1004	4.2	18.4	1.0
	C5'	A:DCP1301	4.3	18.7	1.0
	O2B	A:DCP1301	4.3	25.6	1.0
	N	A:SER863	4.4	22.1	1.0
	CB	A:PHE861	4.4	28.4	1.0
	CA	A:ASN862	4.4	28.6	1.0
	O2G	A:DCP1301	4.5	16.5	1.0
	CA	A:ASP860	4.6	35.1	1.0
	O	A:ASP860	4.6	30.4	1.0
	O5'	A:DCP1301	4.7	12.3	1.0
	O	A:ASP1004	4.7	29.2	1.0
	C	A:ASN862	4.7	26.5	1.0
	N	A:LEU864	4.7	24.7	1.0
	O	A:HOH1449	4.8	29.9	1.0
	O2A	A:DCP1301	4.9	21.3	1.0
	CB	A:LEU864	5.0	23.1	1.0

Reference:

A.G.Baranovskiy, N.D.Babayeva, A.E.Lisova, L.M.Morstadt, T.H.Tahirov. Structural and Functional Insight Into Mismatch Extension By Human Dna Polymerase Alpha. Proc.Natl.Acad.Sci.Usa V. 119 44119 2022.
ISSN: ESSN 1091-6490
PubMed: 35467978
DOI: 10.1073/PNAS.2111744119

Page generated: Thu Apr 6 17:40:10 2023

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