Magnesium in PDB 6ctl: Ternary Complex Crystal Structure of Dna Polymerase Beta with A Dideoxy Terminated Primer with Chcl-R/S Isomers, Beta, Gamma Dttp Analogue

Enzymatic activity of Ternary Complex Crystal Structure of Dna Polymerase Beta with A Dideoxy Terminated Primer with Chcl-R/S Isomers, Beta, Gamma Dttp Analogue

All present enzymatic activity of Ternary Complex Crystal Structure of Dna Polymerase Beta with A Dideoxy Terminated Primer with Chcl-R/S Isomers, Beta, Gamma Dttp Analogue:
2.7.7.7;

Protein crystallography data

The structure of Ternary Complex Crystal Structure of Dna Polymerase Beta with A Dideoxy Terminated Primer with Chcl-R/S Isomers, Beta, Gamma Dttp Analogue, PDB code: 6ctl was solved by V.K.Batra, S.H.Wilson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	22.20 / 2.00
*Space group*	P 1 2₁ 1
*Cell size a, b, c (Å), α, β, γ (°)*	50.862, 79.699, 55.119, 90.00, 107.66, 90.00
*R / R_free (%)*	17.9 / 22.5

Other elements in 6ctl:

The structure of Ternary Complex Crystal Structure of Dna Polymerase Beta with A Dideoxy Terminated Primer with Chcl-R/S Isomers, Beta, Gamma Dttp Analogue also contains other interesting chemical elements:

Chlorine	(Cl)	2 atoms
Sodium	(Na)	3 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Ternary Complex Crystal Structure of Dna Polymerase Beta with A Dideoxy Terminated Primer with Chcl-R/S Isomers, Beta, Gamma Dttp Analogue (pdb code 6ctl). 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 Ternary Complex Crystal Structure of Dna Polymerase Beta with A Dideoxy Terminated Primer with Chcl-R/S Isomers, Beta, Gamma Dttp Analogue, PDB code: 6ctl:

Magnesium binding site 1 out of 1 in 6ctl

Go back to

Magnesium Binding Sites List in 6ctl

Magnesium binding site 1 out of 1 in the Ternary Complex Crystal Structure of Dna Polymerase Beta with A Dideoxy Terminated Primer with Chcl-R/S Isomers, Beta, Gamma Dttp Analogue

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Ternary Complex Crystal Structure of Dna Polymerase Beta with A Dideoxy Terminated Primer with Chcl-R/S Isomers, Beta, Gamma Dttp Analogue within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mg401 b:23.0 occ:1.00	O1G	A:FDJ406	2.1	24.2	1.0
	OD1	A:ASP190	2.1	23.3	1.0
	OD2	A:ASP192	2.1	24.6	1.0
	O1B	A:FDJ406	2.1	22.9	1.0
	O	A:HOH601	2.1	25.8	1.0
	O1A	A:FDJ406	2.2	25.6	1.0
	CG	A:ASP192	3.1	22.6	1.0
	CG	A:ASP190	3.2	20.1	1.0
	PB	A:FDJ406	3.2	26.5	1.0
	PG	A:FDJ406	3.3	27.2	1.0
	PA	A:FDJ406	3.3	24.1	1.0
	OD1	A:ASP192	3.5	23.9	1.0
	NA	A:NA402	3.5	28.0	1.0
	O3A	A:FDJ406	3.6	26.9	1.0
	OD2	A:ASP190	3.6	24.2	1.0
	O3G	A:FDJ406	3.7	24.6	1.0
	C3B	A:FDJ406	3.8	26.1	1.0
	O	A:ASP190	4.1	25.1	1.0
	O2A	A:FDJ406	4.3	26.9	1.0
	C	A:ASP190	4.3	24.8	1.0
	O	A:HOH581	4.3	26.2	1.0
	N	A:ASP190	4.4	25.0	1.0
	C5'	A:FDJ406	4.4	24.6	1.0
	O5'	A:FDJ406	4.4	26.3	1.0
	CB	A:ASP190	4.4	23.8	1.0
	O	A:HOH657	4.4	31.9	1.0
	OG	A:SER180	4.4	31.9	1.0
	CB	A:ASP192	4.4	24.3	1.0
	O2B	A:FDJ406	4.5	24.2	1.0
	CA	A:GLY179	4.5	24.4	1.0
	N	A:SER180	4.5	26.7	1.0
	O2G	A:FDJ406	4.5	25.8	1.0
	CA	A:ASP190	4.6	21.0	1.0
	O	P:HOH107	4.7	25.0	1.0
	N	A:ASP192	4.8	25.1	1.0
	N	A:MET191	4.9	23.8	1.0

Reference:

V.K.Batra, K.Oertell, W.A.Beard, B.A.Kashemirov, C.E.Mckenna, M.F.Goodman, S.H.Wilson. Mapping Functional Substrate-Enzyme Interactions in the Pol Beta Active Site Through Chemical Biology: Structural Responses to Acidity Modification of Incoming Dntps. Biochemistry V. 57 3934 2018.
ISSN: ISSN 1520-4995
PubMed: 29874056
DOI: 10.1021/ACS.BIOCHEM.8B00418

Page generated: Wed Aug 13 04:49:02 2025

Last articles

Zn in 9UUO
Zn in 9UUS
Zn in 9W4R
Zn in 9VKW
Zn in 9W4S
Zn in 9VH1
Zn in 9RMX
Zn in 9RMU
Zn in 9QWN
Zn in 9U9Y

	© Copyright 2008-2020 by atomistry.com
Home \| Site Map \| Copyright \| Contact us \| Privacy