Arsenic in PDB 4xa5: Crystal Structure of the Pre-Catalytic Ternary Complex of Dna Polymerase Lambda with A Templating A and An Incoming 8-Oxo-Dgtp

Enzymatic activity of Crystal Structure of the Pre-Catalytic Ternary Complex of Dna Polymerase Lambda with A Templating A and An Incoming 8-Oxo-Dgtp

All present enzymatic activity of Crystal Structure of the Pre-Catalytic Ternary Complex of Dna Polymerase Lambda with A Templating A and An Incoming 8-Oxo-Dgtp:
2.7.7.7;

Protein crystallography data

The structure of Crystal Structure of the Pre-Catalytic Ternary Complex of Dna Polymerase Lambda with A Templating A and An Incoming 8-Oxo-Dgtp, PDB code: 4xa5 was solved by M.J.Burak, K.E.Guja, M.Garcia-Diaz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	46.79 / 1.90
*Space group*	P 2₁ 2₁ 2₁
*Cell size a, b, c (Å), α, β, γ (°)*	55.967, 62.340, 141.613, 90.00, 90.00, 90.00
*R / R_free (%)*	19.9 / 22.7

Other elements in 4xa5:

The structure of Crystal Structure of the Pre-Catalytic Ternary Complex of Dna Polymerase Lambda with A Templating A and An Incoming 8-Oxo-Dgtp also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

Arsenic Binding Sites:

The binding sites of Arsenic atom in the Crystal Structure of the Pre-Catalytic Ternary Complex of Dna Polymerase Lambda with A Templating A and An Incoming 8-Oxo-Dgtp (pdb code 4xa5). This binding sites where shown within 5.0 Angstroms radius around Arsenic atom.
In total only one binding site of Arsenic was determined in the Crystal Structure of the Pre-Catalytic Ternary Complex of Dna Polymerase Lambda with A Templating A and An Incoming 8-Oxo-Dgtp, PDB code: 4xa5:

Arsenic binding site 1 out of 1 in 4xa5

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Arsenic Binding Sites List in 4xa5

Arsenic binding site 1 out of 1 in the Crystal Structure of the Pre-Catalytic Ternary Complex of Dna Polymerase Lambda with A Templating A and An Incoming 8-Oxo-Dgtp

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 the Pre-Catalytic Ternary Complex of Dna Polymerase Lambda with A Templating A and An Incoming 8-Oxo-Dgtp within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:As300 b:98.2 occ:0.99	AS	A:CAS300	0.0	98.2	1.0
	CE2	A:CAS300	2.0	96.6	1.0
	CE1	A:CAS300	2.0	93.8	1.0
	SG	A:CAS300	2.2	95.3	1.0
	CB	A:CAS300	3.1	89.7	1.0
	CA	A:CAS300	3.6	82.0	1.0
	N	A:LYS307	3.6	58.2	1.0
	C	A:GLY306	3.9	58.5	1.0
	CA	A:LYS307	4.0	60.6	1.0
	O	A:CAS300	4.3	77.4	1.0
	C	A:CAS300	4.3	83.1	1.0
	O	A:GLY306	4.4	58.3	1.0
	CA	A:GLY306	4.4	56.8	1.0
	OH	A:TYR296	4.5	75.4	1.0
	O	A:ILE305	4.6	64.8	1.0
	CB	A:LYS307	4.7	62.1	1.0
	N	A:CAS300	4.8	77.4	1.0
	CZ	A:TYR296	5.0	78.7	1.0
	CB	A:ALA310	5.0	64.0	1.0

Reference:

M.J.Burak, K.E.Guja, M.Garcia-Diaz. Nucleotide Binding Interactions Modulate Dntp Selectivity and Facilitate 8-Oxo-Dgtp Incorporation By Dna Polymerase Lambda. Nucleic Acids Res. V. 43 8089 2015.
ISSN: ESSN 1362-4962
PubMed: 26220180
DOI: 10.1093/NAR/GKV760

Page generated: Sat Dec 12 01:45:47 2020

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