Chlorine in PDB 5bol: Dna Polymerase Beta Ternary Complex with A Templating 5CLC and Incoming Dgtp Analog

Enzymatic activity of Dna Polymerase Beta Ternary Complex with A Templating 5CLC and Incoming Dgtp Analog

All present enzymatic activity of Dna Polymerase Beta Ternary Complex with A Templating 5CLC and Incoming Dgtp Analog:
2.7.7.7;

Protein crystallography data

The structure of Dna Polymerase Beta Ternary Complex with A Templating 5CLC and Incoming Dgtp Analog, PDB code: 5bol was solved by B.D.Freudenthal, S.H.Wilson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	25.52 / 1.98
*Space group*	P 1 2₁ 1
*Cell size a, b, c (Å), α, β, γ (°)*	50.640, 79.114, 55.702, 90.00, 107.65, 90.00
*R / R_free (%)*	19 / 24.7

Other elements in 5bol:

The structure of Dna Polymerase Beta Ternary Complex with A Templating 5CLC and Incoming Dgtp Analog also contains other interesting chemical elements:

Magnesium	(Mg)	2 atoms
Sodium	(Na)	1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Dna Polymerase Beta Ternary Complex with A Templating 5CLC and Incoming Dgtp Analog (pdb code 5bol). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total only one binding site of Chlorine was determined in the Dna Polymerase Beta Ternary Complex with A Templating 5CLC and Incoming Dgtp Analog, PDB code: 5bol:

Chlorine binding site 1 out of 1 in 5bol

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Chlorine Binding Sites List in 5bol

Chlorine binding site 1 out of 1 in the Dna Polymerase Beta Ternary Complex with A Templating 5CLC and Incoming Dgtp Analog

Mono view

Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Dna Polymerase Beta Ternary Complex with A Templating 5CLC and Incoming Dgtp Analog within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
T:Cl6 b:25.6 occ:1.00	CL5	T:4U36	0.0	25.6	1.0
	C5	T:4U36	1.7	21.1	1.0
	C4	T:4U36	2.7	21.0	1.0
	C6	T:4U36	2.7	22.7	1.0
	N4	T:4U36	2.9	16.2	1.0
	ND2	A:ASN37	3.3	27.2	1.0
	O	A:HOH669	3.5	27.8	1.0
	OP1	T:4U36	3.6	25.2	1.0
	O	T:HOH129	3.6	29.8	1.0
	O	A:HOH742	3.6	38.1	1.0
	CE	A:LYS280	3.7	23.5	1.0
	O	A:HOH564	3.8	40.4	1.0
	O	T:HOH107	3.8	30.9	1.0
	N3	T:4U36	3.9	18.5	1.0
	N1	T:4U36	3.9	26.1	1.0
	O	T:HOH125	4.0	30.2	1.0
	CG	A:ASN37	4.0	30.4	1.0
	CD	A:LYS280	4.1	26.9	1.0
	OD1	A:ASN37	4.4	29.6	1.0
	C2	T:4U36	4.4	22.3	1.0
	CG	A:LYS280	4.5	25.2	1.0
	P	T:4U36	4.6	25.8	1.0
	O5'	T:4U36	4.7	24.2	1.0
	O	T:HOH117	4.8	29.7	1.0
	N7	T:DG7	4.9	22.4	1.0
	OP2	T:4U36	4.9	27.7	1.0
	CB	A:ASN37	4.9	21.9	1.0

Reference:

B.I.Fedeles, B.D.Freudenthal, E.Yau, V.Singh, S.C.Chang, D.Li, J.C.Delaney, S.H.Wilson, J.M.Essigmann. Intrinsic Mutagenic Properties of 5-Chlorocytosine: A Mechanistic Connection Between Chronic Inflammation and Cancer. Proc.Natl.Acad.Sci.Usa V. 112 E4571 2015.
ISSN: ESSN 1091-6490
PubMed: 26243878
DOI: 10.1073/PNAS.1507709112

Page generated: Fri Jul 26 05:35:43 2024

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