Platinum in PDB 4tus: Human Dna Polymerase Beta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2) with Manganese in the Active Site.

Enzymatic activity of Human Dna Polymerase Beta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2) with Manganese in the Active Site.

All present enzymatic activity of Human Dna Polymerase Beta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2) with Manganese in the Active Site.:
2.7.7.7;

Protein crystallography data

The structure of Human Dna Polymerase Beta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2) with Manganese in the Active Site., PDB code: 4tus was solved by M.C.Koag, S.Lee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	19.81 / 2.42
*Space group*	P 1 2₁ 1
*Cell size a, b, c (Å), α, β, γ (°)*	54.878, 78.417, 54.803, 90.00, 112.80, 90.00
*R / R_free (%)*	20 / 24.3

Other elements in 4tus:

The structure of Human Dna Polymerase Beta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2) with Manganese in the Active Site. also contains other interesting chemical elements:

Manganese	(Mn)	2 atoms
Sodium	(Na)	2 atoms

Platinum Binding Sites:

The binding sites of Platinum atom in the Human Dna Polymerase Beta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2) with Manganese in the Active Site. (pdb code 4tus). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total only one binding site of Platinum was determined in the Human Dna Polymerase Beta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2) with Manganese in the Active Site., PDB code: 4tus:

Platinum binding site 1 out of 1 in 4tus

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Platinum Binding Sites List in 4tus

Platinum binding site 1 out of 1 in the Human Dna Polymerase Beta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2) with Manganese in the Active Site.

Mono view

Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of Human Dna Polymerase Beta Inserting Dcmpnpp Opposite the 5'G of Cisplatin Crosslinked Gs (Pt-GG2) with Manganese in the Active Site. within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
T:Pt101 b:42.3 occ:1.00	PT1	T:CPT101	0.0	42.3	1.0
	N2	T:CPT101	2.0	21.4	1.0
	N1	T:CPT101	2.1	30.4	1.0
	N7	T:DG7	2.5	51.7	1.0
	N7	T:DG6	2.5	56.9	1.0
	C5	T:DG7	3.3	55.0	1.0
	C8	T:DG7	3.3	57.9	1.0
	C8	T:DG6	3.4	56.9	1.0
	C5	T:DG6	3.4	58.6	1.0
	O6	T:DG7	3.5	39.5	1.0
	O6	T:DG6	3.6	54.0	1.0
	C6	T:DG7	3.7	41.5	1.0
	C6	T:DG6	3.8	54.0	1.0
	OP1	T:DG6	4.1	56.9	1.0
	O	T:HOH1104	4.2	44.6	1.0
	O	T:HOH1108	4.3	49.4	1.0
	C4	T:DG7	4.3	50.8	1.0
	N9	T:DG7	4.3	54.6	1.0
	NZ	A:LYS280	4.5	59.8	1.0
	N9	T:DG6	4.6	62.8	1.0
	C4	T:DG6	4.6	63.5	1.0
	N1	T:DG7	4.9	45.2	1.0

Reference:

M.C.Koag, L.Lai, S.Lee. Structural Basis For the Inefficient Nucleotide Incorporation Opposite Cisplatin-Dna Lesion By Human Dna Polymerase Beta J.Biol.Chem. 2014.
ISSN: ESSN 1083-351X
PubMed: 25237188
DOI: 10.1074/JBC.M114.605451

Page generated: Wed Dec 16 02:05:03 2020

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