Iodine in PDB 3s2h: Rna Polymerase II Initiation Complex with A 6-Nt Rna Containing A 2[Prime]-Iodo Atp

Enzymatic activity of Rna Polymerase II Initiation Complex with A 6-Nt Rna Containing A 2[Prime]-Iodo Atp

All present enzymatic activity of Rna Polymerase II Initiation Complex with A 6-Nt Rna Containing A 2[Prime]-Iodo Atp:
2.7.7.6;

Protein crystallography data

The structure of Rna Polymerase II Initiation Complex with A 6-Nt Rna Containing A 2[Prime]-Iodo Atp, PDB code: 3s2h was solved by X.Liu, D.A.Bushnell, D.A.Silva, X.Huang, R.D.Kornberg, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	49.81 / 3.30
*Space group*	C 1 2 1
*Cell size a, b, c (Å), α, β, γ (°)*	165.533, 221.608, 194.056, 90.00, 99.67, 90.00
*R / R_free (%)*	19.1 / 24

Other elements in 3s2h:

The structure of Rna Polymerase II Initiation Complex with A 6-Nt Rna Containing A 2[Prime]-Iodo Atp also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Zinc	(Zn)	8 atoms

Iodine Binding Sites:

The binding sites of Iodine atom in the Rna Polymerase II Initiation Complex with A 6-Nt Rna Containing A 2[Prime]-Iodo Atp (pdb code 3s2h). This binding sites where shown within 5.0 Angstroms radius around Iodine atom.
In total only one binding site of Iodine was determined in the Rna Polymerase II Initiation Complex with A 6-Nt Rna Containing A 2[Prime]-Iodo Atp, PDB code: 3s2h:

Iodine binding site 1 out of 1 in 3s2h

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Iodine Binding Sites List in 3s2h

Iodine binding site 1 out of 1 in the Rna Polymerase II Initiation Complex with A 6-Nt Rna Containing A 2[Prime]-Iodo Atp

Mono view

Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 1 of Rna Polymerase II Initiation Complex with A 6-Nt Rna Containing A 2[Prime]-Iodo Atp within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
R:I10 b:0.7 occ:0.40	I	R:2IA10	0.0	0.7	0.4
	C2'	R:2IA10	2.2	0.1	1.0
	C1'	R:2IA10	3.1	1.0	1.0
	C3'	R:2IA10	3.1	0.5	1.0
	O3'	R:2IA10	3.2	0.6	1.0
	CA	A:ASP485	3.6	75.7	1.0
	N	A:GLU486	3.7	72.8	1.0
	O4'	R:2IA10	3.7	0.3	1.0
	NH2	A:ARG446	3.8	0.4	1.0
	C4'	R:2IA10	3.8	0.6	1.0
	CB	A:ASP485	4.0	78.8	1.0
	C	A:ASP485	4.2	77.0	1.0
	O	A:GLU486	4.3	78.7	1.0
	N9	R:2IA10	4.4	0.7	1.0
	CZ	A:ARG446	4.4	1.0	1.0
	N3	R:2IA10	4.5	0.8	1.0
	CG	A:ASP485	4.5	91.8	1.0
	NE	A:ARG446	4.6	89.7	1.0
	N	A:ASP485	4.7	75.4	1.0
	C4	R:2IA10	4.8	0.7	1.0
	CA	A:GLU486	4.8	73.1	1.0
	OD2	A:ASP485	5.0	93.8	1.0
	OD1	A:ASP485	5.0	93.1	1.0

Reference:

X.Liu, D.A.Bushnell, D.A.Silva, X.Huang, R.D.Kornberg. Initiation Complex Structure and Promoter Proofreading. Science V. 333 633 2011.
ISSN: ISSN 0036-8075
PubMed: 21798951
DOI: 10.1126/SCIENCE.1206629

Page generated: Sun Aug 11 16:35:33 2024

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