Magnesium in PDB 6wox: Thermus Thermophilus Rna Polymerase Initially Transcribing Complex with 2'Dctp

Enzymatic activity of Thermus Thermophilus Rna Polymerase Initially Transcribing Complex with 2'Dctp

All present enzymatic activity of Thermus Thermophilus Rna Polymerase Initially Transcribing Complex with 2'Dctp:
2.7.7.6;

Protein crystallography data

The structure of Thermus Thermophilus Rna Polymerase Initially Transcribing Complex with 2'Dctp, PDB code: 6wox was solved by Y.Shin, K.S.Murakami, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	29.93 / 3.14
*Space group*	C 1 2 1
*Cell size a, b, c (Å), α, β, γ (°)*	185.435, 102.654, 295.382, 90.00, 98.91, 90.00
*R / R_free (%)*	19.6 / 26.1

Other elements in 6wox:

The structure of Thermus Thermophilus Rna Polymerase Initially Transcribing Complex with 2'Dctp also contains other interesting chemical elements:

Zinc	(Zn)	2 atoms
Sodium	(Na)	1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Thermus Thermophilus Rna Polymerase Initially Transcribing Complex with 2'Dctp (pdb code 6wox). 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 Thermus Thermophilus Rna Polymerase Initially Transcribing Complex with 2'Dctp, PDB code: 6wox:

Magnesium binding site 1 out of 1 in 6wox

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Magnesium Binding Sites List in 6wox

Magnesium binding site 1 out of 1 in the Thermus Thermophilus Rna Polymerase Initially Transcribing Complex with 2'Dctp

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Thermus Thermophilus Rna Polymerase Initially Transcribing Complex with 2'Dctp within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
D:Mg1602 b:67.5 occ:1.00	OD1	D:ASP739	1.9	63.0	1.0
	OD1	D:ASP743	2.2	59.6	1.0
	O3'	I:A3	2.2	67.6	1.0
	OD1	D:ASP741	2.3	62.4	1.0
	OD2	D:ASP741	2.3	70.9	1.0
	OD2	D:ASP743	2.3	63.0	1.0
	CG	D:ASP743	2.6	62.9	1.0
	CG	D:ASP741	2.6	64.3	1.0
	CG	D:ASP739	3.1	71.2	1.0
	C3'	I:A3	3.5	66.8	1.0
	OD2	D:ASP739	3.7	78.1	1.0
	H4'	D:DCP1601	3.7	0.8	1.0
	O2'	I:A3	3.7	64.5	1.0
	HO3'	D:DCP1601	4.1	0.5	1.0
	N	D:ASP739	4.1	59.7	1.0
	C4'	I:A3	4.1	66.1	1.0
	C2'	I:A3	4.1	69.7	1.0
	CB	D:ASP743	4.1	55.8	1.0
	CB	D:ASP741	4.1	57.3	1.0
	CB	D:ASP739	4.3	64.0	1.0
	C	D:ASP739	4.4	58.0	1.0
	CA	D:ASP739	4.4	56.5	1.0
	O	D:ASP739	4.4	59.3	1.0
	C4'	D:DCP1601	4.6	89.0	1.0
	O2A	D:DCP1601	4.7	0.0	1.0
	N	D:ASP741	4.7	61.5	1.0
	NH2	D:ARG704	4.7	74.3	1.0
	O4'	D:DCP1601	4.8	81.2	1.0
	N	D:ASP743	4.8	59.5	1.0
	C5'	I:A3	4.8	68.2	1.0
	CA	D:ASP743	4.9	55.7	1.0
	O3'	D:DCP1601	4.9	93.8	1.0
	CA	D:ASP741	4.9	56.7	1.0
	N	D:PHE740	5.0	56.2	1.0

Reference:

Y.Shin, K.S.Murakami. The Mechanism of Discrimination Against 2DNTPS By the Multisubunit Rna Polymerases To Be Published.

Page generated: Tue Oct 1 23:05:55 2024

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