Magnesium in PDB 1y77: Complete Rna Polymerase II Elongation Complex with Substrate Analogue Gmpcpp

Enzymatic activity of Complete Rna Polymerase II Elongation Complex with Substrate Analogue Gmpcpp

All present enzymatic activity of Complete Rna Polymerase II Elongation Complex with Substrate Analogue Gmpcpp:
2.7.7.6;

Protein crystallography data

The structure of Complete Rna Polymerase II Elongation Complex with Substrate Analogue Gmpcpp, PDB code: 1y77 was solved by H.Kettenberger, K.-J.Armache, P.Cramer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	50.00 / 4.50
*Space group*	C 2 2 2₁
*Cell size a, b, c (Å), α, β, γ (°)*	222.460, 393.070, 283.690, 90.00, 90.00, 90.00
*R / R_free (%)*	29.7 / n/a

Other elements in 1y77:

The structure of Complete Rna Polymerase II Elongation Complex with Substrate Analogue Gmpcpp also contains other interesting chemical elements:

Zinc

(Zn)

8 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Complete Rna Polymerase II Elongation Complex with Substrate Analogue Gmpcpp (pdb code 1y77). 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 Complete Rna Polymerase II Elongation Complex with Substrate Analogue Gmpcpp, PDB code: 1y77:

Magnesium binding site 1 out of 1 in 1y77

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Magnesium Binding Sites List in 1y77

Magnesium binding site 1 out of 1 in the Complete Rna Polymerase II Elongation Complex with Substrate Analogue Gmpcpp

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Complete Rna Polymerase II Elongation Complex with Substrate Analogue Gmpcpp within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mg1736 b:77.3 occ:1.00	O3'	P:C10	1.8	72.8	1.0
	O2'	P:C10	2.6	71.2	1.0
	C3'	P:C10	2.6	73.5	1.0
	OD1	A:ASP481	2.9	89.2	1.0
	OD1	A:ASP483	2.9	94.5	1.0
	C2'	P:C10	3.0	72.1	1.0
	OD2	A:ASP481	3.1	91.2	1.0
	C4'	P:C10	3.1	74.0	1.0
	OD1	A:ASP485	3.2	74.6	1.0
	OD2	A:ASP483	3.2	93.8	1.0
	CG	A:ASP481	3.3	91.1	1.0
	CG	A:ASP483	3.4	91.8	1.0
	OD2	A:ASP485	3.6	72.0	1.0
	CG	A:ASP485	3.8	73.7	1.0
	C5'	P:C10	3.9	76.4	1.0
	O4'	P:C10	4.3	73.2	1.0
	C1'	P:C10	4.3	70.9	1.0
	O5'	P:C10	4.6	77.8	1.0
	CB	A:ASP481	4.8	91.4	1.0
	NH2	A:ARG446	4.9	90.0	1.0
	CB	A:ASP483	5.0	87.9	1.0
	O2A	B:G2P1308	5.0	0.0	0.0

Reference:

H.Kettenberger, K.-J.Armache, P.Cramer. Complete Rna Polymerase II Elongation Complex Structure and Its Interactions with Ntp and Tfiis Mol.Cell V. 16 955 2004.
ISSN: ISSN 1097-2765
PubMed: 15610738
DOI: 10.1016/J.MOLCEL.2004.11.040

Page generated: Sun Aug 10 07:42:16 2025

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