Magnesium in PDB 9ehz: Cryo-Em Structure of Human Rna Polymerase II Elongation Complex in An Intermediate Translocation State

Enzymatic activity of Cryo-Em Structure of Human Rna Polymerase II Elongation Complex in An Intermediate Translocation State

All present enzymatic activity of Cryo-Em Structure of Human Rna Polymerase II Elongation Complex in An Intermediate Translocation State:
2.7.7.6;

Other elements in 9ehz:

The structure of Cryo-Em Structure of Human Rna Polymerase II Elongation Complex in An Intermediate Translocation State also contains other interesting chemical elements:

Zinc

(Zn)

8 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of Human Rna Polymerase II Elongation Complex in An Intermediate Translocation State (pdb code 9ehz). 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 Cryo-Em Structure of Human Rna Polymerase II Elongation Complex in An Intermediate Translocation State, PDB code: 9ehz:

Magnesium binding site 1 out of 1 in 9ehz

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Magnesium Binding Sites List in 9ehz

Magnesium binding site 1 out of 1 in the Cryo-Em Structure of Human Rna Polymerase II Elongation Complex in An Intermediate Translocation State

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of Human Rna Polymerase II Elongation Complex in An Intermediate Translocation State within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
P:Mg101 b:42.5 occ:1.00	O3'	P:C20	1.5	35.7	1.0
	OD1	A:ASP495	2.1	52.7	1.0
	OD1	A:ASP499	2.4	54.2	1.0
	OD1	A:ASP497	2.7	48.0	1.0
	OD2	A:ASP499	2.9	45.5	1.0
	C3'	P:C20	2.9	20.1	1.0
	CG	A:ASP499	2.9	46.6	1.0
	CG	A:ASP495	3.0	50.0	1.0
	OD2	A:ASP495	3.3	53.7	1.0
	O2'	P:C20	3.3	31.2	1.0
	CG	A:ASP497	3.5	45.7	1.0
	OD2	A:ASP497	3.6	47.7	1.0
	C2'	P:C20	3.6	20.9	1.0
	C4'	P:C20	3.7	22.6	1.0
	O	A:ASP497	3.9	46.4	1.0
	O	A:ASP495	4.0	47.1	1.0
	CB	A:ASP499	4.3	36.5	1.0
	C5'	P:C20	4.4	24.4	1.0
	CB	A:ASP495	4.4	40.8	1.0
	O5'	P:C20	4.4	30.1	1.0
	C	A:ASP495	4.5	39.8	1.0
	N	A:ASP495	4.6	45.1	1.0
	N	A:ASP497	4.7	40.2	1.0
	CA	A:ASP495	4.7	37.5	1.0
	C	A:ASP497	4.8	39.2	1.0
	CB	A:ASP497	4.8	40.5	1.0
	NH2	A:ARG460	4.8	41.7	1.0
	C1'	P:C20	4.9	22.3	1.0
	O4'	P:C20	4.9	31.2	1.0

Reference:

A.J.F.Ariza, N.Z.Lue, P.Grob, B.Kaeser, J.Fang, S.A.Kassube, E.Nogales. Structural Insights Into Transcriptional Regulation By the Helicase RECQL5. Biorxiv 2025.
ISSN: ISSN 2692-8205
PubMed: 39975028
DOI: 10.1101/2025.01.29.634372

Page generated: Sat Aug 16 01:00:05 2025

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