Magnesium in PDB 9fjp: Cryo-Em Structure of Mycobacterium Tuberculosis Sigma-B Rna Polymerase Bound to -10 Promoter Element Ssdna Oligo

Enzymatic activity of Cryo-Em Structure of Mycobacterium Tuberculosis Sigma-B Rna Polymerase Bound to -10 Promoter Element Ssdna Oligo

All present enzymatic activity of Cryo-Em Structure of Mycobacterium Tuberculosis Sigma-B Rna Polymerase Bound to -10 Promoter Element Ssdna Oligo:
2.7.7.6;

Other elements in 9fjp:

The structure of Cryo-Em Structure of Mycobacterium Tuberculosis Sigma-B Rna Polymerase Bound to -10 Promoter Element Ssdna Oligo also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of Mycobacterium Tuberculosis Sigma-B Rna Polymerase Bound to -10 Promoter Element Ssdna Oligo (pdb code 9fjp). 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 Mycobacterium Tuberculosis Sigma-B Rna Polymerase Bound to -10 Promoter Element Ssdna Oligo, PDB code: 9fjp:

Magnesium binding site 1 out of 1 in 9fjp

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Magnesium Binding Sites List in 9fjp

Magnesium binding site 1 out of 1 in the Cryo-Em Structure of Mycobacterium Tuberculosis Sigma-B Rna Polymerase Bound to -10 Promoter Element Ssdna Oligo

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 Mycobacterium Tuberculosis Sigma-B Rna Polymerase Bound to -10 Promoter Element Ssdna Oligo within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
d:Mg1503 b:33.9 occ:1.00	OD1	d:ASP537	2.1	26.6	1.0
	OD1	d:ASP535	2.1	29.9	1.0
	OD2	d:ASP535	2.1	41.7	1.0
	OD1	d:ASP539	2.1	32.4	1.0
	OD2	d:ASP539	2.1	34.5	1.0
	CG	d:ASP535	2.2	36.9	1.0
	CG	d:ASP539	2.4	34.0	1.0
	O	d:ASP535	2.9	31.9	1.0
	CG	d:ASP537	3.0	27.6	1.0
	OD2	d:ASP537	3.3	33.1	1.0
	CB	d:ASP535	3.5	26.8	1.0
	C	d:ASP535	3.7	21.5	1.0
	CB	d:ASP539	3.9	22.7	1.0
	N	d:ASP535	3.9	18.1	1.0
	CA	d:ASP535	3.9	19.5	1.0
	CB	d:ASP537	4.3	19.8	1.0
	N	d:ASP537	4.4	23.6	1.0
	N	d:ASP539	4.5	27.4	1.0
	NH2	d:ARG500	4.5	22.7	1.0
	CA	d:ASP539	4.7	22.2	1.0
	CA	d:ASP537	4.7	18.5	1.0
	C	d:ASP537	4.8	25.0	1.0
	N	d:PHE536	4.9	17.8	1.0
	O	d:ASP537	5.0	27.5	1.0

Reference:

R.K.Vishwakarma, N.Marechal, Z.Morichaud, L.Makrini, M.Blaise, E.Margeat, K.Brodolin. Single-Stranded Dna Drives Sigma Subunit Loading Onto Mycobacterial Rna Polymerase to Unlock Initiation-Competent Conformations Nucleic Acids Res. 2025.
ISSN: ESSN 1362-4962
DOI: 10.1093/NAR/GKAF272

Page generated: Sat Aug 16 02:01:14 2025

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