Magnesium in PDB 8sqj: Sars-Cov-2 Replication-Transcription Complex Bound to Rna-NSP9, As A Noncatalytic Rna-NSP9 Binding Mode

Enzymatic activity of Sars-Cov-2 Replication-Transcription Complex Bound to Rna-NSP9, As A Noncatalytic Rna-NSP9 Binding Mode

All present enzymatic activity of Sars-Cov-2 Replication-Transcription Complex Bound to Rna-NSP9, As A Noncatalytic Rna-NSP9 Binding Mode:
2.7.7.48;

Other elements in 8sqj:

The structure of Sars-Cov-2 Replication-Transcription Complex Bound to Rna-NSP9, As A Noncatalytic Rna-NSP9 Binding Mode also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Sars-Cov-2 Replication-Transcription Complex Bound to Rna-NSP9, As A Noncatalytic Rna-NSP9 Binding Mode (pdb code 8sqj). 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 Sars-Cov-2 Replication-Transcription Complex Bound to Rna-NSP9, As A Noncatalytic Rna-NSP9 Binding Mode, PDB code: 8sqj:

Magnesium binding site 1 out of 1 in 8sqj

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Magnesium Binding Sites List in 8sqj

Magnesium binding site 1 out of 1 in the Sars-Cov-2 Replication-Transcription Complex Bound to Rna-NSP9, As A Noncatalytic Rna-NSP9 Binding Mode

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Sars-Cov-2 Replication-Transcription Complex Bound to Rna-NSP9, As A Noncatalytic Rna-NSP9 Binding Mode within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mg1002 b:31.8 occ:1.00	OD1	A:ASN209	2.3	32.1	1.0
	OP1	O:A1	2.5	57.1	1.0
	OD2	A:ASP208	2.9	31.9	1.0
	OD2	A:ASP218	3.1	46.2	1.0
	CG	A:ASN209	3.4	23.9	1.0
	HD21	A:ASN209	3.6	25.3	1.0
	CG	A:ASP218	3.7	42.8	1.0
	HB2	A:ASP218	3.8	37.6	1.0
	P	O:A1	3.9	65.9	1.0
	ND2	A:ASN209	3.9	23.4	1.0
	HB3	A:ASP218	4.0	38.4	1.0
	CG	A:ASP208	4.1	26.4	1.0
	CB	A:ASP218	4.1	34.4	1.0
	H2	G:ASN1	4.2	45.9	1.0
	HE1	A:PHE35	4.2	34.6	1.0
	HD1	A:PHE35	4.3	34.9	1.0
	HA	A:ASN209	4.4	23.8	1.0
	OP2	O:U2	4.4	85.4	1.0
	O	A:ASP208	4.4	24.0	1.0
	O5'	O:A1	4.4	50.5	1.0
	HB2	A:ASP208	4.4	26.7	1.0
	OD1	A:ASP218	4.5	51.3	1.0
	OP2	O:A1	4.5	61.0	1.0
	O	A:HOH1102	4.6	4.8	1.0
	H4'	O:A1	4.6	55.1	1.0
	CB	A:ASN209	4.7	15.6	1.0
	C	A:ASP208	4.7	17.1	1.0
	HE1	A:TYR217	4.7	36.0	1.0
	OP1	O:U2	4.8	81.2	1.0
	HD22	A:ASN209	4.8	25.5	1.0
	N	G:ASN1	4.8	49.8	1.0
	H3	G:ASN1	4.8	44.0	1.0
	CB	A:ASP208	4.8	22.1	1.0
	H1	G:ASN1	4.9	44.6	1.0
	CA	A:ASN209	4.9	9.1	1.0
	N	A:ASN209	4.9	22.1	1.0
	OD1	A:ASP208	4.9	30.3	1.0
	CE1	A:PHE35	4.9	31.8	1.0
	CD1	A:PHE35	5.0	30.1	1.0

Reference:

G.I.Small, O.Fedorova, P.D.B.Olinares, J.Chandanani, A.Banerjee, Y.J.Choi, H.Molina, B.T.Chait, S.A.Darst, E.A.Campbell. Structural and Functional Insights Into the Enzymatic Plasticity of the Sars-Cov-2 Niran Domain. Mol.Cell V. 83 3921 2023.
ISSN: ISSN 1097-2765
PubMed: 37890482
DOI: 10.1016/J.MOLCEL.2023.10.001

Page generated: Thu Dec 28 10:22:20 2023

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