Potassium in PDB 8i03: Cryo-Em Structure of the SIN3L Complex From S. Pombe

Enzymatic activity of Cryo-Em Structure of the SIN3L Complex From S. Pombe

All present enzymatic activity of Cryo-Em Structure of the SIN3L Complex From S. Pombe:
3.5.1.98;

Other elements in 8i03:

The structure of Cryo-Em Structure of the SIN3L Complex From S. Pombe also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Cryo-Em Structure of the SIN3L Complex From S. Pombe (pdb code 8i03). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Cryo-Em Structure of the SIN3L Complex From S. Pombe, PDB code: 8i03:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in 8i03

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Potassium Binding Sites List in 8i03

Potassium binding site 1 out of 4 in the Cryo-Em Structure of the SIN3L Complex From S. Pombe

Mono view

Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Cryo-Em Structure of the SIN3L Complex From S. Pombe within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
C:K502 b:5.5 occ:1.00	OD1	C:ASP171	2.5	6.7	1.0
	O	C:HIS175	2.6	5.1	1.0
	O	C:ASP173	2.7	6.6	1.0
	O	C:PHE195	2.8	6.6	1.0
	O	C:ASP171	3.2	6.7	1.0
	N	C:PHE195	3.4	6.6	1.0
	CG	C:ASP171	3.4	6.7	1.0
	C	C:PHE195	3.5	6.6	1.0
	CB	C:SER194	3.7	9.3	1.0
	C	C:ASP171	3.7	6.7	1.0
	C	C:HIS175	3.8	5.1	1.0
	C	C:ASP173	3.8	6.6	1.0
	CB	C:HIS196	4.0	6.5	1.0
	CB	C:ASP171	4.0	6.7	1.0
	C	C:SER194	4.0	9.3	1.0
	N	C:ASP173	4.1	6.6	1.0
	OG	C:SER194	4.1	9.3	1.0
	CA	C:SER194	4.1	9.3	1.0
	CA	C:PHE195	4.1	6.6	1.0
	N	C:ILE172	4.2	5.9	1.0
	N	C:HIS196	4.3	6.5	1.0
	CA	C:ILE172	4.3	5.9	1.0
	C	C:ILE172	4.3	5.9	1.0
	OD2	C:ASP171	4.3	6.7	1.0
	CA	C:HIS196	4.4	6.5	1.0
	ND1	C:HIS196	4.4	6.5	1.0
	CA	C:ASP173	4.4	6.6	1.0
	CA	C:ASP171	4.5	6.7	1.0
	CA	C:HIS176	4.5	5.8	1.0
	N	C:HIS175	4.5	5.1	1.0
	N	C:GLY177	4.6	11.9	1.0
	N	C:HIS176	4.6	5.8	1.0
	CG	C:HIS196	4.6	6.5	1.0
	CB	C:ASP173	4.8	6.6	1.0
	C	C:VAL174	4.8	5.9	1.0
	CA	C:HIS175	4.8	5.1	1.0
	O	C:SER194	4.9	9.3	1.0
	N	C:VAL174	4.9	5.9	1.0
	CB	C:PHE195	4.9	6.6	1.0
	C	C:HIS176	5.0	5.8	1.0

Potassium binding site 2 out of 4 in 8i03

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Potassium Binding Sites List in 8i03

Potassium binding site 2 out of 4 in the Cryo-Em Structure of the SIN3L Complex From S. Pombe

Mono view

Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Cryo-Em Structure of the SIN3L Complex From S. Pombe within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
C:K503 b:4.7 occ:1.00	O	C:PHE184	2.6	3.6	1.0
	O	C:VAL190	2.7	4.7	1.0
	O	C:THR187	2.7	6.6	1.0
	O	C:TYR219	2.8	11.5	1.0
	CB	C:TYR219	3.5	11.5	1.0
	C	C:TYR219	3.7	11.5	1.0
	C	C:PHE184	3.8	3.6	1.0
	C	C:THR187	3.9	6.6	1.0
	C	C:VAL190	3.9	4.7	1.0
	O	C:TYR185	4.2	5.6	1.0
	CA	C:TYR219	4.3	11.5	1.0
	N	C:THR187	4.3	6.6	1.0
	CG2	C:THR187	4.3	6.6	1.0
	C	C:TYR185	4.4	5.6	1.0
	CA	C:MET191	4.5	7.5	1.0
	CA	C:TYR185	4.5	5.6	1.0
	CB	C:PHE184	4.6	3.6	1.0
	N	C:TYR185	4.6	5.6	1.0
	CA	C:THR187	4.6	6.6	1.0
	N	C:MET191	4.7	7.5	1.0
	N	C:ALA220	4.7	8.6	1.0
	CG	C:TYR219	4.7	11.5	1.0
	CA	C:GLY216	4.7	12.2	1.0
	O	C:GLY216	4.8	12.2	1.0
	CG2	C:THR192	4.8	10.7	1.0
	CA	C:PHE184	4.8	3.6	1.0
	N	C:THR192	4.9	10.7	1.0
	N	C:ASP188	4.9	7.8	1.0
	CA	C:VAL190	4.9	4.7	1.0
	N	C:VAL190	5.0	4.7	1.0

Potassium binding site 3 out of 4 in 8i03

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Potassium Binding Sites List in 8i03

Potassium binding site 3 out of 4 in the Cryo-Em Structure of the SIN3L Complex From S. Pombe

Mono view

Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Cryo-Em Structure of the SIN3L Complex From S. Pombe within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
D:K502 b:1.6 occ:1.00	O	D:ASP173	2.6	8.9	1.0
	OD2	D:ASP171	2.6	35.7	1.0
	O	D:HIS175	2.9	4.4	1.0
	O	D:PHE195	3.3	7.0	1.0
	O	D:ASP171	3.4	35.7	1.0
	N	D:PHE195	3.4	7.0	1.0
	CG	D:ASP171	3.5	35.7	1.0
	C	D:PHE195	3.6	7.0	1.0
	CB	D:SER194	3.6	6.9	1.0
	C	D:ASP173	3.7	8.9	1.0
	CB	D:HIS196	3.8	5.8	1.0
	C	D:ASP171	3.9	35.7	1.0
	CA	D:SER194	3.9	6.9	1.0
	N	D:ASP173	3.9	8.9	1.0
	CB	D:ASP171	3.9	35.7	1.0
	C	D:HIS175	4.0	4.4	1.0
	C	D:SER194	4.0	6.9	1.0
	CA	D:PHE195	4.1	7.0	1.0
	N	D:HIS196	4.1	5.8	1.0
	CA	D:HIS196	4.2	5.8	1.0
	CA	D:HIS176	4.3	3.5	1.0
	CA	D:ASP173	4.3	8.9	1.0
	ND1	D:HIS196	4.4	5.8	1.0
	N	D:ILE172	4.4	12.3	1.0
	N	D:GLY177	4.5	4.0	1.0
	OD1	D:ASP171	4.5	35.7	1.0
	CA	D:ILE172	4.6	12.3	1.0
	C	D:ILE172	4.6	12.3	1.0
	CA	D:ASP171	4.6	35.7	1.0
	CG	D:HIS196	4.6	5.8	1.0
	N	D:HIS176	4.6	3.5	1.0
	CB	D:ASP173	4.6	8.9	1.0
	OG	D:SER194	4.7	6.9	1.0
	C	D:HIS176	4.8	3.5	1.0
	C	D:VAL174	4.8	5.8	1.0
	N	D:VAL174	4.9	5.8	1.0
	O	D:VAL174	4.9	5.8	1.0
	N	D:HIS175	4.9	4.4	1.0
	CB	D:PHE195	5.0	7.0	1.0

Potassium binding site 4 out of 4 in 8i03

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Potassium Binding Sites List in 8i03

Potassium binding site 4 out of 4 in the Cryo-Em Structure of the SIN3L Complex From S. Pombe

Mono view

Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Cryo-Em Structure of the SIN3L Complex From S. Pombe within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
D:K503 b:29.1 occ:1.00	O	D:PHE184	2.6	4.6	1.0
	O	D:VAL190	2.7	5.5	1.0
	O	D:THR187	3.0	9.5	1.0
	O	D:TYR219	3.6	11.6	1.0
	C	D:PHE184	3.8	4.6	1.0
	C	D:VAL190	3.9	5.5	1.0
	CB	D:TYR219	4.1	11.6	1.0
	C	D:THR187	4.2	9.5	1.0
	C	D:TYR219	4.2	11.6	1.0
	CG2	D:THR192	4.2	8.5	1.0
	CA	D:MET191	4.4	8.0	1.0
	CB	D:PHE184	4.4	4.6	1.0
	CG2	D:THR187	4.5	9.5	1.0
	CA	D:TYR185	4.5	10.3	1.0
	N	D:THR187	4.5	9.5	1.0
	C	D:TYR185	4.6	10.3	1.0
	O	D:TYR185	4.6	10.3	1.0
	N	D:MET191	4.6	8.0	1.0
	N	D:TYR185	4.6	10.3	1.0
	N	D:THR192	4.8	8.5	1.0
	CA	D:PHE184	4.8	4.6	1.0
	CA	D:TYR219	4.8	11.6	1.0
	CA	D:THR187	4.9	9.5	1.0
	CA	D:VAL190	4.9	5.5	1.0
	N	D:ALA220	4.9	7.4	1.0
	O	D:GLY216	4.9	15.9	1.0

Reference:

C.Wang, Z.Guo, C.Chu, Y.Lu, X.Zhang, X.Zhan. Two Assembly Modes For SIN3 Histone Deacetylase Complexes. Cell Discov V. 9 42 2023.
ISSN: ESSN 2056-5968
PubMed: 37076472
DOI: 10.1038/S41421-023-00539-X

Page generated: Sat Aug 9 17:07:48 2025

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