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Magnesium in PDB 5iy7: Human Holo-Pic in the Open State

Enzymatic activity of Human Holo-Pic in the Open State

All present enzymatic activity of Human Holo-Pic in the Open State:
2.7.7.48; 2.7.7.6; 3.6.4.12;

Other elements in 5iy7:

The structure of Human Holo-Pic in the Open State also contains other interesting chemical elements:

Zinc (Zn) 11 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Human Holo-Pic in the Open State (pdb code 5iy7). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Human Holo-Pic in the Open State, PDB code: 5iy7:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 5iy7

Go back to Magnesium Binding Sites List in 5iy7
Magnesium binding site 1 out of 2 in the Human Holo-Pic in the Open State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Human Holo-Pic in the Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg2001

b:0.0
occ:1.00
O A:ASN493 1.9 0.0 1.0
OD2 A:ASP495 2.7 0.0 1.0
CG A:ASP495 2.8 0.0 1.0
C A:ASN493 3.1 0.0 1.0
OD1 A:ASP495 3.2 0.0 1.0
N A:ASP495 3.2 0.0 1.0
OD2 A:ASP499 3.3 0.0 1.0
C A:ALA494 3.5 0.0 1.0
CB A:ASP495 3.6 0.0 1.0
CA A:ALA494 3.7 0.0 1.0
N A:ALA494 3.8 0.0 1.0
CA A:ASP495 4.0 0.0 1.0
O A:ALA494 4.1 0.0 1.0
CA A:ASN493 4.2 0.0 1.0
CB A:ASN493 4.3 0.0 1.0
CG A:ASP499 4.4 0.0 1.0
CB U:ALA281 4.8 0.0 1.0
OD1 A:ASP499 4.9 0.0 1.0

Magnesium binding site 2 out of 2 in 5iy7

Go back to Magnesium Binding Sites List in 5iy7
Magnesium binding site 2 out of 2 in the Human Holo-Pic in the Open State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Human Holo-Pic in the Open State within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1201

b:0.0
occ:1.00
OE1 B:GLU791 1.9 0.0 1.0
CD B:GLU791 2.2 0.0 1.0
OD1 A:ASP495 2.5 0.0 1.0
OE2 B:GLU791 2.6 0.0 1.0
CG B:GLU791 3.2 0.0 1.0
O A:ALA494 3.5 0.0 1.0
CG A:ASP495 3.6 0.0 1.0
OG1 A:THR489 3.7 0.0 1.0
O U:ALA281 4.0 0.0 1.0
CB A:ASP495 4.2 0.0 1.0
CA A:ASP495 4.2 0.0 1.0
CB B:GLU791 4.4 0.0 1.0
NE2 A:GLN539 4.4 0.0 1.0
C A:ALA494 4.4 0.0 1.0
OD2 A:ASP495 4.5 0.0 1.0
OD1 U:ASP282 4.6 0.0 1.0
N A:ASP495 4.7 0.0 1.0
CG2 A:THR489 4.7 0.0 1.0
CB A:THR489 4.8 0.0 1.0
C U:ALA281 4.9 0.0 1.0

Reference:

Y.He, C.Yan, J.Fang, C.Inouye, R.Tjian, I.Ivanov, E.Nogales. Near-Atomic Resolution Visualization of Human Transcription Promoter Opening. Nature V. 533 359 2016.
ISSN: ESSN 1476-4687
PubMed: 27193682
DOI: 10.1038/NATURE17970
Page generated: Tue Aug 12 11:55:48 2025

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