Atomistry » Calcium » PDB 7xvw-7yqs » 7xw2
Atomistry »
  Calcium »
    PDB 7xvw-7yqs »
      7xw2 »

Calcium in PDB 7xw2: Cryo-Em Structure of Human Dicer-Pre-Mirna in A Dicing State

Enzymatic activity of Cryo-Em Structure of Human Dicer-Pre-Mirna in A Dicing State

All present enzymatic activity of Cryo-Em Structure of Human Dicer-Pre-Mirna in A Dicing State:
3.1.26.3;

Calcium Binding Sites:

The binding sites of Calcium atom in the Cryo-Em Structure of Human Dicer-Pre-Mirna in A Dicing State (pdb code 7xw2). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Cryo-Em Structure of Human Dicer-Pre-Mirna in A Dicing State, PDB code: 7xw2:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 7xw2

Go back to Calcium Binding Sites List in 7xw2
Calcium binding site 1 out of 2 in the Cryo-Em Structure of Human Dicer-Pre-Mirna in A Dicing State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cryo-Em Structure of Human Dicer-Pre-Mirna in A Dicing State within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca2001

b:30.0
occ:1.00
OP1 C:C52 2.0 73.2 1.0
OE1 A:GLU1564 2.6 39.2 1.0
OE2 A:GLU1564 2.9 39.2 1.0
CD A:GLU1564 3.0 39.2 1.0
OD1 A:ASP1561 3.1 41.1 1.0
P C:C52 3.4 73.2 1.0
O5' C:C52 4.1 73.2 1.0
OD1 A:ASP1320 4.1 40.6 1.0
CG A:ASP1561 4.2 41.1 1.0
OP2 C:C52 4.3 73.2 1.0
O3' C:G51 4.4 75.1 1.0
CG A:GLU1564 4.5 39.2 1.0
C5' C:C52 4.5 73.2 1.0
OD1 A:ASN1353 4.6 49.3 1.0
O A:ALA1560 4.8 38.2 1.0
CA A:ASP1561 4.8 41.1 1.0
OE1 A:GLU1316 4.8 46.2 1.0
CG A:ASP1320 4.8 40.6 1.0
OD2 A:ASP1320 4.8 40.6 1.0
CB A:ASP1561 4.9 41.1 1.0
CD A:GLU1316 4.9 46.2 1.0

Calcium binding site 2 out of 2 in 7xw2

Go back to Calcium Binding Sites List in 7xw2
Calcium binding site 2 out of 2 in the Cryo-Em Structure of Human Dicer-Pre-Mirna in A Dicing State


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cryo-Em Structure of Human Dicer-Pre-Mirna in A Dicing State within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca2002

b:30.0
occ:1.00
OE2 A:GLU1705 1.9 62.8 1.0
OP1 C:U23 2.0 87.2 1.0
CD A:GLU1705 2.4 62.8 1.0
OE1 A:GLU1705 2.4 62.8 1.0
OD1 A:ASP1810 2.7 69.4 1.0
P C:U23 3.5 87.2 1.0
OD2 A:ASP1810 3.5 69.4 1.0
CG A:ASP1810 3.5 69.4 1.0
OE1 A:GLU1813 3.7 56.5 1.0
CG A:GLU1705 3.9 62.8 1.0
OP2 C:U23 4.2 87.2 1.0
O5' C:U23 4.3 87.2 1.0
C5' C:U23 4.4 87.2 1.0
O3' C:U22 4.4 75.1 1.0
ND2 A:ASN1742 4.5 59.2 1.0
OD2 A:ASP1709 4.6 48.0 1.0
CD A:GLU1813 4.6 56.5 1.0
CB A:GLU1705 4.8 62.8 1.0
CB A:ASP1810 5.0 69.4 1.0

Reference:

Y.Y.Lee, H.Lee, H.Kim, V.N.Kim, S.H.Roh. Structure of the Human Dicer-Pre-Mirna Complex in A Dicing State. Nature 2023.
ISSN: ESSN 1476-4687
PubMed: 36813958
DOI: 10.1038/S41586-023-05723-3
Page generated: Thu Jul 10 02:33:18 2025

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy