Atomistry » Magnesium » PDB 7qsn-7r0m » 7qtt
Atomistry »
  Magnesium »
    PDB 7qsn-7r0m »
      7qtt »

Magnesium in PDB 7qtt: Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region)

Enzymatic activity of Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region)

All present enzymatic activity of Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region):
2.3.2.27; 3.6.4.13; 5.2.1.8;

Other elements in 7qtt:

The structure of Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region) also contains other interesting chemical elements:

Zinc (Zn) 12 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region) (pdb code 7qtt). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 7 binding sites of Magnesium where determined in the Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region), PDB code: 7qtt:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7;

Magnesium binding site 1 out of 7 in 7qtt

Go back to Magnesium Binding Sites List in 7qtt
Magnesium binding site 1 out of 7 in the Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region) within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Mg1501

b:103.9
occ:1.00
 O1G b:GTP1500 2.1 100.5 1.0
O3A b:GTP1500 2.2 100.5 1.0
O3B b:GTP1500 2.2 100.5 1.0
O2A b:GTP1500 2.2 100.5 1.0
PB b:GTP1500 2.4 100.5 1.0
OG1 b:THR143 2.5 105.9 1.0
PA b:GTP1500 2.6 100.5 1.0
PG b:GTP1500 2.6 100.5 1.0
O2B b:GTP1500 2.9 100.5 1.0
CB b:THR143 3.2 105.9 1.0
O2G b:GTP1500 3.4 100.5 1.0
O1A b:GTP1500 3.4 100.5 1.0
O3G b:GTP1500 3.9 100.5 1.0
O1B b:GTP1500 3.9 100.5 1.0
O5' b:GTP1500 3.9 100.5 1.0
CG2 b:THR143 4.2 105.9 1.0
N b:THR143 4.3 105.9 1.0
CA b:THR143 4.4 105.9 1.0
OD2 b:ASP169 4.4 121.6 1.0
C5' b:GTP1500 4.7 100.5 1.0
N b:GLY180 4.9 111.6 1.0
ND1 b:HIS139 4.9 102.0 1.0

Magnesium binding site 2 out of 7 in 7qtt

Go back to Magnesium Binding Sites List in 7qtt
Magnesium binding site 2 out of 7 in the Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region) within 5.0Å range:
probe atom residue distance (Å) B Occ
d:Mg201

b:94.4
occ:1.00
 OP2 d:U74 2.1 93.8 1.0
OP1 d:G72 2.2 88.6 1.0
P d:U74 3.3 93.8 1.0
OP1 d:G54 3.5 89.8 1.0
OP1 d:U74 3.6 93.8 1.0
P d:G72 3.6 88.6 1.0
O5' d:U74 4.1 93.8 1.0
O5' d:G54 4.3 89.8 1.0
P d:G54 4.4 89.8 1.0
C5' d:U74 4.4 93.8 1.0
OP2 d:G72 4.4 88.6 1.0
O3' g:G-1 4.4 102.2 1.0
O5' d:G72 4.5 88.6 1.0
O3' d:G71 4.5 83.0 1.0
O3' d:A73 4.5 100.4 1.0
O5' g:G1 4.8 107.5 1.0
OP2 d:G54 4.8 89.8 1.0
C5' d:G72 4.8 88.6 1.0
C3' d:A73 4.9 100.4 1.0

Magnesium binding site 3 out of 7 in 7qtt

Go back to Magnesium Binding Sites List in 7qtt
Magnesium binding site 3 out of 7 in the Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region) within 5.0Å range:
probe atom residue distance (Å) B Occ
d:Mg202

b:97.2
occ:1.00
 OP1 d:U74 2.1 93.8 1.0
OP2 d:G54 2.2 89.8 1.0
OP2 d:A53 2.3 93.8 1.0
OP1 d:A53 2.3 93.8 1.0
P d:A53 2.5 93.8 1.0
NZ I:LYS10 2.7 124.5 1.0
O5' d:A53 3.2 93.8 1.0
P d:U74 3.3 93.8 1.0
O5' d:U74 3.4 93.8 1.0
P d:G54 3.6 89.8 1.0
CE I:LYS10 3.7 124.5 1.0
O3' d:A73 4.0 100.4 1.0
O3' d:U52 4.0 107.4 1.0
C5' d:A53 4.2 93.8 1.0
C5' d:G54 4.2 89.8 1.0
OP1 d:G54 4.3 89.8 1.0
O6 d:G46 4.3 102.6 1.0
O5' d:G54 4.3 89.8 1.0
OP2 d:U74 4.5 93.8 1.0
C3' d:A53 4.6 93.8 1.0
O3' d:A53 4.6 93.8 1.0
C5' d:U74 4.8 93.8 1.0
O4' d:U74 4.8 93.8 1.0
C3' d:U52 4.9 107.4 1.0

Magnesium binding site 4 out of 7 in 7qtt

Go back to Magnesium Binding Sites List in 7qtt
Magnesium binding site 4 out of 7 in the Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region) within 5.0Å range:
probe atom residue distance (Å) B Occ
d:Mg203

b:86.5
occ:1.00
 OP1 d:G75 2.2 92.2 1.0
P d:G75 3.6 92.2 1.0
O5' d:G75 4.1 92.2 1.0
N7 d:G75 4.4 92.2 1.0
O4 d:U57 4.4 97.8 1.0
OP2 d:A76 4.4 96.5 1.0
OP2 d:G75 4.5 92.2 1.0
C8 d:G75 4.5 92.2 1.0
O3' d:U74 4.6 93.8 1.0
C2' d:U74 4.6 93.8 1.0
N7 d:A76 4.8 96.5 1.0
C3' d:U74 4.8 93.8 1.0

Magnesium binding site 5 out of 7 in 7qtt

Go back to Magnesium Binding Sites List in 7qtt
Magnesium binding site 5 out of 7 in the Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region) within 5.0Å range:
probe atom residue distance (Å) B Occ
d:Mg204

b:80.8
occ:1.00
 OP2 d:G75 2.1 92.2 1.0
P d:G75 3.4 92.2 1.0
OP1 d:G75 3.9 92.2 1.0
O3' d:U74 4.0 93.8 1.0
OP2 d:G71 4.1 83.0 1.0
OP2 d:A56 4.2 91.4 1.0
OP2 d:G72 4.4 88.6 1.0
O5' d:G75 4.6 92.2 1.0
N7 d:G72 4.7 88.6 1.0
OP2 d:C55 4.7 87.6 1.0
N7 d:G71 4.9 83.0 1.0
C5' d:G71 5.0 83.0 1.0

Magnesium binding site 6 out of 7 in 7qtt

Go back to Magnesium Binding Sites List in 7qtt
Magnesium binding site 6 out of 7 in the Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region) within 5.0Å range:
probe atom residue distance (Å) B Occ
d:Mg205

b:78.4
occ:1.00
 OP1 d:C55 2.1 87.6 1.0
OP1 d:G71 2.1 83.0 1.0
P d:C55 3.4 87.6 1.0
P d:G71 3.4 83.0 1.0
O3' d:G54 3.6 89.8 1.0
O5' d:G71 3.7 83.0 1.0
OE1 a:GLN675 4.0 84.1 1.0
O5' d:C55 4.2 87.6 1.0
C5' d:G71 4.2 83.0 1.0
OP2 d:G71 4.4 83.0 1.0
O3' d:A70 4.5 83.1 1.0
OP2 d:C55 4.6 87.6 1.0
C5' d:C55 4.8 87.6 1.0
C3' d:G54 5.0 89.8 1.0

Magnesium binding site 7 out of 7 in 7qtt

Go back to Magnesium Binding Sites List in 7qtt
Magnesium binding site 7 out of 7 in the Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structural Organization of A Late Activated Human Spliceosome (Baqr, Core Region) within 5.0Å range:
probe atom residue distance (Å) B Occ
d:Mg206

b:104.7
occ:1.00
 OP1 d:A48 2.1 113.8 1.0
OP2 d:A50 3.3 111.5 1.0
P d:A48 3.5 113.8 1.0
OP1 d:G49 4.0 116.2 1.0
OP2 d:A48 4.2 113.8 1.0
O5' d:A48 4.2 113.8 1.0
C5' d:A48 4.3 113.8 1.0
O4 d:U52 4.4 107.4 1.0
O5' d:A47 4.4 101.8 1.0
OP2 d:A47 4.5 101.8 1.0
P d:A50 4.6 111.5 1.0
O3' d:A47 4.6 101.8 1.0
OP1 d:A47 4.6 101.8 1.0
O4 d:U51 4.7 110.1 1.0
P d:A47 4.7 101.8 1.0
C3' d:A47 4.8 101.8 1.0
O5' d:A50 4.9 111.5 1.0
N7 d:A50 5.0 111.5 1.0

Reference:

J.Schmitzova, C.Cretu, C.Dienemann, H.Urlaub, V.Pena. Structural Basis of Catalytic Activation in Human Splicing Nature 2023.
ISSN: ESSN 1476-4687
DOI: 10.1038/S41586-023-06049-W
Page generated: Thu Aug 14 14:25:41 2025

Last articles

Mg in 9D46
Mg in 9DAX
Mg in 9DAO
Mg in 9DAM
Mg in 9DA8
Mg in 9D8S
Mg in 9CXF
Mg in 9D8A
Mg in 9D4N
Mg in 9D19
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy