Atomistry » Magnesium » PDB 8bf5-8buv » 8bmo
Atomistry »
  Magnesium »
    PDB 8bf5-8buv »
      8bmo »

Magnesium in PDB 8bmo: Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions

Enzymatic activity of Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions

All present enzymatic activity of Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions:
5.6.1.7;

Magnesium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 14;

Binding sites:

The binding sites of Magnesium atom in the Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions (pdb code 8bmo). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 14 binding sites of Magnesium where determined in the Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions, PDB code: 8bmo:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 14 in 8bmo

Go back to Magnesium Binding Sites List in 8bmo
Magnesium binding site 1 out of 14 in the Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg601

b:30.8
occ:1.00
 O1A C:ATP602 2.0 31.1 1.0
O1G C:ATP602 2.0 31.1 1.0
O1B C:ATP602 2.1 31.1 1.0
O3A C:ATP602 2.2 31.1 1.0
PB C:ATP602 2.2 31.1 1.0
O3B C:ATP602 2.4 31.1 1.0
PA C:ATP602 2.5 31.1 1.0
PG C:ATP602 2.7 31.1 1.0
OD2 C:ASP87 3.3 44.1 1.0
O5' C:ATP602 3.5 31.1 1.0
O3G C:ATP602 3.6 31.1 1.0
OD1 C:ASP87 3.7 44.1 1.0
C5' C:ATP602 3.7 31.1 1.0
CG C:ASP87 3.7 44.1 1.0
O2B C:ATP602 3.7 31.1 1.0
O2A C:ATP602 3.8 31.1 1.0
O2G C:ATP602 3.9 31.1 1.0
ND2 C:ASN153 4.1 74.8 1.0
N C:GLY88 4.2 29.5 1.0
CA C:GLY88 4.9 29.5 1.0
C4' C:ATP602 4.9 31.1 1.0
CB C:ASP87 5.0 44.1 1.0

Magnesium binding site 2 out of 14 in 8bmo

Go back to Magnesium Binding Sites List in 8bmo
Magnesium binding site 2 out of 14 in the Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Mg601

b:23.7
occ:1.00
 OD1 I:ASP87 2.1 23.5 1.0
O1B I:ATP602 2.2 24.3 1.0
OD2 I:ASP87 2.3 23.5 1.0
CG I:ASP87 2.5 23.5 1.0
O1G I:ATP602 2.5 24.3 1.0
O1A I:ATP602 2.5 24.3 1.0
PB I:ATP602 3.2 24.3 1.0
O3B I:ATP602 3.4 24.3 1.0
PG I:ATP602 3.5 24.3 1.0
PA I:ATP602 3.6 24.3 1.0
O3A I:ATP602 3.6 24.3 1.0
OG I:SER151 3.9 27.5 1.0
CB I:ASP87 4.0 23.5 1.0
O I:SER151 4.0 27.5 1.0
N I:GLY88 4.2 22.3 1.0
OD2 I:ASP398 4.4 29.7 1.0
O5' I:ATP602 4.5 24.3 1.0
O2G I:ATP602 4.5 24.3 1.0
CA I:SER151 4.5 27.5 1.0
CB I:ASP398 4.6 29.7 1.0
O2B I:ATP602 4.6 24.3 1.0
O3G I:ATP602 4.7 24.3 1.0
CB I:SER151 4.7 27.5 1.0
CA I:ASP87 4.7 23.5 1.0
C I:SER151 4.7 27.5 1.0
O2A I:ATP602 4.8 24.3 1.0
CG I:ASP398 4.9 29.7 1.0

Magnesium binding site 3 out of 14 in 8bmo

Go back to Magnesium Binding Sites List in 8bmo
Magnesium binding site 3 out of 14 in the Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg601

b:41.0
occ:1.00
 O1A A:ATP602 2.0 41.3 1.0
O1G A:ATP602 2.0 41.3 1.0
O3A A:ATP602 2.2 41.3 1.0
O1B A:ATP602 2.2 41.3 1.0
PB A:ATP602 2.2 41.3 1.0
O3B A:ATP602 2.3 41.3 1.0
PA A:ATP602 2.5 41.3 1.0
PG A:ATP602 2.6 41.3 1.0
O3G A:ATP602 3.5 41.3 1.0
O5' A:ATP602 3.5 41.3 1.0
O2A A:ATP602 3.7 41.3 1.0
O2B A:ATP602 3.7 41.3 1.0
OD1 A:ASP87 3.7 62.4 1.0
C5' A:ATP602 3.8 41.3 1.0
O2G A:ATP602 3.8 41.3 1.0
CG A:ASP87 3.9 62.4 1.0
OD2 A:ASP87 3.9 62.4 1.0
N A:GLY88 4.3 42.4 1.0
CB A:ASP87 4.7 62.4 1.0
CA A:ASP87 5.0 62.4 1.0

Magnesium binding site 4 out of 14 in 8bmo

Go back to Magnesium Binding Sites List in 8bmo
Magnesium binding site 4 out of 14 in the Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg601

b:18.8
occ:1.00
 O1B B:ATP602 2.2 21.3 1.0
OD1 B:ASP87 2.2 19.3 1.0
O1G B:ATP602 2.3 21.3 1.0
O1A B:ATP602 2.4 21.3 1.0
OD2 B:ASP87 2.7 19.3 1.0
CG B:ASP87 2.8 19.3 1.0
PB B:ATP602 3.1 21.3 1.0
PG B:ATP602 3.4 21.3 1.0
O3B B:ATP602 3.4 21.3 1.0
PA B:ATP602 3.5 21.3 1.0
O3A B:ATP602 3.5 21.3 1.0
O B:SER151 4.1 23.7 1.0
CB B:ASP87 4.3 19.3 1.0
O2G B:ATP602 4.3 21.3 1.0
OD2 B:ASP398 4.4 26.3 1.0
N B:GLY88 4.4 17.7 1.0
O5' B:ATP602 4.4 21.3 1.0
CA B:SER151 4.5 23.7 1.0
O3G B:ATP602 4.5 21.3 1.0
O2B B:ATP602 4.5 21.3 1.0
CB B:ASP398 4.6 26.3 1.0
O2A B:ATP602 4.7 21.3 1.0
C B:SER151 4.7 23.7 1.0
CB B:SER151 4.8 23.7 1.0
CA B:ASP87 4.9 19.3 1.0
CG B:ASP398 4.9 26.3 1.0

Magnesium binding site 5 out of 14 in 8bmo

Go back to Magnesium Binding Sites List in 8bmo
Magnesium binding site 5 out of 14 in the Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg601

b:36.3
occ:1.00
 O1G E:ATP602 2.0 32.2 1.0
O1A E:ATP602 2.2 32.2 1.0
OD1 E:ASP87 2.2 50.1 1.0
O1B E:ATP602 3.0 32.2 1.0
PG E:ATP602 3.2 32.2 1.0
CG E:ASP87 3.2 50.1 1.0
PA E:ATP602 3.2 32.2 1.0
O3A E:ATP602 3.3 32.2 1.0
O3B E:ATP602 3.3 32.2 1.0
PB E:ATP602 3.3 32.2 1.0
OD2 E:ASP87 3.5 50.1 1.0
O E:SER151 4.0 87.0 1.0
O2G E:ATP602 4.2 32.2 1.0
O3G E:ATP602 4.2 32.2 1.0
O5' E:ATP602 4.3 32.2 1.0
C5' E:ATP602 4.3 32.2 1.0
O2A E:ATP602 4.4 32.2 1.0
CB E:ASP87 4.6 50.1 1.0
N E:GLY88 4.8 37.0 1.0
C E:SER151 4.8 87.0 1.0
O2B E:ATP602 4.9 32.2 1.0
CA E:ASP87 5.0 50.1 1.0

Magnesium binding site 6 out of 14 in 8bmo

Go back to Magnesium Binding Sites List in 8bmo
Magnesium binding site 6 out of 14 in the Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg601

b:22.3
occ:1.00
 O1B F:ATP602 2.1 22.1 1.0
OD1 F:ASP87 2.2 21.3 1.0
O1G F:ATP602 2.4 22.1 1.0
OD2 F:ASP87 2.5 21.3 1.0
O1A F:ATP602 2.5 22.1 1.0
CG F:ASP87 2.7 21.3 1.0
PB F:ATP602 3.2 22.1 1.0
PG F:ATP602 3.5 22.1 1.0
O3B F:ATP602 3.5 22.1 1.0
O3A F:ATP602 3.6 22.1 1.0
PA F:ATP602 3.6 22.1 1.0
O F:SER151 4.0 25.9 1.0
OG F:SER151 4.0 25.9 1.0
CB F:ASP87 4.2 21.3 1.0
OD2 F:ASP398 4.2 27.8 1.0
N F:GLY88 4.3 19.6 1.0
O2G F:ATP602 4.4 22.1 1.0
CA F:SER151 4.5 25.9 1.0
O5' F:ATP602 4.5 22.1 1.0
CB F:ASP398 4.5 27.8 1.0
O2B F:ATP602 4.6 22.1 1.0
O3G F:ATP602 4.6 22.1 1.0
C F:SER151 4.7 25.9 1.0
CB F:SER151 4.7 25.9 1.0
CG F:ASP398 4.8 27.8 1.0
O2A F:ATP602 4.8 22.1 1.0
CA F:ASP87 4.8 21.3 1.0

Magnesium binding site 7 out of 14 in 8bmo

Go back to Magnesium Binding Sites List in 8bmo
Magnesium binding site 7 out of 14 in the Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mg601

b:41.5
occ:1.00
 O1A H:ATP602 2.0 39.3 1.0
O1G H:ATP602 2.0 39.3 1.0
O1B H:ATP602 2.1 39.3 1.0
PB H:ATP602 2.2 39.3 1.0
O3A H:ATP602 2.2 39.3 1.0
O3B H:ATP602 2.3 39.3 1.0
PA H:ATP602 2.5 39.3 1.0
PG H:ATP602 2.6 39.3 1.0
OD1 H:ASP87 2.9 53.1 1.0
CG H:ASP87 3.5 53.1 1.0
O5' H:ATP602 3.5 39.3 1.0
O3G H:ATP602 3.5 39.3 1.0
OD2 H:ASP87 3.6 53.1 1.0
C5' H:ATP602 3.7 39.3 1.0
O2B H:ATP602 3.7 39.3 1.0
O2A H:ATP602 3.8 39.3 1.0
O2G H:ATP602 3.8 39.3 1.0
N H:GLY88 4.2 37.4 1.0
ND2 H:ASN153 4.3 129.3 1.0
CB H:ASP87 4.8 53.1 1.0
CA H:GLY88 4.8 37.4 1.0
C4' H:ATP602 4.9 39.3 1.0
CA H:ASP87 5.0 53.1 1.0

Magnesium binding site 8 out of 14 in 8bmo

Go back to Magnesium Binding Sites List in 8bmo
Magnesium binding site 8 out of 14 in the Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Mg601

b:9.2
occ:1.00
 OD1 J:ASP87 2.2 10.2 1.0
O1A J:ATP602 2.2 11.6 1.0
O1G J:ATP602 2.2 11.6 1.0
O1B J:ATP602 2.4 11.6 1.0
OD2 J:ASP87 2.6 10.2 1.0
CG J:ASP87 2.7 10.2 1.0
PB J:ATP602 3.2 11.6 1.0
PG J:ATP602 3.4 11.6 1.0
PA J:ATP602 3.4 11.6 1.0
O3B J:ATP602 3.4 11.6 1.0
O3A J:ATP602 3.5 11.6 1.0
O J:SER151 4.0 13.4 1.0
OG J:SER151 4.1 13.4 1.0
CB J:ASP87 4.2 10.2 1.0
OD2 J:ASP398 4.3 14.4 1.0
O2G J:ATP602 4.3 11.6 1.0
N J:GLY88 4.3 9.4 1.0
O5' J:ATP602 4.4 11.6 1.0
O3G J:ATP602 4.5 11.6 1.0
O2A J:ATP602 4.5 11.6 1.0
CB J:ASP398 4.5 14.4 1.0
CA J:SER151 4.6 13.4 1.0
O2B J:ATP602 4.7 11.6 1.0
C J:SER151 4.8 13.4 1.0
CG J:ASP398 4.8 14.4 1.0
CA J:ASP87 4.8 10.2 1.0
CB J:SER151 4.9 13.4 1.0

Magnesium binding site 9 out of 14 in 8bmo

Go back to Magnesium Binding Sites List in 8bmo
Magnesium binding site 9 out of 14 in the Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Mg601

b:37.7
occ:1.00
 O1A L:ATP602 1.9 40.2 1.0
O1G L:ATP602 2.0 40.2 1.0
O3B L:ATP602 2.2 40.2 1.0
PB L:ATP602 2.2 40.2 1.0
O3A L:ATP602 2.2 40.2 1.0
O1B L:ATP602 2.2 40.2 1.0
OD1 L:ASP87 2.4 50.5 1.0
PG L:ATP602 2.5 40.2 1.0
PA L:ATP602 2.5 40.2 1.0
O3G L:ATP602 3.4 40.2 1.0
CG L:ASP87 3.5 50.5 1.0
O5' L:ATP602 3.6 40.2 1.0
O2A L:ATP602 3.7 40.2 1.0
O2B L:ATP602 3.7 40.2 1.0
O2G L:ATP602 3.7 40.2 1.0
C5' L:ATP602 3.8 40.2 1.0
OD2 L:ASP87 3.8 50.5 1.0
N L:GLY88 4.2 36.9 1.0
CB L:ASP87 4.8 50.5 1.0
CA L:GLY88 4.9 36.9 1.0
CA L:ASP87 4.9 50.5 1.0

Magnesium binding site 10 out of 14 in 8bmo

Go back to Magnesium Binding Sites List in 8bmo
Magnesium binding site 10 out of 14 in the Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Structure of Groel:Groes Complex Exhibiting Adp-Conformation in Trans Ring Obtained Under the Continuous Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
M:Mg601

b:20.2
occ:1.00
 O1G M:ATP602 2.1 22.2 1.0
O1A M:ATP602 2.1 22.2 1.0
OD1 M:ASP87 2.2 20.6 1.0
O1B M:ATP602 2.4 22.2 1.0
OD2 M:ASP87 2.8 20.6 1.0
CG M:ASP87 2.8 20.6 1.0
PB M:ATP602 3.2 22.2 1.0
PG M:ATP602 3.2 22.2 1.0
PA M:ATP602 3.3 22.2 1.0
O3B M:ATP602 3.4 22.2 1.0
O3A M:ATP602 3.5 22.2 1.0
O M:SER151 4.1 26.1 1.0
OG M:SER151 4.2 26.1 1.0
O2G M:ATP602 4.2 22.2 1.0
OD2 M:ASP398 4.3 27.5 1.0
O5' M:ATP602 4.3 22.2 1.0
CB M:ASP87 4.3 20.6 1.0
O3G M:ATP602 4.4 22.2 1.0
O2A M:ATP602 4.4 22.2 1.0
N M:GLY88 4.4 19.9 1.0
CB M:ASP398 4.6 27.5 1.0
CA M:SER151 4.6 26.1 1.0
O2B M:ATP602 4.7 22.2 1.0
C M:SER151 4.8 26.1 1.0
CG M:ASP398 4.8 27.5 1.0
CA M:ASP87 4.9 20.6 1.0
CB M:SER151 4.9 26.1 1.0

Reference:

S.Torino, M.Dhurandhar, A.Stroobants, R.Claessens, R.Efremov. Time-Resolved Cryo-Em Using A Combination of Droplet Microfluidics with on-Demand Jetting Nat.Methods 2023.
ISSN: ESSN 1548-7105
DOI: 10.1038/S41592-023-01967-Z
Page generated: Thu Oct 3 19:44:54 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy