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Magnesium in PDB 6rkd: Molybdenum Storage Protein Under Turnover Conditions

Other elements in 6rkd:

The structure of Molybdenum Storage Protein Under Turnover Conditions also contains other interesting chemical elements:

Molybdenum (Mo) 192 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Molybdenum Storage Protein Under Turnover Conditions (pdb code 6rkd). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Molybdenum Storage Protein Under Turnover Conditions, PDB code: 6rkd:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 6rkd

Go back to Magnesium Binding Sites List in 6rkd
Magnesium binding site 1 out of 6 in the Molybdenum Storage Protein Under Turnover Conditions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Molybdenum Storage Protein Under Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg302

b:15.2
occ:1.00
 O2A A:ATP301 2.0 14.7 1.0
O2B A:ATP301 2.1 13.4 1.0
O A:PRO227 2.2 15.2 1.0
OE1 A:GLU190 2.7 20.7 1.0
PA A:ATP301 3.3 16.1 1.0
PB A:ATP301 3.3 14.5 1.0
C A:PRO227 3.4 15.0 1.0
CD A:GLU190 3.4 17.9 1.0
O3A A:ATP301 3.5 17.5 1.0
OE2 A:GLU190 3.5 14.1 1.0
NZ A:LYS45 3.8 12.1 1.0
OD2 A:ASP171 3.9 14.5 1.0
CB A:PRO227 4.0 17.1 1.0
CA A:PRO227 4.0 16.1 1.0
O3G A:ATP301 4.2 12.7 1.0
O3B A:ATP301 4.3 14.7 1.0
O5' A:ATP301 4.3 20.2 1.0
C5' A:ATP301 4.3 19.2 1.0
O1A A:ATP301 4.3 20.6 1.0
O1B A:ATP301 4.4 14.9 1.0
N A:VAL228 4.4 15.1 1.0
CA A:VAL228 4.8 13.8 1.0
PG A:ATP301 4.8 12.6 1.0
CG A:GLU190 4.8 14.7 1.0
CG A:ASP171 4.8 13.2 1.0
OD1 A:ASP171 5.0 13.8 1.0

Magnesium binding site 2 out of 6 in 6rkd

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Magnesium binding site 2 out of 6 in the Molybdenum Storage Protein Under Turnover Conditions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Molybdenum Storage Protein Under Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg302

b:15.2
occ:1.00
 O2A C:ATP301 2.0 14.7 1.0
O2B C:ATP301 2.1 13.4 1.0
O C:PRO227 2.2 15.2 1.0
OE1 C:GLU190 2.7 20.7 1.0
PA C:ATP301 3.3 16.1 1.0
PB C:ATP301 3.3 14.5 1.0
C C:PRO227 3.4 15.0 1.0
CD C:GLU190 3.4 17.9 1.0
O3A C:ATP301 3.5 17.5 1.0
OE2 C:GLU190 3.5 14.1 1.0
NZ C:LYS45 3.8 12.1 1.0
OD2 C:ASP171 3.9 14.5 1.0
CB C:PRO227 4.0 17.1 1.0
CA C:PRO227 4.0 16.1 1.0
O3G C:ATP301 4.2 12.7 1.0
O3B C:ATP301 4.3 14.7 1.0
O5' C:ATP301 4.3 20.2 1.0
C5' C:ATP301 4.3 19.2 1.0
O1A C:ATP301 4.3 20.6 1.0
O1B C:ATP301 4.4 14.9 1.0
N C:VAL228 4.4 15.1 1.0
CA C:VAL228 4.8 13.8 1.0
PG C:ATP301 4.8 12.6 1.0
CG C:GLU190 4.8 14.7 1.0
CG C:ASP171 4.8 13.2 1.0
OD1 C:ASP171 5.0 13.8 1.0

Magnesium binding site 3 out of 6 in 6rkd

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Magnesium binding site 3 out of 6 in the Molybdenum Storage Protein Under Turnover Conditions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Molybdenum Storage Protein Under Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg303

b:15.2
occ:1.00
 O2A E:ATP302 2.0 14.7 1.0
O2B E:ATP302 2.1 13.4 1.0
O E:PRO227 2.2 15.2 1.0
OE1 E:GLU190 2.7 20.7 1.0
PA E:ATP302 3.3 16.1 1.0
PB E:ATP302 3.3 14.5 1.0
C E:PRO227 3.4 15.0 1.0
CD E:GLU190 3.4 17.9 1.0
O3A E:ATP302 3.5 17.5 1.0
OE2 E:GLU190 3.5 14.1 1.0
NZ E:LYS45 3.8 12.1 1.0
OD2 E:ASP171 3.9 14.5 1.0
CB E:PRO227 4.0 17.1 1.0
CA E:PRO227 4.0 16.1 1.0
O3G E:ATP302 4.2 12.7 1.0
O5' E:ATP302 4.3 20.2 1.0
O3B E:ATP302 4.3 14.7 1.0
C5' E:ATP302 4.3 19.2 1.0
O1A E:ATP302 4.3 20.6 1.0
O1B E:ATP302 4.4 14.9 1.0
N E:VAL228 4.4 15.1 1.0
CA E:VAL228 4.8 13.8 1.0
PG E:ATP302 4.8 12.6 1.0
CG E:GLU190 4.8 14.7 1.0
CG E:ASP171 4.8 13.2 1.0
OD1 E:ASP171 5.0 13.8 1.0

Magnesium binding site 4 out of 6 in 6rkd

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Magnesium binding site 4 out of 6 in the Molybdenum Storage Protein Under Turnover Conditions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Molybdenum Storage Protein Under Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg302

b:15.2
occ:1.00
 O2A G:ATP301 2.0 14.7 1.0
O2B G:ATP301 2.1 13.4 1.0
O G:PRO227 2.2 15.2 1.0
OE1 G:GLU190 2.7 20.7 1.0
PA G:ATP301 3.3 16.1 1.0
PB G:ATP301 3.3 14.5 1.0
C G:PRO227 3.4 15.0 1.0
CD G:GLU190 3.4 17.9 1.0
O3A G:ATP301 3.5 17.5 1.0
OE2 G:GLU190 3.5 14.1 1.0
NZ G:LYS45 3.8 12.1 1.0
OD2 G:ASP171 3.9 14.5 1.0
CB G:PRO227 4.0 17.1 1.0
CA G:PRO227 4.0 16.1 1.0
O3G G:ATP301 4.2 12.7 1.0
O3B G:ATP301 4.3 14.7 1.0
O5' G:ATP301 4.3 20.2 1.0
C5' G:ATP301 4.3 19.2 1.0
O1A G:ATP301 4.3 20.6 1.0
O1B G:ATP301 4.4 14.9 1.0
N G:VAL228 4.4 15.1 1.0
CA G:VAL228 4.8 13.8 1.0
PG G:ATP301 4.8 12.6 1.0
CG G:GLU190 4.8 14.7 1.0
CG G:ASP171 4.8 13.2 1.0
OD1 G:ASP171 5.0 13.8 1.0

Magnesium binding site 5 out of 6 in 6rkd

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Magnesium binding site 5 out of 6 in the Molybdenum Storage Protein Under Turnover Conditions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Molybdenum Storage Protein Under Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Mg303

b:15.2
occ:1.00
 O2A I:ATP302 2.0 14.7 1.0
O2B I:ATP302 2.1 13.4 1.0
O I:PRO227 2.2 15.2 1.0
OE1 I:GLU190 2.7 20.7 1.0
PA I:ATP302 3.3 16.1 1.0
PB I:ATP302 3.3 14.5 1.0
C I:PRO227 3.4 15.0 1.0
CD I:GLU190 3.4 17.9 1.0
O3A I:ATP302 3.5 17.5 1.0
OE2 I:GLU190 3.5 14.1 1.0
NZ I:LYS45 3.8 12.1 1.0
OD2 I:ASP171 3.9 14.5 1.0
CB I:PRO227 4.0 17.1 1.0
CA I:PRO227 4.0 16.1 1.0
O3G I:ATP302 4.2 12.7 1.0
O5' I:ATP302 4.3 20.2 1.0
O3B I:ATP302 4.3 14.7 1.0
C5' I:ATP302 4.3 19.2 1.0
O1A I:ATP302 4.3 20.6 1.0
O1B I:ATP302 4.4 14.9 1.0
N I:VAL228 4.4 15.1 1.0
CA I:VAL228 4.8 13.8 1.0
PG I:ATP302 4.8 12.6 1.0
CG I:GLU190 4.8 14.7 1.0
CG I:ASP171 4.8 13.2 1.0
OD1 I:ASP171 5.0 13.8 1.0

Magnesium binding site 6 out of 6 in 6rkd

Go back to Magnesium Binding Sites List in 6rkd
Magnesium binding site 6 out of 6 in the Molybdenum Storage Protein Under Turnover Conditions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Molybdenum Storage Protein Under Turnover Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Mg303

b:15.2
occ:1.00
 O2A K:ATP302 2.0 14.7 1.0
O2B K:ATP302 2.1 13.4 1.0
O K:PRO227 2.2 15.2 1.0
OE1 K:GLU190 2.7 20.7 1.0
PA K:ATP302 3.3 16.1 1.0
PB K:ATP302 3.3 14.5 1.0
C K:PRO227 3.4 15.0 1.0
CD K:GLU190 3.4 17.9 1.0
O3A K:ATP302 3.5 17.5 1.0
OE2 K:GLU190 3.5 14.1 1.0
NZ K:LYS45 3.8 12.1 1.0
OD2 K:ASP171 3.9 14.5 1.0
CB K:PRO227 4.0 17.1 1.0
CA K:PRO227 4.0 16.1 1.0
O3G K:ATP302 4.2 12.7 1.0
O3B K:ATP302 4.3 14.7 1.0
O5' K:ATP302 4.3 20.2 1.0
C5' K:ATP302 4.3 19.2 1.0
O1A K:ATP302 4.3 20.6 1.0
O1B K:ATP302 4.4 14.9 1.0
N K:VAL228 4.4 15.1 1.0
CA K:VAL228 4.8 13.8 1.0
PG K:ATP302 4.8 12.6 1.0
CG K:GLU190 4.8 14.7 1.0
CG K:ASP171 4.8 13.2 1.0
OD1 K:ASP171 5.0 13.8 1.0

Reference:

S.Brunle, M.L.Eisinger, J.Poppe, D.J.Mills, J.D.Langer, J.Vonck, U.Ermler. Molybdate Pumping Into the Molybdenum Storage Protein Via An Atp-Powered Piercing Mechanism. Proc.Natl.Acad.Sci.Usa 2019.
ISSN: ESSN 1091-6490
PubMed: 31811022
DOI: 10.1073/PNAS.1913031116
Page generated: Wed Aug 13 15:49:27 2025

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