Magnesium in PDB 6he9: Pan-Proteasome in State 2

Enzymatic activity of Pan-Proteasome in State 2

All present enzymatic activity of Pan-Proteasome in State 2:
3.4.25.1;

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Pan-Proteasome in State 2 (pdb code 6he9). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the Pan-Proteasome in State 2, PDB code: 6he9:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in 6he9

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Magnesium binding site 1 out of 5 in the Pan-Proteasome in State 2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Pan-Proteasome in State 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mg402

b:1.0
occ:1.00
O2G H:ATP401 2.0 1.0 1.0
O2B H:ATP401 2.2 1.0 1.0
O3B H:ATP401 2.7 1.0 1.0
OG1 H:THR189 2.7 1.0 1.0
PG H:ATP401 2.9 1.0 1.0
PB H:ATP401 2.9 1.0 1.0
O1G H:ATP401 3.8 1.0 1.0
CB H:THR189 3.9 1.0 1.0
O3A H:ATP401 4.0 1.0 1.0
O3G H:ATP401 4.1 1.0 1.0
NZ H:LYS188 4.2 1.0 1.0
O1B H:ATP401 4.2 1.0 1.0
N H:THR189 4.4 1.0 1.0
NH2 I:ARG302 4.7 1.0 1.0
CA H:THR189 4.7 1.0 1.0
OE2 H:GLU242 4.8 1.0 1.0
CB H:LYS188 4.8 1.0 1.0
CG2 H:THR189 4.8 1.0 1.0
O H:ASP241 4.8 1.0 1.0
CE H:LYS188 5.0 1.0 1.0

Magnesium binding site 2 out of 5 in 6he9

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Magnesium binding site 2 out of 5 in the Pan-Proteasome in State 2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Pan-Proteasome in State 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Mg402

b:1.0
occ:1.00
O2G I:ATP401 2.0 1.0 1.0
O2B I:ATP401 2.2 1.0 1.0
O3B I:ATP401 2.6 1.0 1.0
PG I:ATP401 2.9 1.0 1.0
OG1 I:THR189 3.0 1.0 1.0
PB I:ATP401 3.1 1.0 1.0
OD2 I:ASP241 3.7 1.0 1.0
O1G I:ATP401 3.9 1.0 1.0
O3G I:ATP401 4.1 1.0 1.0
O3A I:ATP401 4.1 1.0 1.0
CB I:THR189 4.2 1.0 1.0
OD1 I:ASP241 4.3 1.0 1.0
O1B I:ATP401 4.3 1.0 1.0
NH2 J:ARG302 4.4 1.0 1.0
CG I:ASP241 4.4 1.0 1.0
OD1 I:ASN288 4.5 1.0 1.0
OE2 I:GLU242 4.8 1.0 1.0
N I:THR189 5.0 1.0 1.0

Magnesium binding site 3 out of 5 in 6he9

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Magnesium binding site 3 out of 5 in the Pan-Proteasome in State 2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Pan-Proteasome in State 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Mg402

b:1.0
occ:1.00
O2G K:ATP401 2.0 1.0 1.0
O2B K:ATP401 2.1 1.0 1.0
O3B K:ATP401 2.7 1.0 1.0
PB K:ATP401 2.9 1.0 1.0
PG K:ATP401 2.9 1.0 1.0
OG1 K:THR189 3.6 1.0 1.0
O1G K:ATP401 3.6 1.0 1.0
O1B K:ATP401 3.9 1.0 1.0
OE2 K:GLU242 4.0 1.0 1.0
CE K:LYS188 4.1 1.0 1.0
O3G K:ATP401 4.2 1.0 1.0
CD K:GLU242 4.3 1.0 1.0
O3A K:ATP401 4.3 1.0 1.0
CB K:LYS188 4.4 1.0 1.0
OE1 K:GLU242 4.5 1.0 1.0
N K:THR189 4.6 1.0 1.0
NZ K:LYS188 4.6 1.0 1.0
CB K:THR189 4.7 1.0 1.0
OD1 K:ASP241 4.8 1.0 1.0
CA K:THR189 5.0 1.0 1.0
CG K:GLU242 5.0 1.0 1.0

Magnesium binding site 4 out of 5 in 6he9

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Magnesium binding site 4 out of 5 in the Pan-Proteasome in State 2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Pan-Proteasome in State 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Mg402

b:1.0
occ:1.00
O3B L:ADP401 2.9 1.0 1.0
OG1 L:THR189 2.9 1.0 1.0
O3A L:ADP401 3.6 1.0 1.0
PB L:ADP401 3.8 1.0 1.0
O2A L:ADP401 3.8 1.0 1.0
CB L:THR189 3.9 1.0 1.0
OD2 L:ASP241 4.2 1.0 1.0
CB M:ALA270 4.3 1.0 1.0
PA L:ADP401 4.3 1.0 1.0
O1B L:ADP401 4.3 1.0 1.0
O M:ALA270 4.3 1.0 1.0
CG2 L:THR189 4.4 1.0 1.0
OD1 L:ASP241 4.5 1.0 1.0
CA M:ALA270 4.5 1.0 1.0
CG L:ASP241 4.6 1.0 1.0
C M:ALA270 4.8 1.0 1.0
O1A L:ADP401 4.9 1.0 1.0

Magnesium binding site 5 out of 5 in 6he9

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Magnesium binding site 5 out of 5 in the Pan-Proteasome in State 2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Pan-Proteasome in State 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Mg402

b:1.0
occ:1.00
O2B J:ATP401 2.4 1.0 1.0
O2G J:ATP401 2.5 1.0 1.0
OG1 J:THR189 2.7 1.0 1.0
O3B J:ATP401 3.1 1.0 1.0
PB J:ATP401 3.3 1.0 1.0
PG J:ATP401 3.5 1.0 1.0
O3A J:ATP401 3.9 1.0 1.0
CB J:THR189 4.0 1.0 1.0
NZ J:LYS188 4.1 1.0 1.0
N J:THR189 4.4 1.0 1.0
O3G J:ATP401 4.4 1.0 1.0
CA J:THR189 4.5 1.0 1.0
O1G J:ATP401 4.6 1.0 1.0
O2A J:ATP401 4.6 1.0 1.0
PA J:ATP401 4.7 1.0 1.0
O1B J:ATP401 4.7 1.0 1.0
O1A J:ATP401 4.8 1.0 1.0
O K:LEU269 4.9 1.0 1.0
CG2 J:THR189 5.0 1.0 1.0

Reference:

P.Majumder, T.Rudack, F.Beck, R.Danev, G.Pfeifer, I.Nagy, W.Baumeister. Cryo-Em Structures of the Archaeal Pan-Proteasome Reveal An Around-the-Ring Atpase Cycle. Proc. Natl. Acad. Sci. V. 116 534 2019U.S.A..
ISSN: ESSN 1091-6490
PubMed: 30559193
DOI: 10.1073/PNAS.1817752116
Page generated: Mon Dec 14 22:49:24 2020

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