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Magnesium in PDB 7vct: Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound

Enzymatic activity of Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound

All present enzymatic activity of Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound:
3.6.4.6;

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound (pdb code 7vct). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound, PDB code: 7vct:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 7vct

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Magnesium binding site 1 out of 6 in the Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg902

b:39.1
occ:1.00
 O2G A:AGS901 2.1 36.7 1.0
O2B A:AGS901 2.2 36.7 1.0
OG1 A:THR252 2.4 30.8 1.0
OD2 A:ASP304 3.4 34.2 1.0
OD1 A:ASP304 3.5 34.2 1.0
PG A:AGS901 3.6 36.7 1.0
PB A:AGS901 3.6 36.7 1.0
CB A:THR252 3.8 30.8 1.0
CG A:ASP304 3.8 34.2 1.0
O3B A:AGS901 4.1 36.7 1.0
O2A A:AGS901 4.2 36.7 1.0
O1B A:AGS901 4.3 36.7 1.0
O1A A:AGS901 4.3 36.7 1.0
N A:THR252 4.5 30.8 1.0
O3G A:AGS901 4.5 36.7 1.0
CG2 A:THR252 4.6 30.8 1.0
PA A:AGS901 4.6 36.7 1.0
O3A A:AGS901 4.6 36.7 1.0
CA A:THR252 4.7 30.8 1.0
S1G A:AGS901 4.7 36.7 1.0

Magnesium binding site 2 out of 6 in 7vct

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Magnesium binding site 2 out of 6 in the Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg902

b:35.3
occ:1.00
 O2G B:AGS901 2.1 35.8 1.0
O2B B:AGS901 2.2 35.8 1.0
OG1 B:THR252 2.4 31.1 1.0
OD2 B:ASP304 3.4 34.5 1.0
OD1 B:ASP304 3.5 34.5 1.0
PG B:AGS901 3.6 35.8 1.0
PB B:AGS901 3.6 35.8 1.0
CB B:THR252 3.8 31.1 1.0
CG B:ASP304 3.8 34.5 1.0
O3B B:AGS901 4.1 35.8 1.0
O2A B:AGS901 4.2 35.8 1.0
O1B B:AGS901 4.3 35.8 1.0
O1A B:AGS901 4.3 35.8 1.0
N B:THR252 4.5 31.1 1.0
O3G B:AGS901 4.5 35.8 1.0
CG2 B:THR252 4.6 31.1 1.0
PA B:AGS901 4.6 35.8 1.0
O3A B:AGS901 4.6 35.8 1.0
CA B:THR252 4.7 31.1 1.0
S1G B:AGS901 4.7 35.8 1.0

Magnesium binding site 3 out of 6 in 7vct

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Magnesium binding site 3 out of 6 in the Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg902

b:37.8
occ:1.00
 O2G C:AGS901 2.1 36.3 1.0
O2B C:AGS901 2.2 36.3 1.0
OG1 C:THR252 2.4 30.9 1.0
OD2 C:ASP304 3.4 34.6 1.0
OD1 C:ASP304 3.5 34.6 1.0
PG C:AGS901 3.6 36.3 1.0
PB C:AGS901 3.6 36.3 1.0
CB C:THR252 3.8 30.9 1.0
CG C:ASP304 3.8 34.6 1.0
O3B C:AGS901 4.1 36.3 1.0
O2A C:AGS901 4.2 36.3 1.0
O1B C:AGS901 4.3 36.3 1.0
O1A C:AGS901 4.3 36.3 1.0
N C:THR252 4.5 30.9 1.0
O3G C:AGS901 4.5 36.3 1.0
CG2 C:THR252 4.6 30.9 1.0
PA C:AGS901 4.6 36.3 1.0
O3A C:AGS901 4.6 36.3 1.0
CA C:THR252 4.7 30.9 1.0
S1G C:AGS901 4.7 36.3 1.0

Magnesium binding site 4 out of 6 in 7vct

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Magnesium binding site 4 out of 6 in the Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg902

b:39.5
occ:1.00
 O2G D:AGS901 2.1 36.9 1.0
O2B D:AGS901 2.2 36.9 1.0
OG1 D:THR252 2.4 30.4 1.0
OD2 D:ASP304 3.4 34.4 1.0
OD1 D:ASP304 3.5 34.4 1.0
PG D:AGS901 3.6 36.9 1.0
PB D:AGS901 3.6 36.9 1.0
CB D:THR252 3.8 30.4 1.0
CG D:ASP304 3.8 34.4 1.0
O3B D:AGS901 4.1 36.9 1.0
O2A D:AGS901 4.2 36.9 1.0
O1B D:AGS901 4.3 36.9 1.0
O1A D:AGS901 4.3 36.9 1.0
N D:THR252 4.5 30.4 1.0
O3G D:AGS901 4.5 36.9 1.0
CG2 D:THR252 4.6 30.4 1.0
PA D:AGS901 4.6 36.9 1.0
O3A D:AGS901 4.6 36.9 1.0
CA D:THR252 4.7 30.4 1.0
S1G D:AGS901 4.7 36.9 1.0

Magnesium binding site 5 out of 6 in 7vct

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Magnesium binding site 5 out of 6 in the Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg902

b:36.8
occ:1.00
 O2G E:AGS901 2.1 35.9 1.0
O2B E:AGS901 2.2 35.9 1.0
OG1 E:THR252 2.4 30.8 1.0
OD2 E:ASP304 3.4 34.6 1.0
OD1 E:ASP304 3.5 34.6 1.0
PG E:AGS901 3.6 35.9 1.0
PB E:AGS901 3.6 35.9 1.0
CB E:THR252 3.8 30.8 1.0
CG E:ASP304 3.8 34.6 1.0
O3B E:AGS901 4.1 35.9 1.0
O2A E:AGS901 4.2 35.9 1.0
O1B E:AGS901 4.3 35.9 1.0
O1A E:AGS901 4.3 35.9 1.0
N E:THR252 4.5 30.8 1.0
O3G E:AGS901 4.5 35.9 1.0
CG2 E:THR252 4.6 30.8 1.0
PA E:AGS901 4.6 35.9 1.0
O3A E:AGS901 4.6 35.9 1.0
CA E:THR252 4.7 30.8 1.0
S1G E:AGS901 4.7 35.9 1.0

Magnesium binding site 6 out of 6 in 7vct

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Magnesium binding site 6 out of 6 in the Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Human P97 Single Hexamer Conformer III with D1-Atpgammas and D2-Adp Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg902

b:37.7
occ:1.00
 O2G F:AGS901 2.1 36.2 1.0
O2B F:AGS901 2.2 36.2 1.0
OG1 F:THR252 2.4 30.9 1.0
OD2 F:ASP304 3.4 34.3 1.0
OD1 F:ASP304 3.5 34.3 1.0
PG F:AGS901 3.6 36.2 1.0
PB F:AGS901 3.6 36.2 1.0
CB F:THR252 3.8 30.9 1.0
CG F:ASP304 3.8 34.3 1.0
O3B F:AGS901 4.1 36.2 1.0
O2A F:AGS901 4.2 36.2 1.0
O1B F:AGS901 4.3 36.2 1.0
O1A F:AGS901 4.3 36.2 1.0
N F:THR252 4.5 30.9 1.0
O3G F:AGS901 4.5 36.2 1.0
CG2 F:THR252 4.6 30.9 1.0
PA F:AGS901 4.6 36.2 1.0
O3A F:AGS901 4.6 36.2 1.0
CA F:THR252 4.7 30.9 1.0
S1G F:AGS901 4.7 36.2 1.0

Reference:

H.Gao, F.Li, Z.Ji, Z.Shi, Y.Li, H.Yu. Cryo-Em Structures of Human P97 Double Hexamer Capture Potentiated Atpase-Competent State. Cell Discov V. 8 19 2022.
ISSN: ESSN 2056-5968
PubMed: 35190543
DOI: 10.1038/S41421-022-00379-1
Page generated: Thu Oct 3 10:24:12 2024

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