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Magnesium in PDB 5ftn: Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III)

Enzymatic activity of Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III)

All present enzymatic activity of Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III):
3.6.4.6;

Magnesium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III) (pdb code 5ftn). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 12 binding sites of Magnesium where determined in the Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III), PDB code: 5ftn:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 12 in 5ftn

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Magnesium binding site 1 out of 12 in the Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg903

b:17.7
occ:1.00
 OG1 A:THR252 2.3 38.6 1.0
O3G A:AGS901 2.4 8.2 1.0
O1B A:AGS901 2.9 7.2 1.0
PG A:AGS901 3.6 7.3 1.0
CB A:THR252 3.7 34.6 1.0
OD2 A:ASP304 3.9 45.7 1.0
PB A:AGS901 4.0 6.9 1.0
OD1 A:ASP304 4.0 39.7 1.0
S1G A:AGS901 4.0 21.3 1.0
O3A A:AGS901 4.2 4.6 1.0
O3B A:AGS901 4.3 3.8 1.0
CG A:ASP304 4.4 36.2 1.0
CG2 A:THR252 4.4 35.7 1.0
CA A:THR252 4.7 33.0 1.0
N A:THR252 4.7 32.4 1.0
O2G A:AGS901 4.9 7.1 1.0
O1A A:AGS901 5.0 1.4 1.0

Magnesium binding site 2 out of 12 in 5ftn

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Magnesium binding site 2 out of 12 in the Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg904

b:17.7
occ:1.00
 O2G A:AGS902 2.6 45.9 1.0
O1A A:AGS902 2.8 49.5 1.0
OG1 A:THR525 2.9 28.4 1.0
O1B A:AGS902 2.9 37.5 1.0
NH1 F:ARG635 3.4 39.8 1.0
CB A:THR525 3.9 25.4 1.0
OD2 A:ASP577 4.0 45.1 1.0
PG A:AGS902 4.0 39.6 1.0
PA A:AGS902 4.2 60.8 1.0
PB A:AGS902 4.3 36.2 1.0
CZ F:ARG635 4.3 38.6 1.0
CG2 A:THR525 4.4 23.3 1.0
CD F:ARG635 4.6 27.1 1.0
S1G A:AGS902 4.6 22.8 1.0
O3B A:AGS902 4.7 38.5 1.0
O3A A:AGS902 4.7 40.1 1.0
NE F:ARG635 4.7 31.1 1.0
CG A:ASP577 4.9 36.0 1.0

Magnesium binding site 3 out of 12 in 5ftn

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Magnesium binding site 3 out of 12 in the Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg903

b:17.7
occ:1.00
 OG1 B:THR252 2.3 38.6 1.0
O3G B:AGS901 2.4 8.2 1.0
O1B B:AGS901 2.9 7.2 1.0
PG B:AGS901 3.6 7.3 1.0
CB B:THR252 3.7 34.6 1.0
OD2 B:ASP304 3.9 45.7 1.0
PB B:AGS901 4.0 6.9 1.0
OD1 B:ASP304 4.0 39.7 1.0
S1G B:AGS901 4.0 21.3 1.0
O3A B:AGS901 4.2 4.6 1.0
O3B B:AGS901 4.3 3.8 1.0
CG B:ASP304 4.4 36.2 1.0
CG2 B:THR252 4.4 35.7 1.0
N B:THR252 4.7 32.4 1.0
CA B:THR252 4.7 33.0 1.0
O2G B:AGS901 4.9 7.1 1.0
O1A B:AGS901 5.0 1.4 1.0

Magnesium binding site 4 out of 12 in 5ftn

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Magnesium binding site 4 out of 12 in the Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg904

b:17.7
occ:1.00
 O2G B:AGS902 2.6 45.9 1.0
O1A B:AGS902 2.8 49.5 1.0
OG1 B:THR525 2.9 28.4 1.0
O1B B:AGS902 2.9 37.5 1.0
NH1 A:ARG635 3.4 39.8 1.0
CB B:THR525 3.9 25.4 1.0
OD2 B:ASP577 4.0 45.1 1.0
PG B:AGS902 4.0 39.6 1.0
PA B:AGS902 4.2 60.8 1.0
PB B:AGS902 4.3 36.2 1.0
CZ A:ARG635 4.3 38.6 1.0
CG2 B:THR525 4.4 23.3 1.0
CD A:ARG635 4.6 27.1 1.0
S1G B:AGS902 4.6 22.8 1.0
O3B B:AGS902 4.7 38.5 1.0
O3A B:AGS902 4.7 40.1 1.0
NE A:ARG635 4.8 31.1 1.0
CG B:ASP577 4.9 36.0 1.0

Magnesium binding site 5 out of 12 in 5ftn

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Magnesium binding site 5 out of 12 in the Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg903

b:17.7
occ:1.00
 OG1 C:THR252 2.3 38.6 1.0
O3G C:AGS901 2.4 8.2 1.0
O1B C:AGS901 2.9 7.2 1.0
PG C:AGS901 3.6 7.3 1.0
CB C:THR252 3.7 34.6 1.0
OD2 C:ASP304 3.9 45.7 1.0
PB C:AGS901 4.0 6.9 1.0
OD1 C:ASP304 4.0 39.7 1.0
S1G C:AGS901 4.0 21.3 1.0
O3A C:AGS901 4.2 4.6 1.0
O3B C:AGS901 4.3 3.8 1.0
CG C:ASP304 4.4 36.2 1.0
CG2 C:THR252 4.4 35.7 1.0
CA C:THR252 4.7 33.0 1.0
N C:THR252 4.7 32.4 1.0
O2G C:AGS901 4.9 7.1 1.0
O1A C:AGS901 5.0 1.4 1.0

Magnesium binding site 6 out of 12 in 5ftn

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Magnesium binding site 6 out of 12 in the Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg904

b:17.7
occ:1.00
 O2G C:AGS902 2.6 45.9 1.0
O1A C:AGS902 2.8 49.5 1.0
OG1 C:THR525 2.9 28.4 1.0
O1B C:AGS902 2.9 37.5 1.0
NH1 B:ARG635 3.4 39.8 1.0
CB C:THR525 3.9 25.4 1.0
OD2 C:ASP577 4.0 45.1 1.0
PG C:AGS902 4.0 39.6 1.0
PA C:AGS902 4.2 60.8 1.0
PB C:AGS902 4.3 36.2 1.0
CZ B:ARG635 4.3 38.6 1.0
CG2 C:THR525 4.4 23.3 1.0
CD B:ARG635 4.6 27.1 1.0
S1G C:AGS902 4.6 22.8 1.0
O3B C:AGS902 4.7 38.5 1.0
O3A C:AGS902 4.7 40.1 1.0
NE B:ARG635 4.7 31.1 1.0
CG C:ASP577 4.9 36.0 1.0

Magnesium binding site 7 out of 12 in 5ftn

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Magnesium binding site 7 out of 12 in the Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg903

b:17.7
occ:1.00
 OG1 D:THR252 2.3 38.6 1.0
O3G D:AGS901 2.4 8.2 1.0
O1B D:AGS901 2.9 7.2 1.0
PG D:AGS901 3.6 7.3 1.0
CB D:THR252 3.7 34.6 1.0
OD2 D:ASP304 3.9 45.7 1.0
PB D:AGS901 4.0 6.9 1.0
OD1 D:ASP304 4.0 39.7 1.0
S1G D:AGS901 4.0 21.3 1.0
O3A D:AGS901 4.2 4.6 1.0
O3B D:AGS901 4.3 3.8 1.0
CG D:ASP304 4.4 36.2 1.0
CG2 D:THR252 4.4 35.7 1.0
CA D:THR252 4.7 33.0 1.0
N D:THR252 4.7 32.4 1.0
O2G D:AGS901 4.9 7.1 1.0
O1A D:AGS901 5.0 1.4 1.0

Magnesium binding site 8 out of 12 in 5ftn

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Magnesium binding site 8 out of 12 in the Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg904

b:17.7
occ:1.00
 O2G D:AGS902 2.6 45.9 1.0
O1A D:AGS902 2.8 49.5 1.0
OG1 D:THR525 2.9 28.4 1.0
O1B D:AGS902 2.9 37.5 1.0
NH1 C:ARG635 3.4 39.8 1.0
CB D:THR525 3.9 25.4 1.0
OD2 D:ASP577 4.0 45.1 1.0
PG D:AGS902 4.0 39.6 1.0
PA D:AGS902 4.2 60.8 1.0
PB D:AGS902 4.3 36.2 1.0
CZ C:ARG635 4.3 38.6 1.0
CG2 D:THR525 4.4 23.3 1.0
CD C:ARG635 4.6 27.1 1.0
S1G D:AGS902 4.6 22.8 1.0
O3B D:AGS902 4.7 38.5 1.0
O3A D:AGS902 4.7 40.1 1.0
NE C:ARG635 4.8 31.1 1.0
CG D:ASP577 4.9 36.0 1.0

Magnesium binding site 9 out of 12 in 5ftn

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Magnesium binding site 9 out of 12 in the Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III) within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg903

b:17.7
occ:1.00
 OG1 E:THR252 2.3 38.6 1.0
O3G E:AGS901 2.4 8.2 1.0
O1B E:AGS901 2.9 7.2 1.0
PG E:AGS901 3.6 7.3 1.0
CB E:THR252 3.7 34.6 1.0
OD2 E:ASP304 3.9 45.7 1.0
PB E:AGS901 4.0 6.9 1.0
OD1 E:ASP304 4.0 39.7 1.0
S1G E:AGS901 4.0 21.3 1.0
O3A E:AGS901 4.2 4.6 1.0
O3B E:AGS901 4.3 3.8 1.0
CG E:ASP304 4.4 36.2 1.0
CG2 E:THR252 4.4 35.7 1.0
N E:THR252 4.7 32.4 1.0
CA E:THR252 4.7 33.0 1.0
O2G E:AGS901 4.9 7.1 1.0
O1A E:AGS901 5.0 1.4 1.0

Magnesium binding site 10 out of 12 in 5ftn

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Magnesium binding site 10 out of 12 in the Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Cryo-Em Structure of Human P97 Bound to Atpgs (Conformation III) within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg904

b:17.7
occ:1.00
 O2G E:AGS902 2.6 45.9 1.0
O1A E:AGS902 2.8 49.5 1.0
OG1 E:THR525 2.9 28.4 1.0
O1B E:AGS902 2.9 37.5 1.0
NH1 D:ARG635 3.4 39.8 1.0
CB E:THR525 3.9 25.4 1.0
OD2 E:ASP577 4.0 45.1 1.0
PG E:AGS902 4.0 39.6 1.0
PA E:AGS902 4.2 60.8 1.0
PB E:AGS902 4.3 36.2 1.0
CZ D:ARG635 4.3 38.6 1.0
CG2 E:THR525 4.4 23.3 1.0
CD D:ARG635 4.6 27.1 1.0
S1G E:AGS902 4.6 22.8 1.0
O3B E:AGS902 4.7 38.5 1.0
O3A E:AGS902 4.7 40.1 1.0
NE D:ARG635 4.8 31.1 1.0
CG E:ASP577 4.9 36.0 1.0

Reference:

S.Banerjee, A.Bartesaghi, A.Merk, P.Rao, S.L.Bulfer, Y.Yan, N.Green, B.Mroczkowski, R.J.Neitz, P.Wipf, V.Falconieri, R.J.Deshaies, J.L.S.Milne, D.Huryn, M.Arkin, S.Subramaniam. 2.3 A Resolution Cryo-Em Structure of Human P97 and Mechanism of Allosteric Inhibition Science V. 351 871 2016.
ISSN: ISSN 0036-8075
PubMed: 26822609
DOI: 10.1126/SCIENCE.AAD7974
Page generated: Sun Sep 29 04:25:30 2024

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