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Magnesium in PDB 7pf1: Uvc Treated Human Apoferritin

Other elements in 7pf1:

The structure of Uvc Treated Human Apoferritin also contains other interesting chemical elements:

Chlorine (Cl) 96 atoms

Magnesium Binding Sites:

Magnesium binding site 1 out of 167 in 7pf1

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Magnesium binding site 1 out of 167 in the Uvc Treated Human Apoferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Uvc Treated Human Apoferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg205

b:20.1
occ:1.00
O J:HOH549 1.9 30.6 1.0
O A:HOH587 2.0 23.7 1.0
O J:HOH385 2.0 16.5 1.0
O A:HOH340 2.1 23.7 1.0
O J:HOH444 2.1 20.5 1.0
O A:HOH374 2.3 20.1 1.0
OD2 A:ASP134 4.0 25.2 1.0
O J:THR138 4.2 21.5 1.0
O A:HOH583 4.3 50.9 1.0
CG2 A:THR138 4.4 24.1 1.0
O J:HOH490 4.4 23.6 1.0
OD1 A:ASP134 4.5 24.6 1.0
OG1 A:THR138 4.5 24.0 1.0
CA J:THR138 4.6 16.6 1.0
CG A:ASP134 4.7 18.6 1.0
O A:HOH504 4.7 34.1 1.0
O J:GLU137 4.8 20.3 1.0
C J:THR138 4.8 18.9 1.0
CB A:THR138 5.0 20.1 1.0
O J:HOH471 5.0 14.0 1.0

Magnesium binding site 2 out of 167 in 7pf1

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Magnesium binding site 2 out of 167 in the Uvc Treated Human Apoferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Uvc Treated Human Apoferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg206

b:24.0
occ:1.00
SG A:CYS105 2.0 16.3 1.0
O A:HOH547 2.2 35.8 1.0
CB A:CYS105 3.0 15.1 1.0
O A:HOH454 3.3 39.6 1.0
CA A:CYS105 3.6 15.8 1.0
O A:HOH542 3.7 27.4 1.0
O A:HOH418 4.2 29.8 1.0
N A:CYS105 4.4 14.1 1.0
O A:HOH316 4.4 40.0 1.0
CZ3 A:TRP96 4.5 19.8 1.0
SG A:CYS93 4.7 19.2 1.0
C A:CYS105 4.8 14.9 1.0
O A:CYS105 5.0 16.1 1.0

Magnesium binding site 3 out of 167 in 7pf1

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Magnesium binding site 3 out of 167 in the Uvc Treated Human Apoferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Uvc Treated Human Apoferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg207

b:56.3
occ:1.00
O T:HOH554 2.1 41.8 1.0
OD1 A:ASP45 2.4 17.0 1.0
O A:HOH373 2.7 22.9 1.0
O A:HOH389 3.1 30.1 1.0
NZ T:LYS149 3.4 14.6 1.0
CG A:ASP45 3.6 16.0 1.0
O T:HOH334 3.8 38.5 1.0
O T:HOH396 3.9 24.8 1.0
OD2 T:ASP153 3.9 14.4 1.0
O A:HOH393 3.9 19.1 1.0
O A:ASP45 4.1 13.5 1.0
O A:HOH343 4.3 13.9 1.0
O A:HOH563 4.3 51.6 1.0
OD2 A:ASP45 4.4 15.2 1.0
CB A:ASP45 4.5 14.5 1.0
CA A:ASP45 4.6 14.3 1.0
CE T:LYS149 4.6 13.9 1.0
C A:ASP45 4.8 14.4 1.0
CG T:ASP153 4.9 15.3 1.0

Magnesium binding site 4 out of 167 in 7pf1

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Magnesium binding site 4 out of 167 in the Uvc Treated Human Apoferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Uvc Treated Human Apoferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg208

b:25.9
occ:1.00
O A:HOH341 1.8 21.4 1.0
OE1 A:GLU64 2.0 22.4 1.0
OE1 A:GLN61 2.2 38.9 1.0
O A:HOH399 2.4 33.5 1.0
O A:HOH349 2.5 21.9 1.0
CD A:GLU64 3.3 21.6 1.0
CD A:GLN61 3.3 28.3 1.0
O A:HOH434 3.5 53.0 1.0
O A:HOH380 3.5 49.0 1.0
NE2 A:GLN61 4.0 36.5 1.0
OE2 A:GLU64 4.1 25.0 1.0
CB A:GLU64 4.2 18.5 1.0
CG A:GLU64 4.3 20.3 1.0
O A:HOH301 4.4 29.3 1.0
O A:HOH449 4.4 40.3 1.0
OE2 A:GLU110 4.4 37.8 1.0
OE2 A:GLU65 4.5 32.5 1.0
CG A:GLN61 4.5 23.1 1.0
CB A:ALA147 4.5 16.5 1.0
O A:HOH464 4.6 33.5 1.0
CA A:GLN61 4.6 16.4 1.0
OE1 A:GLU143 4.6 35.8 1.0
CB A:GLN61 4.7 18.4 1.0
CD A:GLU143 4.7 31.6 1.0
O A:GLN61 4.9 17.2 1.0
OE2 A:GLU143 4.9 37.2 1.0
CE1 A:HIS68 5.0 35.1 1.0

Magnesium binding site 5 out of 167 in 7pf1

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Magnesium binding site 5 out of 167 in the Uvc Treated Human Apoferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Uvc Treated Human Apoferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg209

b:19.2
occ:1.00
OE1 A:GLU30 1.9 19.3 1.0
OE1 A:GLU65 2.0 24.4 1.0
O A:HOH330 2.1 14.1 1.0
ND1 A:HIS68 2.1 28.3 1.0
O A:HOH322 2.2 23.4 1.0
O A:HOH303 2.3 57.2 1.0
CE1 A:HIS68 3.0 35.1 1.0
CD A:GLU30 3.0 16.9 1.0
CD A:GLU65 3.0 26.9 1.0
CG A:HIS68 3.3 25.7 1.0
OE2 A:GLU30 3.3 19.8 1.0
OE2 A:GLU65 3.4 32.5 1.0
CB A:HIS68 3.7 18.6 1.0
O A:HOH394 4.1 30.5 1.0
OE1 A:GLN144 4.1 26.4 1.0
NE2 A:HIS68 4.2 38.0 1.0
CG A:GLU30 4.3 15.5 1.0
CG1 A:VAL113 4.3 18.4 1.0
CD2 A:HIS68 4.3 31.5 1.0
O A:HOH312 4.3 57.0 1.0
CG A:GLU65 4.4 20.2 1.0
CA A:GLU65 4.6 15.2 1.0
CB A:GLU30 4.7 14.9 1.0
CB A:GLU65 4.7 17.0 1.0
O A:HOH434 4.7 53.0 1.0
CA A:GLU30 4.9 14.3 1.0
CD A:GLN144 4.9 20.6 1.0
OE1 A:GLU110 4.9 31.7 1.0

Magnesium binding site 6 out of 167 in 7pf1

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Magnesium binding site 6 out of 167 in the Uvc Treated Human Apoferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Uvc Treated Human Apoferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg210

b:51.7
occ:1.00
O A:HOH315 1.9 29.2 1.0
O A:HOH540 2.1 37.2 1.0
O A:HOH375 2.1 18.2 1.0
O A:HOH521 2.4 37.5 1.0
O A:HOH598 2.4 42.7 1.0
O A:HOH604 2.5 48.2 1.0
OD1 A:ASN28 4.1 13.8 1.0
O A:ARG25 4.3 13.2 1.0
O A:HOH537 4.3 29.1 1.0
O A:HOH600 4.3 49.7 1.0
O A:HOH567 4.4 19.0 1.0
O A:HOH348 4.6 25.9 1.0
O A:HOH582 4.7 9.8 1.0
CB A:LEU29 4.7 13.5 1.0
CB A:ASN28 4.8 13.5 1.0
CG A:ASN28 4.8 14.2 1.0
N A:LEU29 4.8 12.7 1.0
O A:HOH565 5.0 44.2 1.0
CD1 A:LEU29 5.0 16.9 1.0
CA A:LEU29 5.0 13.2 1.0

Magnesium binding site 7 out of 167 in 7pf1

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Magnesium binding site 7 out of 167 in the Uvc Treated Human Apoferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Uvc Treated Human Apoferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg212

b:56.3
occ:1.00
O A:HOH556 2.1 41.8 1.0
OD1 O:ASP45 2.4 17.0 1.0
O O:HOH373 2.7 22.9 1.0
O O:HOH389 3.1 30.1 1.0
NZ A:LYS149 3.4 14.6 1.0
CG O:ASP45 3.6 16.0 1.0
O A:HOH334 3.8 38.5 1.0
O A:HOH397 3.9 24.8 1.0
OD2 A:ASP153 3.9 14.4 1.0
O O:HOH393 3.9 19.1 1.0
O O:ASP45 4.1 13.5 1.0
O O:HOH343 4.3 13.9 1.0
O O:HOH563 4.3 51.6 1.0
OD2 O:ASP45 4.4 15.2 1.0
CB O:ASP45 4.5 14.5 1.0
CA O:ASP45 4.6 14.3 1.0
CE A:LYS149 4.6 13.9 1.0
C O:ASP45 4.8 14.4 1.0
CG A:ASP153 4.9 15.3 1.0

Magnesium binding site 8 out of 167 in 7pf1

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Magnesium binding site 8 out of 167 in the Uvc Treated Human Apoferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Uvc Treated Human Apoferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg213

b:19.2
occ:1.00
O A:HOH317 2.0 17.2 1.0
O W:HOH593 2.1 18.3 1.0
O W:HOH530 2.2 20.0 1.0
O A:HOH308 2.2 18.4 1.0
O W:HOH362 4.1 16.6 1.0
OD2 A:ASP87 4.1 15.0 1.0
OD1 A:ASP87 4.1 14.4 1.0
O W:HOH448 4.4 49.7 1.0
CG A:ASP87 4.5 15.4 1.0
O W:HOH591 4.5 23.6 1.0
NZ W:LYS89 4.7 13.9 1.0
CL A:CL204 4.7 26.5 1.0
O W:HOH524 4.8 34.7 1.0
CE W:LYS90 4.8 29.6 1.0

Magnesium binding site 9 out of 167 in 7pf1

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Magnesium binding site 9 out of 167 in the Uvc Treated Human Apoferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Uvc Treated Human Apoferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg205

b:20.1
occ:1.00
O R:HOH545 1.9 30.6 1.0
O B:HOH585 2.0 23.7 1.0
O R:HOH386 2.0 16.5 1.0
O B:HOH340 2.1 23.7 1.0
O R:HOH444 2.1 20.5 1.0
O B:HOH374 2.3 20.1 1.0
OD2 B:ASP134 4.0 25.2 1.0
O R:THR138 4.2 21.5 1.0
O B:HOH580 4.3 50.9 1.0
CG2 B:THR138 4.4 24.1 1.0
O R:HOH488 4.4 23.6 1.0
OD1 B:ASP134 4.5 24.6 1.0
OG1 B:THR138 4.5 24.0 1.0
CA R:THR138 4.6 16.6 1.0
CG B:ASP134 4.7 18.6 1.0
O B:HOH505 4.7 34.1 1.0
O R:GLU137 4.8 20.3 1.0
C R:THR138 4.8 18.9 1.0
O R:HOH469 5.0 14.0 1.0
CB B:THR138 5.0 20.1 1.0

Magnesium binding site 10 out of 167 in 7pf1

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Magnesium binding site 10 out of 167 in the Uvc Treated Human Apoferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Uvc Treated Human Apoferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg206

b:24.0
occ:1.00
SG B:CYS105 2.0 16.3 1.0
O B:HOH546 2.2 35.8 1.0
CB B:CYS105 3.0 15.1 1.0
O B:HOH454 3.3 39.6 1.0
CA B:CYS105 3.6 15.8 1.0
O B:HOH541 3.7 27.4 1.0
O B:HOH419 4.2 29.8 1.0
N B:CYS105 4.4 14.1 1.0
O B:HOH316 4.4 40.0 1.0
CZ3 B:TRP96 4.5 19.8 1.0
SG B:CYS93 4.7 19.2 1.0
C B:CYS105 4.8 14.9 1.0
O B:CYS105 5.0 16.1 1.0

Reference:

J.S.Depelteau, L.Renault, N.Althof, C.K.Cassidy, L.M.Mendonca, G.J.Jensen, G.P.Resch, A.Briegel. Uvc Inactivation of Pathogenic Samples Suitable For Cryo-Em Analysis. Commun Biol V. 5 29 2022.
ISSN: ESSN 2399-3642
PubMed: 35017666
DOI: 10.1038/S42003-021-02962-W
Page generated: Thu Oct 3 04:09:55 2024

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