Sodium in PDB 7a6b: 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope

Enzymatic activity of 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope

All present enzymatic activity of 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope:
1.16.3.1;

Sodium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 32;

Binding sites:

The binding sites of Sodium atom in the 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope (pdb code 7a6b). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 32 binding sites of Sodium where determined in the 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope, PDB code: 7a6b:
Jump to Sodium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Sodium binding site 1 out of 32 in 7a6b

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Sodium binding site 1 out of 32 in the 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na201

b:40.4
occ:1.00
 OE1 A:GLU27 2.0 37.8 1.0
O A:HOH309 2.0 45.9 1.0
OE1 A:GLU62 2.2 47.9 1.0
ND1 A:HIS65 2.5 41.4 1.0
CD A:GLU62 2.9 42.1 1.0
CD A:GLU27 3.0 37.6 1.0
OE2 A:GLU62 3.0 60.9 1.0
OE2 A:GLU27 3.3 37.7 1.0
CE1 A:HIS65 3.4 49.2 1.0
CG A:HIS65 3.5 33.7 1.0
CB A:HIS65 3.7 26.7 1.0
OE1 A:GLN141 3.8 41.7 1.0
O A:HOH331 3.9 46.5 1.0
O A:HOH310 4.1 57.0 1.0
CG A:GLU62 4.3 29.4 1.0
CG1 A:VAL110 4.3 28.9 1.0
CG A:GLU27 4.3 30.7 1.0
CA A:GLU62 4.6 22.3 1.0
NE2 A:HIS65 4.6 46.7 1.0
CD2 A:HIS65 4.6 39.0 1.0
CD A:GLN141 4.7 33.0 1.0
CB A:GLU62 4.7 24.5 1.0
CB A:GLU27 4.8 24.4 1.0

Sodium binding site 2 out of 32 in 7a6b

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Sodium binding site 2 out of 32 in the 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na202

b:50.2
occ:1.00
 O A:HOH316 2.5 58.6 1.0
OE2 A:GLU134 2.5 38.5 1.0
OE2 F:GLU134 2.5 38.5 1.0
OE2 e:GLU134 2.5 38.5 1.0
OD2 F:ASP131 3.3 48.5 1.0
OD2 A:ASP131 3.3 48.6 1.0
OD2 e:ASP131 3.3 48.5 1.0
O F:HOH423 3.5 51.6 1.0
O e:HOH423 3.5 51.6 1.0
O A:HOH324 3.5 51.6 1.0
CD A:GLU134 3.8 40.0 1.0
CD F:GLU134 3.8 40.0 1.0
CD e:GLU134 3.8 40.0 1.0
CG F:ASP131 4.4 38.1 1.0
CG A:ASP131 4.4 38.1 1.0
CG e:ASP131 4.4 38.1 1.0
OE1 A:GLU134 4.4 45.8 1.0
OE1 F:GLU134 4.4 45.7 1.0
OE1 e:GLU134 4.4 45.8 1.0
CB A:GLU134 4.7 34.9 1.0
CB e:GLU134 4.8 34.9 1.0
CB F:GLU134 4.8 34.9 1.0
CB A:ASP131 4.8 28.1 1.0
CB F:ASP131 4.8 28.1 1.0
CB e:ASP131 4.8 28.1 1.0
CG A:GLU134 4.9 37.3 1.0
CG F:GLU134 4.9 37.3 1.0
CG e:GLU134 4.9 37.3 1.0
CA F:ASP131 5.0 24.6 1.0
CA A:ASP131 5.0 24.6 1.0
CA e:ASP131 5.0 24.6 1.0

Sodium binding site 3 out of 32 in 7a6b

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Sodium binding site 3 out of 32 in the 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Na201

b:40.4
occ:1.00
 OE1 1:GLU27 2.0 37.8 1.0
O 1:HOH310 2.0 46.0 1.0
OE1 1:GLU62 2.2 47.9 1.0
ND1 1:HIS65 2.5 41.4 1.0
CD 1:GLU62 2.9 41.9 1.0
CD 1:GLU27 3.0 37.5 1.0
OE2 1:GLU62 3.0 61.0 1.0
OE2 1:GLU27 3.3 37.7 1.0
CE1 1:HIS65 3.4 49.3 1.0
CG 1:HIS65 3.5 33.7 1.0
CB 1:HIS65 3.7 26.6 1.0
OE1 1:GLN141 3.8 41.8 1.0
O 1:HOH330 3.9 46.5 1.0
O 1:HOH308 4.1 57.0 1.0
CG 1:GLU62 4.3 29.4 1.0
CG1 1:VAL110 4.3 28.8 1.0
CG 1:GLU27 4.3 30.7 1.0
CA 1:GLU62 4.6 22.3 1.0
NE2 1:HIS65 4.6 46.7 1.0
CD2 1:HIS65 4.6 39.1 1.0
CD 1:GLN141 4.7 33.0 1.0
CB 1:GLU62 4.7 24.5 1.0
CB 1:GLU27 4.8 24.4 1.0

Sodium binding site 4 out of 32 in 7a6b

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Sodium binding site 4 out of 32 in the 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope within 5.0Å range:
probe atom residue distance (Å) B Occ
1:Na202

b:50.2
occ:1.00
 O Y:HOH414 2.4 58.4 1.0
OE2 1:GLU134 2.5 38.5 1.0
OE2 E:GLU134 2.5 38.5 1.0
OE2 Y:GLU134 2.5 38.5 1.0
OD2 1:ASP131 3.3 48.8 1.0
OD2 Y:ASP131 3.3 48.8 1.0
OD2 E:ASP131 3.3 48.7 1.0
O Y:HOH425 3.5 51.6 1.0
O E:HOH424 3.5 51.6 1.0
O 1:HOH323 3.5 51.6 1.0
CD 1:GLU134 3.8 40.0 1.0
CD E:GLU134 3.8 40.0 1.0
CD Y:GLU134 3.8 40.0 1.0
CG 1:ASP131 4.4 38.0 1.0
CG Y:ASP131 4.4 38.1 1.0
CG E:ASP131 4.4 38.0 1.0
OE1 1:GLU134 4.4 45.7 1.0
OE1 E:GLU134 4.4 45.6 1.0
OE1 Y:GLU134 4.4 45.6 1.0
CB 1:GLU134 4.7 35.0 1.0
CB E:GLU134 4.8 35.0 1.0
CB Y:GLU134 4.8 34.9 1.0
CB 1:ASP131 4.8 28.1 1.0
CB Y:ASP131 4.8 28.1 1.0
CB E:ASP131 4.8 28.1 1.0
CG 1:GLU134 4.9 37.3 1.0
CG E:GLU134 4.9 37.4 1.0
CG Y:GLU134 4.9 37.3 1.0
CA 1:ASP131 5.0 24.6 1.0
CA Y:ASP131 5.0 24.6 1.0
CA E:ASP131 5.0 24.7 1.0

Sodium binding site 5 out of 32 in 7a6b

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Sodium binding site 5 out of 32 in the 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Na300

b:40.5
occ:1.00
 OE1 K:GLU27 2.0 37.8 1.0
O K:HOH410 2.0 45.9 1.0
OE1 K:GLU62 2.2 47.8 1.0
ND1 K:HIS65 2.5 41.5 1.0
CD K:GLU62 2.9 41.9 1.0
CD K:GLU27 3.0 37.6 1.0
OE2 K:GLU62 3.0 60.6 1.0
OE2 K:GLU27 3.3 37.7 1.0
CE1 K:HIS65 3.4 49.2 1.0
CG K:HIS65 3.5 33.7 1.0
CB K:HIS65 3.7 26.7 1.0
OE1 K:GLN141 3.8 41.8 1.0
O K:HOH431 3.9 46.5 1.0
O K:HOH409 4.1 57.0 1.0
CG K:GLU62 4.3 29.4 1.0
CG1 K:VAL110 4.3 28.9 1.0
CG K:GLU27 4.3 30.7 1.0
CA K:GLU62 4.6 22.3 1.0
NE2 K:HIS65 4.6 46.7 1.0
CD2 K:HIS65 4.6 39.1 1.0
CD K:GLN141 4.7 33.0 1.0
CB K:GLU62 4.7 24.5 1.0
CB K:GLU27 4.8 24.4 1.0

Sodium binding site 6 out of 32 in 7a6b

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Sodium binding site 6 out of 32 in the 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 6 of 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Na300

b:40.5
occ:1.00
 OE1 a:GLU27 2.0 37.8 1.0
O a:HOH410 2.0 45.9 1.0
OE1 a:GLU62 2.2 47.7 1.0
ND1 a:HIS65 2.5 41.5 1.0
CD a:GLU62 2.9 41.9 1.0
CD a:GLU27 3.0 37.6 1.0
OE2 a:GLU62 3.0 60.6 1.0
OE2 a:GLU27 3.3 37.7 1.0
CE1 a:HIS65 3.4 49.2 1.0
CG a:HIS65 3.5 33.7 1.0
CB a:HIS65 3.7 26.7 1.0
OE1 a:GLN141 3.8 41.8 1.0
O a:HOH430 3.9 46.5 1.0
O a:HOH408 4.1 56.9 1.0
CG a:GLU62 4.3 29.4 1.0
CG1 a:VAL110 4.3 28.9 1.0
CG a:GLU27 4.3 30.7 1.0
CA a:GLU62 4.6 22.3 1.0
NE2 a:HIS65 4.6 46.7 1.0
CD2 a:HIS65 4.6 39.0 1.0
CD a:GLN141 4.7 33.0 1.0
CB a:GLU62 4.7 24.5 1.0
CB a:GLU27 4.8 24.4 1.0

Sodium binding site 7 out of 32 in 7a6b

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Sodium binding site 7 out of 32 in the 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 7 of 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na201

b:40.5
occ:1.00
 OE1 B:GLU27 2.0 37.8 1.0
O B:HOH310 2.0 45.9 1.0
OE1 B:GLU62 2.2 47.8 1.0
ND1 B:HIS65 2.5 41.5 1.0
CD B:GLU62 2.9 42.2 1.0
CD B:GLU27 3.0 37.6 1.0
OE2 B:GLU62 3.0 61.6 1.0
OE2 B:GLU27 3.3 37.7 1.0
CE1 B:HIS65 3.4 49.4 1.0
CG B:HIS65 3.5 33.8 1.0
CB B:HIS65 3.7 26.6 1.0
OE1 B:GLN141 3.8 41.8 1.0
O B:HOH331 3.9 46.5 1.0
O B:HOH309 4.1 57.0 1.0
CG B:GLU62 4.3 29.4 1.0
CG1 B:VAL110 4.3 28.9 1.0
CG B:GLU27 4.3 30.6 1.0
CA B:GLU62 4.6 22.3 1.0
NE2 B:HIS65 4.6 46.7 1.0
CD2 B:HIS65 4.6 39.1 1.0
CD B:GLN141 4.7 33.0 1.0
CB B:GLU62 4.7 24.5 1.0
CB B:GLU27 4.8 24.4 1.0

Sodium binding site 8 out of 32 in 7a6b

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Sodium binding site 8 out of 32 in the 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 8 of 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na202

b:50.2
occ:1.00
 O O:HOH414 2.4 58.4 1.0
OE2 O:GLU134 2.5 38.5 1.0
OE2 P:GLU134 2.5 38.5 1.0
OE2 B:GLU134 2.5 38.5 1.0
OD2 O:ASP131 3.3 48.8 1.0
OD2 B:ASP131 3.3 48.7 1.0
OD2 P:ASP131 3.3 48.7 1.0
O O:HOH424 3.5 51.6 1.0
O P:HOH422 3.5 51.6 1.0
O B:HOH323 3.5 51.6 1.0
CD O:GLU134 3.8 40.0 1.0
CD P:GLU134 3.8 40.0 1.0
CD B:GLU134 3.8 40.0 1.0
CG B:ASP131 4.4 38.0 1.0
CG O:ASP131 4.4 38.1 1.0
CG P:ASP131 4.4 38.0 1.0
OE1 O:GLU134 4.4 45.6 1.0
OE1 P:GLU134 4.4 45.7 1.0
OE1 B:GLU134 4.4 45.7 1.0
CB O:GLU134 4.8 34.9 1.0
CB B:GLU134 4.8 34.9 1.0
CB P:GLU134 4.8 34.9 1.0
CB B:ASP131 4.8 28.1 1.0
CB O:ASP131 4.8 28.1 1.0
CB P:ASP131 4.8 28.1 1.0
CG O:GLU134 4.9 37.3 1.0
CG P:GLU134 4.9 37.3 1.0
CG B:GLU134 4.9 37.3 1.0
CA B:ASP131 5.0 24.7 1.0
CA O:ASP131 5.0 24.6 1.0
CA P:ASP131 5.0 24.6 1.0

Sodium binding site 9 out of 32 in 7a6b

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Sodium binding site 9 out of 32 in the 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 9 of 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Na300

b:40.5
occ:1.00
 OE1 E:GLU27 2.0 37.8 1.0
O E:HOH410 2.0 45.9 1.0
OE1 E:GLU62 2.2 47.7 1.0
ND1 E:HIS65 2.5 41.5 1.0
CD E:GLU62 2.9 42.2 1.0
CD E:GLU27 3.0 37.6 1.0
OE2 E:GLU62 3.0 61.6 1.0
OE2 E:GLU27 3.3 37.7 1.0
CE1 E:HIS65 3.4 49.4 1.0
CG E:HIS65 3.5 33.7 1.0
CB E:HIS65 3.7 26.6 1.0
OE1 E:GLN141 3.8 41.8 1.0
O E:HOH430 3.9 46.5 1.0
O E:HOH409 4.1 57.0 1.0
CG E:GLU62 4.3 29.4 1.0
CG1 E:VAL110 4.3 28.9 1.0
CG E:GLU27 4.3 30.6 1.0
CA E:GLU62 4.6 22.3 1.0
NE2 E:HIS65 4.6 46.7 1.0
CD2 E:HIS65 4.6 39.1 1.0
CD E:GLN141 4.7 33.0 1.0
CB E:GLU62 4.7 24.5 1.0
CB E:GLU27 4.8 24.4 1.0

Sodium binding site 10 out of 32 in 7a6b

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Sodium binding site 10 out of 32 in the 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 10 of 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope within 5.0Å range:
probe atom residue distance (Å) B Occ
e:Na300

b:40.5
occ:1.00
 OE1 e:GLU27 2.0 37.8 1.0
O e:HOH409 2.0 45.9 1.0
OE1 e:GLU62 2.2 47.9 1.0
ND1 e:HIS65 2.5 41.4 1.0
CD e:GLU62 2.9 42.1 1.0
CD e:GLU27 3.0 37.5 1.0
OE2 e:GLU62 3.0 60.9 1.0
OE2 e:GLU27 3.3 37.7 1.0
CE1 e:HIS65 3.4 49.2 1.0
CG e:HIS65 3.5 33.7 1.0
CB e:HIS65 3.7 26.7 1.0
OE1 e:GLN141 3.8 41.7 1.0
O e:HOH430 3.9 46.5 1.0
O e:HOH410 4.1 57.0 1.0
CG e:GLU62 4.3 29.4 1.0
CG1 e:VAL110 4.3 28.9 1.0
CG e:GLU27 4.3 30.7 1.0
CA e:GLU62 4.6 22.3 1.0
NE2 e:HIS65 4.6 46.7 1.0
CD2 e:HIS65 4.6 39.0 1.0
CD e:GLN141 4.7 33.0 1.0
CB e:GLU62 4.7 24.5 1.0
CB e:GLU27 4.8 24.4 1.0

Reference:

K.M.Yip, N.Fischer, A.Chari, H.Stark. 1.33 A Structure of Human Apoferritin Obtained From Titan Mono- Bcor Microscope To Be Published.
Page generated: Tue Dec 15 17:21:18 2020

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