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Barium in PDB 7rk6: Aplysia SLO1 with Barium

Other elements in 7rk6:

The structure of Aplysia SLO1 with Barium also contains other interesting chemical elements:

Potassium (K) 3 atoms

Barium Binding Sites:

The binding sites of Barium atom in the Aplysia SLO1 with Barium (pdb code 7rk6). This binding sites where shown within 5.0 Angstroms radius around Barium atom.
In total 8 binding sites of Barium where determined in the Aplysia SLO1 with Barium, PDB code: 7rk6:
Jump to Barium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Barium binding site 1 out of 8 in 7rk6

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Barium binding site 1 out of 8 in the Aplysia SLO1 with Barium


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 1 of Aplysia SLO1 with Barium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ba1101

b:155.7
occ:1.00
 OE2 A:GLU525 2.7 84.6 1.0
O A:GLU591 2.7 93.1 1.0
O A:GLY523 2.8 83.7 1.0
CD A:GLU525 3.8 84.6 1.0
C A:GLU591 3.9 93.1 1.0
C A:GLY523 3.9 83.7 1.0
O A:ARG503 4.0 80.3 1.0
OE1 A:GLU525 4.4 84.6 1.0
CA A:GLY523 4.6 83.7 1.0
OH A:TYR527 4.6 87.5 1.0
CA A:GLU591 4.6 93.1 1.0
OD2 A:ASP356 4.7 99.8 1.0
CG A:GLU525 4.7 84.6 1.0
CB A:SER592 4.8 100.3 1.0
N A:SER592 4.9 100.3 1.0
OE1 A:GLU591 4.9 93.1 1.0
CA A:SER592 5.0 100.3 1.0
CG A:ASP356 5.0 99.8 1.0
N A:MET524 5.0 81.5 1.0

Barium binding site 2 out of 8 in 7rk6

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Barium binding site 2 out of 8 in the Aplysia SLO1 with Barium


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 2 of Aplysia SLO1 with Barium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ba1102

b:139.5
occ:1.00
 O A:HOH1201 2.7 88.9 1.0
OD1 A:ASP905 2.7 96.6 1.0
O A:GLN899 2.7 75.7 1.0
OD2 A:ASP905 2.7 96.6 1.0
O A:ASP902 2.8 85.5 1.0
OD1 B:ASN438 2.8 76.5 1.0
ND2 B:ASN438 2.9 76.5 1.0
CG A:ASP905 3.1 96.6 1.0
CG B:ASN438 3.2 76.5 1.0
C A:GLN899 3.8 75.7 1.0
C A:ASP902 3.9 85.5 1.0
CA A:GLN899 4.3 75.7 1.0
CB A:GLN899 4.4 75.7 1.0
CA A:GLN903 4.4 90.9 1.0
CB A:ASP905 4.6 96.6 1.0
N A:GLN903 4.6 90.9 1.0
CB B:ASN438 4.7 76.5 1.0
O A:GLN903 4.7 90.9 1.0
C A:GLN903 4.8 90.9 1.0
N A:PHE900 4.8 71.9 1.0
N A:ASP906 4.9 102.7 1.0

Barium binding site 3 out of 8 in 7rk6

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Barium binding site 3 out of 8 in the Aplysia SLO1 with Barium


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 3 of Aplysia SLO1 with Barium within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ba1101

b:155.5
occ:1.00
 O B:GLU591 2.7 93.0 1.0
O B:GLY523 2.7 83.6 1.0
OE2 B:GLU525 2.8 84.6 1.0
CD B:GLU525 3.8 84.6 1.0
C B:GLU591 3.9 93.0 1.0
C B:GLY523 3.9 83.6 1.0
O B:ARG503 4.0 80.2 1.0
OE1 B:GLU525 4.4 84.6 1.0
CA B:GLY523 4.6 83.6 1.0
OH B:TYR527 4.6 87.4 1.0
CA B:GLU591 4.6 93.0 1.0
OD2 B:ASP356 4.7 99.6 1.0
CG B:GLU525 4.7 84.6 1.0
CB B:SER592 4.8 100.2 1.0
N B:SER592 4.9 100.2 1.0
OE1 B:GLU591 4.9 93.0 1.0
CA B:SER592 5.0 100.2 1.0
CG B:ASP356 5.0 99.6 1.0
N B:MET524 5.0 81.4 1.0

Barium binding site 4 out of 8 in 7rk6

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Barium binding site 4 out of 8 in the Aplysia SLO1 with Barium


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 4 of Aplysia SLO1 with Barium within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ba1102

b:139.2
occ:1.00
 OD1 C:ASN438 2.7 76.5 1.0
O B:GLN899 2.7 75.7 1.0
OD1 B:ASP905 2.7 96.4 1.0
O B:HOH1201 2.7 89.1 1.0
O B:ASP902 2.8 85.2 1.0
OD2 B:ASP905 2.8 96.4 1.0
ND2 C:ASN438 2.9 76.5 1.0
CG B:ASP905 3.1 96.4 1.0
CG C:ASN438 3.2 76.5 1.0
C B:GLN899 3.8 75.7 1.0
C B:ASP902 3.9 85.2 1.0
CA B:GLN899 4.3 75.7 1.0
CB B:GLN899 4.4 75.7 1.0
CA B:GLN903 4.4 90.8 1.0
CB B:ASP905 4.6 96.4 1.0
N B:GLN903 4.6 90.8 1.0
CB C:ASN438 4.7 76.5 1.0
O B:GLN903 4.7 90.8 1.0
C B:GLN903 4.8 90.8 1.0
N B:PHE900 4.8 72.0 1.0
N B:ASP906 4.9 102.4 1.0

Barium binding site 5 out of 8 in 7rk6

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Barium binding site 5 out of 8 in the Aplysia SLO1 with Barium


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 5 of Aplysia SLO1 with Barium within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ba1101

b:154.3
occ:1.00
 OE2 C:GLU525 2.7 84.6 1.0
O C:GLY523 2.8 83.4 1.0
O C:GLU591 2.8 93.0 1.0
CD C:GLU525 3.8 84.6 1.0
C C:GLU591 3.9 93.0 1.0
C C:GLY523 3.9 83.4 1.0
O C:ARG503 4.0 80.1 1.0
OE1 C:GLU525 4.4 84.6 1.0
CA C:GLY523 4.6 83.4 1.0
OH C:TYR527 4.6 87.5 1.0
CA C:GLU591 4.6 93.0 1.0
OD2 C:ASP356 4.7 99.7 1.0
CG C:GLU525 4.7 84.6 1.0
CB C:SER592 4.8 100.2 1.0
N C:SER592 4.9 100.2 1.0
OE1 C:GLU591 4.9 93.0 1.0
CA C:SER592 5.0 100.2 1.0
CG C:ASP356 5.0 99.7 1.0
N C:MET524 5.0 81.5 1.0

Barium binding site 6 out of 8 in 7rk6

Go back to Barium Binding Sites List in 7rk6
Barium binding site 6 out of 8 in the Aplysia SLO1 with Barium


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 6 of Aplysia SLO1 with Barium within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ba1102

b:139.5
occ:1.00
 O C:HOH1201 2.7 88.6 1.0
OD1 C:ASP905 2.7 96.2 1.0
O C:GLN899 2.7 75.5 1.0
OD2 C:ASP905 2.7 96.2 1.0
OD1 D:ASN438 2.7 76.4 1.0
O C:ASP902 2.8 85.1 1.0
ND2 D:ASN438 2.9 76.4 1.0
CG C:ASP905 3.1 96.2 1.0
CG D:ASN438 3.2 76.4 1.0
C C:GLN899 3.8 75.5 1.0
C C:ASP902 3.9 85.1 1.0
CA C:GLN899 4.3 75.5 1.0
CB C:GLN899 4.4 75.5 1.0
CA C:GLN903 4.4 90.7 1.0
CB C:ASP905 4.6 96.2 1.0
N C:GLN903 4.6 90.7 1.0
CB D:ASN438 4.7 76.4 1.0
O C:GLN903 4.7 90.7 1.0
C C:GLN903 4.8 90.7 1.0
N C:PHE900 4.8 71.8 1.0
N C:ASP906 4.9 102.1 1.0

Barium binding site 7 out of 8 in 7rk6

Go back to Barium Binding Sites List in 7rk6
Barium binding site 7 out of 8 in the Aplysia SLO1 with Barium


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 7 of Aplysia SLO1 with Barium within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ba1101

b:156.2
occ:1.00
 OE2 D:GLU525 2.7 85.0 1.0
O D:GLU591 2.7 93.6 1.0
O D:GLY523 2.8 83.9 1.0
CD D:GLU525 3.8 85.0 1.0
C D:GLU591 3.9 93.6 1.0
C D:GLY523 3.9 83.9 1.0
O D:ARG503 4.0 80.3 1.0
OE1 D:GLU525 4.4 85.0 1.0
CA D:GLY523 4.6 83.9 1.0
OH D:TYR527 4.6 87.8 1.0
CA D:GLU591 4.6 93.6 1.0
OD2 D:ASP356 4.7 100.0 1.0
CG D:GLU525 4.7 85.0 1.0
CB D:SER592 4.8 100.7 1.0
N D:SER592 4.9 100.7 1.0
OE1 D:GLU591 4.9 93.6 1.0
CA D:SER592 5.0 100.7 1.0
CG D:ASP356 5.0 100.0 1.0
N D:MET524 5.0 81.9 1.0

Barium binding site 8 out of 8 in 7rk6

Go back to Barium Binding Sites List in 7rk6
Barium binding site 8 out of 8 in the Aplysia SLO1 with Barium


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 8 of Aplysia SLO1 with Barium within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ba1102

b:139.8
occ:1.00
 O D:HOH1201 2.7 88.7 1.0
OD1 D:ASP905 2.7 96.5 1.0
O D:GLN899 2.7 75.7 1.0
OD2 D:ASP905 2.7 96.5 1.0
O D:ASP902 2.8 85.4 1.0
OD1 A:ASN438 2.8 76.5 1.0
ND2 A:ASN438 2.9 76.5 1.0
CG D:ASP905 3.1 96.5 1.0
CG A:ASN438 3.2 76.5 1.0
C D:GLN899 3.8 75.7 1.0
C D:ASP902 3.9 85.4 1.0
CA D:GLN899 4.3 75.7 1.0
CB D:GLN899 4.4 75.7 1.0
CA D:GLN903 4.4 90.9 1.0
CB D:ASP905 4.6 96.5 1.0
N D:GLN903 4.6 90.9 1.0
CB A:ASN438 4.7 76.5 1.0
O D:GLN903 4.7 90.9 1.0
C D:GLN903 4.8 90.9 1.0
N D:PHE900 4.8 71.8 1.0
N D:ASP906 4.9 102.3 1.0

Reference:

J.Zhu, S.Srivastava, R.Cachau, M.Holmgren. Cryoem Structure of Aplysia SLO1 with 0 Mm BA2+ at 2.91 A To Be Published.
Page generated: Tue Apr 4 17:23:05 2023

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