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Tantalum in PDB 6m9g: Bbvci B2 Dimer with TA6BR14 Clusters

Protein crystallography data

The structure of Bbvci B2 Dimer with TA6BR14 Clusters, PDB code: 6m9g was solved by B.W.Shen, B.L.Stoddard, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.97 / 2.35
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 86.106, 173.304, 107.054, 90.00, 90.00, 90.00
R / Rfree (%) 19.8 / 23.9

Other elements in 6m9g:

The structure of Bbvci B2 Dimer with TA6BR14 Clusters also contains other interesting chemical elements:

Bromine (Br) 132 atoms

Tantalum Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40; Page 5, Binding sites: 41 - 50; Page 6, Binding sites: 51 - 60; Page 7, Binding sites: 61 - 66;

Binding sites:

The binding sites of Tantalum atom in the Bbvci B2 Dimer with TA6BR14 Clusters (pdb code 6m9g). This binding sites where shown within 5.0 Angstroms radius around Tantalum atom.
In total 66 binding sites of Tantalum where determined in the Bbvci B2 Dimer with TA6BR14 Clusters, PDB code: 6m9g:
Jump to Tantalum binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Tantalum binding site 1 out of 66 in 6m9g

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Tantalum binding site 1 out of 66 in the Bbvci B2 Dimer with TA6BR14 Clusters


Mono view


Stereo pair view

A full contact list of Tantalum with other atoms in the Ta binding site number 1 of Bbvci B2 Dimer with TA6BR14 Clusters within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ta301

b:75.4
occ:0.50
TA1 A:TBR301 0.0 75.4 0.5
TA1 A:TBR301 1.5 29.2 0.5
BR3 A:TBR301 1.6 32.0 0.5
TA5 A:TBR301 1.7 27.2 0.5
BR2 A:TBR301 2.6 85.8 0.5
BR3 A:TBR301 2.6 68.6 0.5
BR4 A:TBR301 2.6 0.5 0.5
BR1 A:TBR301 2.6 84.5 0.5
TA2 A:TBR301 2.9 82.1 0.5
TA6 A:TBR301 2.9 77.0 0.5
TA3 A:TBR301 2.9 72.1 0.5
TA6 A:TBR301 2.9 34.3 0.5
TA5 A:TBR301 2.9 84.4 0.5
TA3 A:TBR301 2.9 34.4 0.5
BR4 A:TBR301 3.1 28.7 0.5
BR6 A:TBR301 3.2 28.5 0.5
BR2 A:TBR301 3.2 29.7 0.5
BRB A:TBR301 3.2 25.8 0.5
TA2 A:TBR301 3.7 26.3 0.5
TA4 A:TBR301 3.9 28.0 0.5
BRC A:TBR301 4.0 79.8 0.5
BR5 A:TBR301 4.0 85.3 0.5
TA4 A:TBR301 4.0 87.9 0.5
BR6 A:TBR301 4.1 89.6 0.5
BR1 A:TBR301 4.1 35.6 0.5
BR7 A:TBR301 4.3 28.0 0.5
BRB A:TBR301 4.4 90.8 0.5
BRC A:TBR301 4.8 25.7 0.5
BR5 A:TBR301 5.0 28.4 0.5

Tantalum binding site 2 out of 66 in 6m9g

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Tantalum binding site 2 out of 66 in the Bbvci B2 Dimer with TA6BR14 Clusters


Mono view


Stereo pair view

A full contact list of Tantalum with other atoms in the Ta binding site number 2 of Bbvci B2 Dimer with TA6BR14 Clusters within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ta301

b:29.2
occ:0.50
TA1 A:TBR301 0.0 29.2 0.5
TA1 A:TBR301 1.5 75.4 0.5
TA2 A:TBR301 1.6 82.1 0.5
BR1 A:TBR301 1.8 84.5 0.5
TA3 A:TBR301 2.5 72.1 0.5
BR1 A:TBR301 2.6 35.6 0.5
BR2 A:TBR301 2.6 29.7 0.5
BR4 A:TBR301 2.6 28.7 0.5
BR3 A:TBR301 2.7 32.0 0.5
BR5 A:TBR301 2.7 85.3 0.5
BR2 A:TBR301 2.8 85.8 0.5
TA2 A:TBR301 2.8 26.3 0.5
TA3 A:TBR301 2.9 34.4 0.5
TA5 A:TBR301 2.9 27.2 0.5
TA6 A:TBR301 2.9 34.3 0.5
TA6 A:TBR301 3.1 77.0 0.5
BRC A:TBR301 3.4 79.8 0.5
BR4 A:TBR301 3.5 0.5 0.5
TA4 A:TBR301 3.7 87.9 0.5
TA5 A:TBR301 3.7 84.4 0.5
BR9 A:TBR301 4.0 64.3 0.5
BRC A:TBR301 4.1 25.7 0.5
BR3 A:TBR301 4.1 68.6 0.5
BR5 A:TBR301 4.1 28.4 0.5
BR6 A:TBR301 4.1 28.5 0.5
TA4 A:TBR301 4.1 28.0 0.5
BRB A:TBR301 4.3 25.8 0.5
BR6 A:TBR301 4.6 89.6 0.5
BRA A:TBR301 4.6 0.8 0.5
BR8 A:TBR301 5.0 97.2 0.5

Tantalum binding site 3 out of 66 in 6m9g

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Tantalum binding site 3 out of 66 in the Bbvci B2 Dimer with TA6BR14 Clusters


Mono view


Stereo pair view

A full contact list of Tantalum with other atoms in the Ta binding site number 3 of Bbvci B2 Dimer with TA6BR14 Clusters within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ta301

b:82.1
occ:0.50
TA2 A:TBR301 0.0 82.1 0.5
TA1 A:TBR301 1.6 29.2 0.5
BR1 A:TBR301 1.6 35.6 0.5
TA2 A:TBR301 1.8 26.3 0.5
BR4 A:TBR301 2.6 28.7 0.5
BR5 A:TBR301 2.6 85.3 0.5
BR1 A:TBR301 2.6 84.5 0.5
BRC A:TBR301 2.6 79.8 0.5
BR9 A:TBR301 2.6 64.3 0.5
TA6 A:TBR301 2.6 34.3 0.5
BRC A:TBR301 2.7 25.7 0.5
TA1 A:TBR301 2.9 75.4 0.5
TA3 A:TBR301 2.9 72.1 0.5
TA4 A:TBR301 2.9 87.9 0.5
TA6 A:TBR301 2.9 77.0 0.5
TA3 A:TBR301 3.5 34.4 0.5
BR2 A:TBR301 3.6 29.7 0.5
BR5 A:TBR301 3.8 28.4 0.5
TA5 A:TBR301 3.8 27.2 0.5
TA4 A:TBR301 4.0 28.0 0.5
BR8 A:TBR301 4.1 97.2 0.5
BR2 A:TBR301 4.1 85.8 0.5
BRA A:TBR301 4.1 0.8 0.5
TA5 A:TBR301 4.1 84.4 0.5
BR3 A:TBR301 4.2 32.0 0.5
BR4 A:TBR301 4.2 0.5 0.5
BR9 A:TBR301 4.5 27.2 0.5
BRB A:TBR301 4.8 25.8 0.5
BR8 A:TBR301 4.9 26.1 0.5

Tantalum binding site 4 out of 66 in 6m9g

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Tantalum binding site 4 out of 66 in the Bbvci B2 Dimer with TA6BR14 Clusters


Mono view


Stereo pair view

A full contact list of Tantalum with other atoms in the Ta binding site number 4 of Bbvci B2 Dimer with TA6BR14 Clusters within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ta301

b:26.3
occ:0.50
TA2 A:TBR301 0.0 26.3 0.5
TA4 A:TBR301 1.5 87.9 0.5
BR9 A:TBR301 1.7 64.3 0.5
TA2 A:TBR301 1.8 82.1 0.5
TA3 A:TBR301 2.3 72.1 0.5
BRA A:TBR301 2.4 0.8 0.5
BRC A:TBR301 2.5 25.7 0.5
BR5 A:TBR301 2.6 28.4 0.5
BR1 A:TBR301 2.6 35.6 0.5
BR9 A:TBR301 2.7 27.2 0.5
TA1 A:TBR301 2.8 29.2 0.5
BR5 A:TBR301 2.8 85.3 0.5
TA4 A:TBR301 2.9 28.0 0.5
TA6 A:TBR301 2.9 34.3 0.5
TA3 A:TBR301 2.9 34.4 0.5
TA6 A:TBR301 3.3 77.0 0.5
BR8 A:TBR301 3.5 97.2 0.5
TA5 A:TBR301 3.6 84.4 0.5
TA1 A:TBR301 3.7 75.4 0.5
BRC A:TBR301 3.8 79.8 0.5
BR7 A:TBR301 3.9 87.6 0.5
TA5 A:TBR301 4.0 27.2 0.5
BRA A:TBR301 4.1 28.2 0.5
BR4 A:TBR301 4.1 28.7 0.5
BR8 A:TBR301 4.2 26.1 0.5
BR2 A:TBR301 4.2 29.7 0.5
BR1 A:TBR301 4.3 84.5 0.5
BR6 A:TBR301 4.4 89.6 0.5
BR2 A:TBR301 4.6 85.8 0.5
BRB A:TBR301 4.9 90.8 0.5

Tantalum binding site 5 out of 66 in 6m9g

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Tantalum binding site 5 out of 66 in the Bbvci B2 Dimer with TA6BR14 Clusters


Mono view


Stereo pair view

A full contact list of Tantalum with other atoms in the Ta binding site number 5 of Bbvci B2 Dimer with TA6BR14 Clusters within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ta301

b:72.1
occ:0.50
TA3 A:TBR301 0.0 72.1 0.5
TA3 A:TBR301 0.7 34.4 0.5
BR5 A:TBR301 2.3 28.4 0.5
TA2 A:TBR301 2.3 26.3 0.5
TA1 A:TBR301 2.5 29.2 0.5
BRA A:TBR301 2.5 0.8 0.5
BR6 A:TBR301 2.6 89.6 0.5
BR2 A:TBR301 2.6 85.8 0.5
BR5 A:TBR301 2.6 85.3 0.5
BR2 A:TBR301 2.6 29.7 0.5
TA4 A:TBR301 2.9 87.9 0.5
TA2 A:TBR301 2.9 82.1 0.5
TA1 A:TBR301 2.9 75.4 0.5
TA5 A:TBR301 2.9 84.4 0.5
TA4 A:TBR301 2.9 28.0 0.5
BRA A:TBR301 3.0 28.2 0.5
TA5 A:TBR301 3.0 27.2 0.5
BR6 A:TBR301 3.2 28.5 0.5
BR1 A:TBR301 3.6 35.6 0.5
TA6 A:TBR301 3.8 34.3 0.5
BR9 A:TBR301 3.9 64.3 0.5
BR9 A:TBR301 3.9 27.2 0.5
BR7 A:TBR301 4.1 87.6 0.5
TA6 A:TBR301 4.1 77.0 0.5
BR1 A:TBR301 4.1 84.5 0.5
BR3 A:TBR301 4.2 68.6 0.5
BR3 A:TBR301 4.3 32.0 0.5
BR7 A:TBR301 4.5 28.0 0.5
BRC A:TBR301 4.7 25.7 0.5
O A:SER100 4.7 43.9 1.0
OD2 A:ASP103 4.8 46.5 1.0
BR4 A:TBR301 4.9 28.7 0.5

Tantalum binding site 6 out of 66 in 6m9g

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Tantalum binding site 6 out of 66 in the Bbvci B2 Dimer with TA6BR14 Clusters


Mono view


Stereo pair view

A full contact list of Tantalum with other atoms in the Ta binding site number 6 of Bbvci B2 Dimer with TA6BR14 Clusters within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ta301

b:34.4
occ:0.50
TA3 A:TBR301 0.0 34.4 0.5
TA3 A:TBR301 0.7 72.1 0.5
BR6 A:TBR301 2.0 89.6 0.5
BR2 A:TBR301 2.4 85.8 0.5
BR6 A:TBR301 2.6 28.5 0.5
BRA A:TBR301 2.6 28.2 0.5
BR5 A:TBR301 2.7 28.4 0.5
TA5 A:TBR301 2.7 84.4 0.5
BR2 A:TBR301 2.8 29.7 0.5
BRA A:TBR301 2.8 0.8 0.5
TA5 A:TBR301 2.8 27.2 0.5
TA2 A:TBR301 2.9 26.3 0.5
TA1 A:TBR301 2.9 29.2 0.5
TA4 A:TBR301 2.9 28.0 0.5
TA1 A:TBR301 2.9 75.4 0.5
BR5 A:TBR301 3.2 85.3 0.5
TA4 A:TBR301 3.2 87.9 0.5
TA2 A:TBR301 3.5 82.1 0.5
BR3 A:TBR301 3.9 68.6 0.5
BR7 A:TBR301 4.0 87.6 0.5
BR7 A:TBR301 4.1 28.0 0.5
TA6 A:TBR301 4.1 34.3 0.5
BR9 A:TBR301 4.2 27.2 0.5
BR3 A:TBR301 4.2 32.0 0.5
O A:SER100 4.2 43.9 1.0
BR1 A:TBR301 4.3 35.6 0.5
TA6 A:TBR301 4.4 77.0 0.5
BR1 A:TBR301 4.5 84.5 0.5
BR9 A:TBR301 4.5 64.3 0.5
OD2 A:ASP103 4.6 46.5 1.0

Tantalum binding site 7 out of 66 in 6m9g

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Tantalum binding site 7 out of 66 in the Bbvci B2 Dimer with TA6BR14 Clusters


Mono view


Stereo pair view

A full contact list of Tantalum with other atoms in the Ta binding site number 7 of Bbvci B2 Dimer with TA6BR14 Clusters within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ta301

b:87.9
occ:0.50
TA4 A:TBR301 0.0 87.9 0.5
TA2 A:TBR301 1.5 26.3 0.5
TA4 A:TBR301 1.7 28.0 0.5
BR9 A:TBR301 1.8 27.2 0.5
TA6 A:TBR301 2.5 34.3 0.5
BR9 A:TBR301 2.5 64.3 0.5
BRC A:TBR301 2.5 25.7 0.5
BRA A:TBR301 2.6 0.8 0.5
BR8 A:TBR301 2.6 97.2 0.5
BR7 A:TBR301 2.6 87.6 0.5
BR8 A:TBR301 2.9 26.1 0.5
TA5 A:TBR301 2.9 84.4 0.5
TA3 A:TBR301 2.9 72.1 0.5
TA6 A:TBR301 2.9 77.0 0.5
TA2 A:TBR301 2.9 82.1 0.5
TA3 A:TBR301 3.2 34.4 0.5
BR5 A:TBR301 3.5 28.4 0.5
BRA A:TBR301 3.6 28.2 0.5
TA1 A:TBR301 3.7 29.2 0.5
TA5 A:TBR301 3.7 27.2 0.5
BRB A:TBR301 3.8 90.8 0.5
BR1 A:TBR301 4.0 35.6 0.5
TA1 A:TBR301 4.0 75.4 0.5
BR6 A:TBR301 4.1 89.6 0.5
BRC A:TBR301 4.2 79.8 0.5
BR5 A:TBR301 4.2 85.3 0.5
BR7 A:TBR301 4.2 28.0 0.5
BR4 A:TBR301 4.6 28.7 0.5
BRB A:TBR301 4.7 25.8 0.5

Tantalum binding site 8 out of 66 in 6m9g

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Tantalum binding site 8 out of 66 in the Bbvci B2 Dimer with TA6BR14 Clusters


Mono view


Stereo pair view

A full contact list of Tantalum with other atoms in the Ta binding site number 8 of Bbvci B2 Dimer with TA6BR14 Clusters within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ta301

b:28.0
occ:0.50
TA4 A:TBR301 0.0 28.0 0.5
BR7 A:TBR301 1.4 87.6 0.5
TA5 A:TBR301 1.6 84.4 0.5
TA4 A:TBR301 1.7 87.9 0.5
BR9 A:TBR301 2.6 27.2 0.5
BR8 A:TBR301 2.6 26.1 0.5
BR7 A:TBR301 2.6 28.0 0.5
BRA A:TBR301 2.6 28.2 0.5
TA2 A:TBR301 2.9 26.3 0.5
TA6 A:TBR301 2.9 34.3 0.5
TA5 A:TBR301 2.9 27.2 0.5
BRB A:TBR301 2.9 90.8 0.5
TA3 A:TBR301 2.9 34.4 0.5
TA3 A:TBR301 2.9 72.1 0.5
BR6 A:TBR301 3.0 89.6 0.5
BRA A:TBR301 3.1 0.8 0.5
TA6 A:TBR301 3.1 77.0 0.5
BR8 A:TBR301 3.4 97.2 0.5
TA1 A:TBR301 3.9 75.4 0.5
TA2 A:TBR301 4.0 82.1 0.5
BRC A:TBR301 4.0 25.7 0.5
TA1 A:TBR301 4.1 29.2 0.5
BR3 A:TBR301 4.1 68.6 0.5
BR5 A:TBR301 4.2 28.4 0.5
BRB A:TBR301 4.2 25.8 0.5
BR9 A:TBR301 4.2 64.3 0.5
BR6 A:TBR301 4.2 28.5 0.5
BR2 A:TBR301 5.0 85.8 0.5

Tantalum binding site 9 out of 66 in 6m9g

Go back to Tantalum Binding Sites List in 6m9g
Tantalum binding site 9 out of 66 in the Bbvci B2 Dimer with TA6BR14 Clusters


Mono view


Stereo pair view

A full contact list of Tantalum with other atoms in the Ta binding site number 9 of Bbvci B2 Dimer with TA6BR14 Clusters within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ta301

b:84.4
occ:0.50
TA5 A:TBR301 0.0 84.4 0.5
TA5 A:TBR301 1.5 27.2 0.5
TA4 A:TBR301 1.6 28.0 0.5
BR7 A:TBR301 1.7 28.0 0.5
BRB A:TBR301 2.6 90.8 0.5
BR3 A:TBR301 2.6 68.6 0.5
BR7 A:TBR301 2.6 87.6 0.5
BR6 A:TBR301 2.6 89.6 0.5
TA3 A:TBR301 2.7 34.4 0.5
TA6 A:TBR301 2.8 34.3 0.5
TA4 A:TBR301 2.9 87.9 0.5
TA1 A:TBR301 2.9 75.4 0.5
TA6 A:TBR301 2.9 77.0 0.5
TA3 A:TBR301 2.9 72.1 0.5
BR6 A:TBR301 3.0 28.5 0.5
BRA A:TBR301 3.1 28.2 0.5
BRB A:TBR301 3.2 25.8 0.5
BR8 A:TBR301 3.3 26.1 0.5
TA2 A:TBR301 3.6 26.3 0.5
TA1 A:TBR301 3.7 29.2 0.5
BR9 A:TBR301 4.1 27.2 0.5
BR4 A:TBR301 4.1 0.5 0.5
TA2 A:TBR301 4.1 82.1 0.5
BRA A:TBR301 4.1 0.8 0.5
BR2 A:TBR301 4.2 85.8 0.5
BR8 A:TBR301 4.2 97.2 0.5
BR3 A:TBR301 4.2 32.0 0.5
BRC A:TBR301 4.8 25.7 0.5
BR5 A:TBR301 4.8 28.4 0.5
BR4 A:TBR301 4.9 28.7 0.5
BR2 A:TBR301 5.0 29.7 0.5

Tantalum binding site 10 out of 66 in 6m9g

Go back to Tantalum Binding Sites List in 6m9g
Tantalum binding site 10 out of 66 in the Bbvci B2 Dimer with TA6BR14 Clusters


Mono view


Stereo pair view

A full contact list of Tantalum with other atoms in the Ta binding site number 10 of Bbvci B2 Dimer with TA6BR14 Clusters within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ta301

b:27.2
occ:0.50
TA5 A:TBR301 0.0 27.2 0.5
TA5 A:TBR301 1.5 84.4 0.5
BR3 A:TBR301 1.5 68.6 0.5
TA1 A:TBR301 1.7 75.4 0.5
BR6 A:TBR301 2.6 28.5 0.5
BRB A:TBR301 2.6 25.8 0.5
BR7 A:TBR301 2.6 28.0 0.5
BR3 A:TBR301 2.7 32.0 0.5
TA6 A:TBR301 2.8 77.0 0.5
TA3 A:TBR301 2.8 34.4 0.5
TA6 A:TBR301 2.8 34.3 0.5
TA1 A:TBR301 2.9 29.2 0.5
TA4 A:TBR301 2.9 28.0 0.5
BR4 A:TBR301 3.0 0.5 0.5
TA3 A:TBR301 3.0 72.1 0.5
BRB A:TBR301 3.2 90.8 0.5
BR6 A:TBR301 3.2 89.6 0.5
BR2 A:TBR301 3.3 85.8 0.5
TA4 A:TBR301 3.7 87.9 0.5
TA2 A:TBR301 3.8 82.1 0.5
TA2 A:TBR301 4.0 26.3 0.5
BR7 A:TBR301 4.1 87.6 0.5
BR4 A:TBR301 4.1 28.7 0.5
BRA A:TBR301 4.2 28.2 0.5
BR8 A:TBR301 4.3 26.1 0.5
BR1 A:TBR301 4.3 84.5 0.5
BR2 A:TBR301 4.3 29.7 0.5
BRC A:TBR301 4.8 79.8 0.5
NH2 A:ARG101 4.9 58.0 1.0
BR8 A:TBR301 4.9 97.2 0.5
BRA A:TBR301 5.0 0.8 0.5

Reference:

B.W.Shen, L.Doyle, P.Bradley, D.F.Heiter, K.D.Lunnen, G.G.Wilson, B.L.Stoddard. Structure, Subunit Organization and Behavior of the Asymmetric Type Iit Restriction Endonuclease Bbvci. Nucleic Acids Res. V. 47 450 2019.
ISSN: ESSN 1362-4962
PubMed: 30395313
DOI: 10.1093/NAR/GKY1059
Page generated: Wed Dec 16 02:26:20 2020

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