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Silver in PDB 6m2p: Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant)

Protein crystallography data

The structure of Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant), PDB code: 6m2p was solved by J.Kondo, C.Cerretani, T.Vosch, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.14 / 1.13
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 24.211, 33.713, 58.551, 90.00, 98.11, 90.00
R / Rfree (%) 8.5 / 9.6

Other elements in 6m2p:

The structure of Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant) also contains other interesting chemical elements:

Calcium (Ca) 3 atoms

Silver Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 36;

Binding sites:

The binding sites of Silver atom in the Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant) (pdb code 6m2p). This binding sites where shown within 5.0 Angstroms radius around Silver atom.
In total 36 binding sites of Silver where determined in the Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant), PDB code: 6m2p:
Jump to Silver binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Silver binding site 1 out of 36 in 6m2p

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Silver binding site 1 out of 36 in the Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant)


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 1 of Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ag101

b:6.7
occ:1.00
N3 A:DC3 2.3 7.5 1.0
O2 A:DC1 2.4 6.2 1.0
AG A:AG105 2.7 6.5 1.0
AG B:AG105 2.8 6.5 1.0
AG A:AG102 2.8 6.2 1.0
AG B:AG101 2.8 6.8 1.0
H42 A:DC3 2.9 9.6 1.0
N1 A:DA2 3.0 6.5 1.0
O2 A:DC3 3.0 8.3 1.0
C2 A:DC3 3.0 8.0 1.0
C4 A:DC3 3.3 7.4 1.0
C2 A:DA2 3.3 6.5 1.0
O6 A:DG9 3.3 6.2 1.0
C6 A:DA2 3.4 6.2 1.0
C2 A:DC1 3.4 6.4 1.0
N4 A:DC3 3.4 8.0 1.0
H2 A:DA2 3.5 7.8 1.0
N3 A:DC1 3.7 6.6 1.0
N3 A:DC4 3.7 6.9 1.0
H42 A:DC4 3.8 8.8 0.7
N3 A:DA2 3.8 6.6 1.0
C5 A:DA2 3.9 5.8 1.0
N6 A:DA2 3.9 6.3 1.0
AG B:AG102 3.9 6.4 1.0
H61 A:DA2 4.0 7.6 1.0
C4 A:DA2 4.0 6.7 1.0
C6 A:DG9 4.1 6.0 1.0
H41 A:DC3 4.3 9.6 1.0
N4 A:DC4 4.3 7.4 1.0
C4 A:DC4 4.4 7.1 1.0
N1 A:DC3 4.4 9.2 1.0
H62 A:DA2 4.4 7.6 1.0
C2 A:DC4 4.4 6.9 1.0
O2 A:DC4 4.4 6.9 1.0
O2 B:DC3 4.5 8.1 1.0
H1' A:DC1 4.6 9.8 1.0
H2' A:DA2 4.6 10.7 1.0
O2 B:DC1 4.6 7.1 1.0
C5 A:DC3 4.6 8.7 1.0
N3 B:DC1 4.7 7.5 1.0
N1 A:DC1 4.7 7.2 1.0
AG A:AG106 4.8 6.5 1.0
N7 A:DA2 4.8 6.7 1.0
N1 A:DG9 4.8 6.5 1.0
N3 B:DC3 5.0 7.6 1.0
C5 A:DG9 5.0 6.4 1.0
N9 A:DA2 5.0 6.7 1.0
H41 A:DC4 5.0 8.8 0.7
C4 A:DC1 5.0 6.7 1.0
C6 A:DC3 5.0 8.4 1.0

Silver binding site 2 out of 36 in 6m2p

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Silver binding site 2 out of 36 in the Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant)


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 2 of Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ag102

b:6.2
occ:1.00
N3 A:DC4 2.4 6.9 1.0
O6 A:DG9 2.4 6.2 1.0
AG A:AG106 2.7 6.5 1.0
AG B:AG102 2.7 6.4 1.0
AG B:AG105 2.8 6.5 1.0
AG A:AG101 2.8 6.7 1.0
AG A:AG103 2.8 6.2 1.0
AG B:AG106 3.0 6.4 1.0
AG A:AG105 3.0 6.5 1.0
H42 A:DC4 3.0 8.8 0.7
O2 A:DC4 3.1 6.9 1.0
C2 A:DC4 3.1 6.9 1.0
C4 A:DC4 3.4 7.1 1.0
C6 A:DG9 3.4 6.0 1.0
N4 A:DC4 3.5 7.4 1.0
N1 A:DG9 3.7 6.5 1.0
AG B:AG103 3.8 6.4 1.0
N3 A:DC3 3.9 7.5 1.0
AG B:AG101 4.0 6.8 1.0
N3 A:DC8 4.1 6.4 1.0
O2 A:DC3 4.2 8.3 1.0
O2 B:DC4 4.3 6.6 1.0
C2 A:DC3 4.3 8.0 1.0
H41 A:DC4 4.4 8.8 0.7
O2 A:DC1 4.4 6.2 1.0
N1 A:DC4 4.5 7.6 1.0
C2 A:DC8 4.5 5.8 1.0
O2 A:DC8 4.5 7.0 1.0
H42 A:DC3 4.6 9.6 1.0
O6 B:DG9 4.6 7.0 1.0
N3 A:DC1 4.6 6.6 1.0
H42 A:DC8 4.6 8.4 1.0
C5 A:DC4 4.7 7.3 1.0
C5 A:DG9 4.7 6.4 1.0
C4 A:DC8 4.7 6.0 1.0
C4 A:DC3 4.7 7.4 1.0
N1 B:DG9 4.7 7.0 1.0
H42 B:DC1 4.8 10.6 1.0
N3 B:DC4 4.8 6.7 1.0
AG A:AG109 4.8 7.6 0.3
N4 A:DC3 4.9 8.0 1.0
N4 A:DC8 4.9 7.0 1.0
C2 A:DC1 4.9 6.4 1.0
C2 B:DC4 5.0 7.0 1.0

Silver binding site 3 out of 36 in 6m2p

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Silver binding site 3 out of 36 in the Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant)


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 3 of Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ag103

b:6.2
occ:1.00
N3 A:DC8 2.2 6.4 1.0
AG B:AG106 2.7 6.4 1.0
AG B:AG103 2.7 6.4 1.0
AG A:AG106 2.8 6.5 1.0
AG A:AG102 2.8 6.2 1.0
AG A:AG107 2.8 6.4 1.0
AG B:AG107 2.9 6.5 1.0
H42 A:DC8 3.0 8.4 1.0
C2 A:DC8 3.0 5.8 1.0
O2 A:DC8 3.0 7.0 1.0
AG A:AG109 3.1 7.6 0.3
AG A:AG104 3.1 6.3 1.0
C4 A:DC8 3.2 6.0 1.0
N4 A:DC8 3.4 7.0 1.0
N3 A:DC4 3.6 6.9 1.0
C2 A:DC4 3.9 6.9 1.0
O2 A:DC4 3.9 6.9 1.0
O6 A:DG9 4.0 6.2 1.0
AG B:AG102 4.1 6.4 1.0
C4 A:DC4 4.3 7.1 1.0
H41 A:DC8 4.3 8.4 1.0
N1 A:DC8 4.3 6.3 1.0
H42 A:DC4 4.4 8.8 0.7
AG B:AG109 4.4 7.3 0.3
N1 A:DG9 4.4 6.5 1.0
C5 A:DC8 4.5 6.9 1.0
N7 A:DG7 4.5 6.0 1.0
AG B:AG104 4.5 6.6 1.0
OP1 A:DA6 4.5 6.7 1.0
O2 B:DC8 4.6 7.4 1.0
N4 A:DC4 4.6 7.4 1.0
C6 A:DG9 4.6 6.0 1.0
H22 B:DG9 4.8 8.7 1.0
N3 B:DC8 4.8 6.1 1.0
N1 A:DC4 4.8 7.6 1.0
C6 A:DC8 4.9 6.7 1.0
AG B:AG105 4.9 6.5 1.0

Silver binding site 4 out of 36 in 6m2p

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Silver binding site 4 out of 36 in the Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant)


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 4 of Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ag104

b:6.3
occ:1.00
N7 A:DG7 2.3 6.0 1.0
OP1 A:DA6 2.4 6.7 1.0
AG A:AG107 2.7 6.4 1.0
AG B:AG107 2.8 6.5 1.0
AG B:AG108 2.8 6.8 1.0
AG A:AG108 2.8 6.5 1.0
N3 A:DC8 3.0 6.4 1.0
AG A:AG103 3.1 6.2 1.0
C8 A:DG7 3.2 6.4 1.0
H8 A:DG7 3.3 7.7 1.0
P A:DA6 3.3 7.3 1.0
C5 A:DG7 3.3 5.6 1.0
OP2 A:DA6 3.4 8.8 1.0
C2 A:DC8 3.5 5.8 1.0
O2 A:DC8 3.6 7.0 1.0
H42 A:DC8 3.6 8.4 1.0
O6 A:DG7 3.7 5.9 1.0
C4 A:DC8 3.7 6.0 1.0
H8 A:DA6 3.7 7.7 1.0
AG B:AG104 3.7 6.6 1.0
C6 A:DG7 3.9 6.0 1.0
AG A:AG109 3.9 7.6 0.3
N4 A:DC8 3.9 7.0 1.0
N7 A:DA6 4.0 6.4 1.0
C8 A:DA6 4.0 6.4 1.0
O6 B:DG7 4.2 6.8 1.0
O5' A:DA6 4.3 8.2 1.0
N9 A:DG7 4.4 6.3 1.0
C4 A:DG7 4.5 5.8 1.0
AG B:AG103 4.5 6.4 1.0
H3' A:DT5 4.5 10.0 0.6
O3' A:DT5 4.5 9.8 0.4
N1 A:DC8 4.5 6.3 1.0
O3' A:DT5 4.6 9.6 0.6
H41 A:DC8 4.6 8.4 1.0
H3' A:DT5 4.6 11.5 0.4
O A:HOH216 4.7 8.7 1.0
C5 A:DC8 4.7 6.9 1.0
N7 B:DA6 4.9 7.2 1.0

Silver binding site 5 out of 36 in 6m2p

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Silver binding site 5 out of 36 in the Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant)


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 5 of Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ag105

b:6.5
occ:1.00
N3 A:DC1 2.3 6.6 1.0
O2 B:DC4 2.5 6.6 1.0
AG A:AG101 2.7 6.7 1.0
AG B:AG102 2.8 6.4 1.0
AG B:AG101 2.8 6.8 1.0
H42 A:DC1 2.8 9.2 1.0
O2 B:DC3 2.8 8.1 1.0
AG A:AG102 3.0 6.2 1.0
C2 A:DC1 3.1 6.4 1.0
AG A:AG106 3.1 6.5 1.0
O2 A:DC1 3.2 6.2 1.0
C4 A:DC1 3.2 6.7 1.0
O6 A:DG9 3.3 6.2 1.0
C2 B:DC4 3.3 7.0 1.0
N4 A:DC1 3.3 7.7 1.0
N1 A:DG9 3.4 6.5 1.0
C6 A:DG9 3.5 6.0 1.0
N3 B:DC4 3.5 6.7 1.0
H61 A:DA2 3.5 7.6 1.0
C2 B:DC3 3.6 8.1 1.0
N3 B:DC3 3.8 7.6 1.0
N6 A:DA2 3.9 6.3 1.0
AG B:AG105 4.0 6.5 1.0
N1 A:DA2 4.2 6.5 1.0
H41 A:DC1 4.2 9.2 1.0
C6 A:DA2 4.3 6.2 1.0
C2 A:DG9 4.3 6.6 1.0
H62 A:DA2 4.3 7.6 1.0
H22 A:DG9 4.4 7.7 1.0
N1 A:DC1 4.5 7.2 1.0
H1' B:DC3 4.5 11.6 0.2
N1 B:DC4 4.5 7.2 1.0
H1' B:DC4 4.5 9.5 0.3
C5 A:DG9 4.5 6.4 1.0
H1' B:DC3 4.6 10.6 0.8
H42 A:DC3 4.6 9.6 1.0
H1' B:DC4 4.6 8.5 0.7
C5 A:DC1 4.6 7.8 1.0
N2 A:DG9 4.7 6.4 1.0
N1 B:DC3 4.7 8.8 1.0
C4 B:DC4 4.8 6.9 1.0
AG B:AG103 4.8 6.4 1.0
H42 A:DC4 4.8 8.8 0.7
N3 A:DC3 4.9 7.5 1.0
O6 B:DG9 4.9 7.0 1.0

Silver binding site 6 out of 36 in 6m2p

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Silver binding site 6 out of 36 in the Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant)


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 6 of Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ag106

b:6.5
occ:1.00
N1 A:DG9 2.3 6.5 1.0
O2 B:DC4 2.6 6.6 1.0
AG B:AG103 2.7 6.4 1.0
AG B:AG109 2.7 7.3 0.3
AG A:AG102 2.7 6.2 1.0
H22 A:DG9 2.8 7.7 1.0
AG A:AG103 2.8 6.2 1.0
O6 A:DG9 3.1 6.2 1.0
C6 A:DG9 3.1 6.0 1.0
AG A:AG105 3.1 6.5 1.0
AG B:AG102 3.2 6.4 1.0
AG A:AG107 3.2 6.4 1.0
C2 A:DG9 3.3 6.6 1.0
O2 A:DC8 3.3 7.0 1.0
N2 A:DG9 3.3 6.4 1.0
C2 B:DC4 3.5 7.0 1.0
H42 A:DC1 3.9 9.2 1.0
N3 B:DC4 3.9 6.7 1.0
H1' B:DC4 4.0 8.5 0.7
C2 A:DC8 4.0 5.8 1.0
AG B:AG106 4.1 6.4 1.0
H1' B:DC4 4.1 9.5 0.3
H42 B:DC8 4.1 8.0 1.0
H21 A:DG9 4.2 7.7 1.0
N3 A:DC8 4.2 6.4 1.0
C5 A:DG9 4.4 6.4 1.0
N3 A:DC1 4.4 6.6 1.0
N4 A:DC1 4.5 7.7 1.0
N1 B:DC4 4.5 7.2 1.0
N3 A:DG9 4.5 6.7 1.0
H42 A:DC4 4.6 8.8 0.7
N3 B:DC8 4.7 6.1 1.0
C1' B:DC4 4.8 7.0 0.7
N3 A:DC4 4.8 6.9 1.0
C1' B:DC4 4.8 7.9 0.3
AG A:AG101 4.8 6.7 1.0
AG B:AG107 4.8 6.5 1.0
C4 A:DC1 4.9 6.7 1.0
N4 B:DC8 4.9 6.7 1.0
C4 A:DG9 4.9 6.8 1.0

Silver binding site 7 out of 36 in 6m2p

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Silver binding site 7 out of 36 in the Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant)


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 7 of Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ag107

b:6.4
occ:1.00
AG B:AG109 2.6 7.3 0.3
O6 A:DG7 2.6 5.9 1.0
AG A:AG104 2.7 6.3 1.0
O2 A:DC8 2.8 7.0 1.0
AG A:AG108 2.8 6.5 1.0
AG B:AG104 2.8 6.6 1.0
AG A:AG103 2.8 6.2 1.0
AG B:AG103 2.9 6.4 1.0
AG A:AG106 3.2 6.5 1.0
AG B:AG107 3.2 6.5 1.0
C6 A:DG7 3.5 6.0 1.0
C2 A:DC8 3.6 5.8 1.0
N3 A:DC8 3.7 6.4 1.0
N7 A:DG7 3.7 6.0 1.0
OP1 B:DA6 3.8 6.3 1.0
C5 A:DG7 3.9 5.6 1.0
H2'' B:DT5 4.0 8.6 0.4
H2'' B:DT5 4.0 8.7 0.6
H42 B:DC8 4.0 8.0 1.0
AG B:AG108 4.1 6.8 1.0
H22 A:DG9 4.2 7.7 1.0
N3 B:DC8 4.3 6.1 1.0
OP2 B:DA6 4.4 7.0 1.0
P B:DA6 4.4 6.5 1.0
N1 A:DG9 4.7 6.5 1.0
N4 B:DC8 4.8 6.7 1.0
O3' B:DT5 4.8 7.7 0.6
N1 A:DG7 4.8 6.1 1.0
N2 A:DG9 4.8 6.4 1.0
O3' B:DT5 4.8 7.1 0.4
H1' A:DC8 4.8 7.7 1.0
C2' B:DT5 4.8 7.2 0.4
C2' B:DT5 4.8 7.2 0.6
N1 A:DC8 4.9 6.3 1.0
N7 A:DA6 4.9 6.4 1.0
AG B:AG106 4.9 6.4 1.0
H62 A:DA6 4.9 8.4 1.0
H3' B:DT5 4.9 8.9 0.4
H3' B:DT5 4.9 9.5 0.6
H1 A:DG7 4.9 7.3 1.0
C4 A:DC8 5.0 6.0 1.0
C8 A:DG7 5.0 6.4 1.0

Silver binding site 8 out of 36 in 6m2p

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Silver binding site 8 out of 36 in the Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant)


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 8 of Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ag108

b:6.5
occ:1.00
N7 A:DA6 2.3 6.4 1.0
OP2 B:DA6 2.4 7.0 1.0
O6 A:DG7 2.5 5.9 1.0
AG B:AG108 2.7 6.8 1.0
AG A:AG107 2.8 6.4 1.0
AG B:AG104 2.8 6.6 1.0
AG A:AG104 2.8 6.3 1.0
H62 A:DA6 3.0 8.4 1.0
H8 B:DA6 3.0 9.0 1.0
C6 A:DG7 3.2 6.0 1.0
C8 A:DA6 3.2 6.4 1.0
H8 A:DA6 3.3 7.7 1.0
P B:DA6 3.3 6.5 1.0
C5 A:DA6 3.3 6.3 1.0
N7 A:DG7 3.5 6.0 1.0
OP1 B:DA6 3.5 6.3 1.0
C5 A:DG7 3.5 5.6 1.0
N6 A:DA6 3.6 7.0 1.0
C8 B:DA6 3.7 7.5 1.0
N7 B:DA6 3.7 7.2 1.0
C6 A:DA6 3.9 6.6 1.0
O3' B:DT5 4.0 7.7 0.6
O3' B:DT5 4.0 7.1 0.4
AG B:AG107 4.1 6.5 1.0
OP2 A:DA6 4.2 8.8 1.0
N1 A:DG7 4.3 6.1 1.0
N9 A:DA6 4.4 6.8 1.0
H61 A:DA6 4.4 8.4 1.0
C4 A:DA6 4.4 6.7 1.0
H2'' B:DT5 4.5 8.7 0.6
H1 A:DG7 4.5 7.3 1.0
H2'' B:DT5 4.5 8.6 0.4
N7 B:DG7 4.6 6.5 1.0
AG B:AG109 4.6 7.3 0.3
C8 A:DG7 4.7 6.4 1.0
O5' B:DA6 4.7 7.7 1.0
O2 A:DC8 4.7 7.0 1.0
OP1 A:DA6 4.7 6.7 1.0
C4 A:DG7 4.8 5.8 1.0
P A:DA6 5.0 7.3 1.0
N9 B:DA6 5.0 7.5 1.0
C3' B:DT5 5.0 7.9 0.6

Silver binding site 9 out of 36 in 6m2p

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Silver binding site 9 out of 36 in the Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant)


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 9 of Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ag109

b:7.6
occ:0.33
H42 A:DC8 2.4 8.4 1.0
H22 B:DG9 2.5 8.7 1.0
AG B:AG107 2.6 6.5 1.0
AG B:AG106 2.8 6.4 1.0
AG A:AG103 3.1 6.2 1.0
H2'' A:DT5 3.2 11.4 0.4
N4 A:DC8 3.2 7.0 1.0
H2'' A:DT5 3.3 9.7 0.6
N2 B:DG9 3.3 7.2 1.0
H2'' A:DC4 3.3 12.7 0.3
H3' A:DT5 3.3 10.0 0.6
O2 A:DC4 3.4 6.9 1.0
H2'' A:DC4 3.4 9.2 0.7
H1' A:DC4 3.4 8.8 0.7
H2' A:DT5 3.5 9.7 0.6
H3' A:DT5 3.6 11.5 0.4
H1' A:DC4 3.6 11.5 0.3
H2' A:DT5 3.6 11.4 0.4
C2' A:DT5 3.7 8.1 0.6
H41 A:DC8 3.7 8.4 1.0
C2' A:DT5 3.7 9.5 0.4
OP1 A:DA6 3.7 6.7 1.0
C2 A:DC4 3.7 6.9 1.0
H2' A:DC4 3.7 9.2 0.7
H21 B:DG9 3.7 8.7 1.0
O6 B:DG7 3.8 6.8 1.0
C2' A:DC4 3.8 7.7 0.7
O2 B:DC8 3.9 7.4 1.0
O B:HOH229 3.9 16.8 1.0
AG A:AG104 3.9 6.3 1.0
C3' A:DT5 3.9 8.3 0.6
C1' A:DC4 3.9 7.3 0.7
C2' A:DC4 3.9 10.6 0.3
C1' A:DC4 4.0 9.6 0.3
N1 B:DG9 4.0 7.0 1.0
N1 A:DC4 4.0 7.6 1.0
C3' A:DT5 4.0 9.6 0.4
N3 A:DC8 4.1 6.4 1.0
H2' A:DC4 4.1 12.7 0.3
C2 B:DG9 4.1 7.6 1.0
C4 A:DC8 4.1 6.0 1.0
AG B:AG103 4.4 6.4 1.0
N3 A:DC4 4.4 6.9 1.0
O3' A:DT5 4.5 9.8 0.4
O3' A:DT5 4.5 9.6 0.6
P A:DA6 4.6 7.3 1.0
O B:HOH227 4.6 16.2 1.0
AG B:AG108 4.7 6.8 1.0
C6 B:DG7 4.8 6.6 1.0
AG A:AG102 4.8 6.2 1.0
C6 A:DC4 4.9 7.6 1.0
H42 B:DC1 4.9 10.6 1.0

Silver binding site 10 out of 36 in 6m2p

Go back to Silver Binding Sites List in 6m2p
Silver binding site 10 out of 36 in the Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant)


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 10 of Crystal Structure of A Nir-Emitting Dna-Stabilized AG16 Nanocluster (A10-Deletion Mutant) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ag101

b:6.8
occ:1.00
N3 B:DC3 2.3 7.6 1.0
N1 A:DA2 2.5 6.5 1.0
O2 B:DC1 2.5 7.1 1.0
AG B:AG105 2.7 6.5 1.0
AG A:AG105 2.8 6.5 1.0
AG A:AG101 2.8 6.7 1.0
AG B:AG102 2.9 6.4 1.0
O2 B:DC3 2.9 8.1 1.0
C2 B:DC3 3.0 8.1 1.0
H42 B:DC3 3.0 10.2 0.8
H61 A:DA2 3.1 7.6 1.0
H2 A:DA2 3.1 7.8 1.0
C2 A:DA2 3.2 6.5 1.0
C4 B:DC3 3.3 7.2 1.0
C6 A:DA2 3.4 6.2 1.0
N4 B:DC3 3.5 8.5 1.0
C2 B:DC1 3.5 7.7 1.0
N6 A:DA2 3.6 6.3 1.0
O6 B:DG9 3.8 7.0 1.0
N3 B:DC1 3.8 7.5 1.0
N3 B:DC4 4.0 6.7 1.0
AG A:AG102 4.0 6.2 1.0
H42 B:DC4 4.2 8.7 0.7
O2 A:DC3 4.4 8.3 1.0
N1 B:DC3 4.4 8.8 1.0
H62 A:DA2 4.4 7.6 1.0
H41 B:DC3 4.4 10.2 0.8
O2 A:DC1 4.4 6.2 1.0
N3 A:DA2 4.5 6.6 1.0
O2 B:DC4 4.5 6.6 1.0
C6 B:DG9 4.5 7.3 1.0
N3 A:DC1 4.5 6.6 1.0
C5 A:DA2 4.6 5.8 1.0
H1' B:DC1 4.6 11.0 1.0
C2 B:DC4 4.6 7.0 1.0
C5 B:DC3 4.6 8.6 1.0
N4 B:DC4 4.7 7.3 1.0
C4 B:DC4 4.7 6.9 1.0
N3 A:DC3 4.8 7.5 1.0
N1 B:DC1 4.8 7.7 1.0
C2 A:DC1 4.9 6.4 1.0
C4 A:DA2 4.9 6.7 1.0
AG B:AG106 5.0 6.4 1.0
C6 B:DC3 5.0 8.5 1.0

Reference:

C.Cerretani, J.Kondo, T.Vosch. Removal of the A10 Adenosine in A Dna-Stabilized AG16 Nanocluster. Rsc Adv V. 10 23854 2020.
ISSN: ESSN 2046-2069
DOI: 10.1039/D0RA02672G
Page generated: Sat Dec 12 01:23:19 2020

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