Phosphorus in PDB 1aff: Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures

Phosphorus Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Phosphorus atom in the Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures (pdb code 1aff). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 12 binding sites of Phosphorus where determined in the Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures, PDB code: 1aff:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 12 in 1aff

Go back to Phosphorus Binding Sites List in 1aff
Phosphorus binding site 1 out of 12 in the Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P2

b:0.9
occ:1.00
P A:DA2 0.0 0.9 1.0
OP2 A:DA2 1.5 1.0 1.0
OP1 A:DA2 1.5 1.1 1.0
O3' A:DT1 1.6 0.7 1.0
O5' A:DA2 1.6 0.8 1.0
C3' A:DT1 2.6 0.7 1.0
C5' A:DA2 2.7 0.8 1.0
H4' A:DT1 2.8 0.9 1.0
H5' A:DA2 2.8 0.8 1.0
H3' A:DT1 3.0 0.8 1.0
H2'' A:DT1 3.2 0.6 1.0
HO5' A:DT1 3.2 1.1 1.0
C4' A:DT1 3.2 0.8 1.0
H5'' A:DA2 3.3 0.9 1.0
H8 A:DA2 3.5 0.6 1.0
C2' A:DT1 3.8 0.6 1.0
O4' A:DA2 3.8 0.5 1.0
C4' A:DA2 3.9 0.6 1.0
O5' A:DT1 4.0 1.1 1.0
O4' A:DT1 4.1 0.9 1.0
H2' A:DA2 4.1 0.6 1.0
C8 A:DA2 4.2 0.5 1.0
C5' A:DT1 4.3 0.9 1.0
H3' A:DA2 4.3 0.6 1.0
H2' A:DT1 4.4 0.7 1.0
C3' A:DA2 4.6 0.5 1.0
N9 A:DA2 4.7 0.4 1.0
C1' A:DT1 4.7 0.8 1.0
C1' A:DA2 4.7 0.4 1.0
C2' A:DA2 4.8 0.5 1.0
H4' A:DA2 4.8 0.7 1.0
H5' A:DT1 4.9 0.8 1.0
H5'' A:DT1 5.0 1.0 1.0

Phosphorus binding site 2 out of 12 in 1aff

Go back to Phosphorus Binding Sites List in 1aff
Phosphorus binding site 2 out of 12 in the Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P3

b:0.5
occ:1.00
P A:DG3 0.0 0.5 1.0
OP2 A:DG3 1.5 0.7 1.0
OP1 A:DG3 1.5 1.2 1.0
O5' A:DG3 1.6 0.8 1.0
O3' A:DA2 1.6 0.5 1.0
H22 A:DG3 2.1 0.5 1.0
H5' A:DG3 2.5 0.7 1.0
C5' A:DG3 2.6 0.7 1.0
C3' A:DA2 2.7 0.5 1.0
H2'' A:DA2 2.8 0.4 1.0
H1' A:DA2 2.8 0.4 1.0
N2 A:DG3 3.0 0.3 1.0
C2' A:DA2 3.1 0.5 1.0
H5'' A:DG3 3.1 1.2 1.0
H2' A:DG3 3.2 0.5 1.0
N3 A:DG3 3.2 0.3 1.0
H4' A:DA2 3.2 0.7 1.0
C1' A:DA2 3.3 0.4 1.0
C2 A:DG3 3.5 0.3 1.0
C4' A:DA2 3.5 0.6 1.0
H3' A:DA2 3.6 0.6 1.0
H21 A:DG3 3.8 0.4 1.0
C4' A:DG3 3.8 0.6 1.0
O4' A:DA2 3.9 0.5 1.0
H3' A:DG3 4.1 0.8 1.0
H2' A:DA2 4.1 0.6 1.0
C2' A:DG3 4.2 0.5 1.0
OP1 C:DG3 4.2 1.1 1.0
C3' A:DG3 4.4 0.6 1.0
O4' A:DG3 4.4 0.6 1.0
C4 A:DG3 4.4 0.3 1.0
H61 B:DA2 4.6 0.8 1.0
N9 A:DA2 4.6 0.4 1.0
H4' A:DG3 4.6 0.7 1.0
N1 A:DG3 4.7 0.3 1.0
H2'' A:DG3 4.8 0.6 1.0
C1' A:DG3 4.9 0.5 1.0
H2' C:DG3 4.9 0.6 1.0
H1 A:DG3 4.9 0.3 1.0
C5' A:DA2 5.0 0.8 1.0

Phosphorus binding site 3 out of 12 in 1aff

Go back to Phosphorus Binding Sites List in 1aff
Phosphorus binding site 3 out of 12 in the Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 3 of Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P4

b:0.7
occ:1.00
P A:DG4 0.0 0.7 1.0
OP2 A:DG4 1.5 0.8 1.0
OP1 A:DG4 1.5 0.8 1.0
O3' A:DG3 1.6 0.7 1.0
O5' A:DG4 1.6 1.1 1.0
C5' A:DG4 2.6 0.7 1.0
C3' A:DG3 2.7 0.6 1.0
H5'' A:DG4 2.9 0.8 1.0
H5' A:DG4 2.9 1.1 1.0
H3' A:DG3 3.0 0.8 1.0
H2'' A:DG3 3.2 0.6 1.0
C2' A:DG3 3.4 0.5 1.0
H1' A:DG3 3.5 0.6 1.0
C1' A:DG3 3.9 0.5 1.0
C4' A:DG3 4.0 0.6 1.0
C4' A:DG4 4.0 0.7 1.0
H4' A:DG3 4.1 0.7 1.0
H4' A:DG4 4.1 0.8 1.0
H2' A:DG3 4.3 0.5 1.0
O4' A:DG3 4.4 0.6 1.0
O4' A:DG4 4.5 0.6 1.0
H8 A:DG4 4.9 0.6 1.0

Phosphorus binding site 4 out of 12 in 1aff

Go back to Phosphorus Binding Sites List in 1aff
Phosphorus binding site 4 out of 12 in the Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 4 of Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P2

b:0.6
occ:1.00
P B:DA2 0.0 0.6 1.0
OP1 B:DA2 1.5 0.9 1.0
OP2 B:DA2 1.5 0.8 1.0
O5' B:DA2 1.6 0.5 1.0
O3' B:DT1 1.6 0.6 1.0
C5' B:DA2 2.6 0.5 1.0
H5' B:DA2 2.7 0.5 1.0
C3' B:DT1 2.7 0.5 1.0
H3' B:DT1 2.8 0.5 1.0
H5'' B:DA2 2.9 0.6 1.0
H2'' B:DT1 3.0 0.5 1.0
C2' B:DT1 3.2 0.6 1.0
H2' B:DT1 3.7 0.7 1.0
C4' B:DA2 4.0 0.4 1.0
C4' B:DT1 4.1 0.4 1.0
H4' B:DT1 4.1 0.5 1.0
O4' B:DA2 4.3 0.4 1.0
H2' B:DA2 4.5 0.4 1.0
C1' B:DT1 4.5 0.4 1.0
H4' B:DA2 4.7 0.4 1.0
H1' B:DT1 4.8 0.4 1.0
H3' B:DA2 4.8 0.6 1.0
O4' B:DT1 4.9 0.4 1.0
C3' B:DA2 5.0 0.5 1.0

Phosphorus binding site 5 out of 12 in 1aff

Go back to Phosphorus Binding Sites List in 1aff
Phosphorus binding site 5 out of 12 in the Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P3

b:0.8
occ:1.00
P B:DG3 0.0 0.8 1.0
OP1 B:DG3 1.5 1.2 1.0
OP2 B:DG3 1.5 1.2 1.0
O3' B:DA2 1.6 0.6 1.0
O5' B:DG3 1.6 0.6 1.0
C5' B:DG3 2.7 0.5 1.0
H5'' B:DG3 2.8 0.6 1.0
C3' B:DA2 2.8 0.5 1.0
H3' B:DA2 3.0 0.6 1.0
H5' B:DG3 3.1 0.5 1.0
H22 B:DG3 3.4 0.4 1.0
H1' B:DA2 3.8 0.6 1.0
C2' B:DA2 3.9 0.5 1.0
H4' B:DA2 3.9 0.4 1.0
H2'' B:DA2 3.9 0.6 1.0
C4' B:DA2 3.9 0.4 1.0
C4' B:DG3 4.1 0.6 1.0
N2 B:DG3 4.1 0.3 1.0
H4' B:DG3 4.3 0.6 1.0
C1' B:DA2 4.4 0.4 1.0
H3' B:DG3 4.5 0.7 1.0
N3 B:DG3 4.5 0.3 1.0
H21 B:DG3 4.7 0.3 1.0
C2 B:DG3 4.7 0.2 1.0
O4' B:DA2 4.8 0.4 1.0
H2' B:DA2 4.9 0.4 1.0
H5'' B:DA2 4.9 0.6 1.0
C3' B:DG3 4.9 0.6 1.0

Phosphorus binding site 6 out of 12 in 1aff

Go back to Phosphorus Binding Sites List in 1aff
Phosphorus binding site 6 out of 12 in the Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 6 of Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P4

b:0.8
occ:1.00
P B:DG4 0.0 0.8 1.0
OP1 B:DG4 1.5 0.9 1.0
OP2 B:DG4 1.5 1.1 1.0
O5' B:DG4 1.6 0.7 1.0
O3' B:DG3 1.6 0.8 1.0
C5' B:DG4 2.6 0.6 1.0
H5' B:DG4 2.7 0.6 1.0
C3' B:DG3 2.8 0.6 1.0
H5'' B:DG4 3.0 0.6 1.0
H2'' B:DG3 3.1 0.5 1.0
H4' B:DG3 3.3 0.6 1.0
C2' B:DG3 3.3 0.5 1.0
H1' B:DG3 3.4 0.5 1.0
C4' B:DG3 3.5 0.6 1.0
H3' B:DG3 3.6 0.7 1.0
O4' B:DG3 3.6 0.5 1.0
C1' B:DG3 3.6 0.4 1.0
C4' B:DG4 4.0 0.5 1.0
O4' B:DG4 4.2 0.5 1.0
H2' B:DG4 4.3 0.5 1.0
H2' B:DG3 4.4 0.5 1.0
H3' B:DG4 4.5 0.6 1.0
H4' B:DG4 4.7 0.5 1.0
C3' B:DG4 4.8 0.5 1.0
C5' B:DG3 5.0 0.5 1.0

Phosphorus binding site 7 out of 12 in 1aff

Go back to Phosphorus Binding Sites List in 1aff
Phosphorus binding site 7 out of 12 in the Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 7 of Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P2

b:0.8
occ:1.00
P C:DA2 0.0 0.8 1.0
OP2 C:DA2 1.5 0.9 1.0
OP1 C:DA2 1.5 1.0 1.0
O3' C:DT1 1.6 0.6 1.0
O5' C:DA2 1.6 0.8 1.0
C3' C:DT1 2.6 0.7 1.0
C5' C:DA2 2.8 0.8 1.0
H4' C:DT1 2.8 0.8 1.0
H3' C:DT1 2.8 0.7 1.0
H5' C:DA2 2.9 0.8 1.0
HO5' C:DT1 3.2 1.1 1.0
C4' C:DT1 3.2 0.8 1.0
H5'' C:DA2 3.4 0.9 1.0
H8 C:DA2 3.5 0.5 1.0
O4' C:DA2 3.8 0.4 1.0
C4' C:DA2 3.8 0.6 1.0
H2' C:DA2 3.9 0.6 1.0
H2'' C:DT1 3.9 0.6 1.0
C2' C:DT1 3.9 0.6 1.0
O5' C:DT1 4.0 1.0 1.0
C8 C:DA2 4.1 0.4 1.0
O4' C:DT1 4.1 0.8 1.0
C5' C:DT1 4.3 0.9 1.0
C2' C:DA2 4.5 0.5 1.0
C1' C:DA2 4.5 0.3 1.0
H3' C:DA2 4.5 0.7 1.0
N9 C:DA2 4.6 0.3 1.0
H2' C:DT1 4.6 0.6 1.0
C3' C:DA2 4.6 0.5 1.0
H4' C:DA2 4.7 0.6 1.0
C1' C:DT1 4.7 0.7 1.0
H5'' C:DT1 4.9 1.1 1.0
H5' C:DT1 5.0 0.9 1.0

Phosphorus binding site 8 out of 12 in 1aff

Go back to Phosphorus Binding Sites List in 1aff
Phosphorus binding site 8 out of 12 in the Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 8 of Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P3

b:0.5
occ:1.00
P C:DG3 0.0 0.5 1.0
OP2 C:DG3 1.5 0.7 1.0
OP1 C:DG3 1.5 1.1 1.0
O5' C:DG3 1.6 0.8 1.0
O3' C:DA2 1.6 0.5 1.0
H22 C:DG3 2.2 0.5 1.0
C5' C:DG3 2.6 0.8 1.0
H1' C:DA2 2.6 0.4 1.0
H5' C:DG3 2.7 0.8 1.0
C3' C:DA2 2.8 0.5 1.0
N2 C:DG3 3.1 0.4 1.0
H2'' C:DA2 3.1 0.6 1.0
N3 C:DG3 3.2 0.3 1.0
H5'' C:DG3 3.2 1.2 1.0
C2' C:DA2 3.2 0.5 1.0
C1' C:DA2 3.3 0.3 1.0
H4' C:DA2 3.4 0.6 1.0
H2' C:DG3 3.5 0.6 1.0
C4' C:DA2 3.5 0.6 1.0
C2 C:DG3 3.6 0.3 1.0
H3' C:DA2 3.6 0.7 1.0
C4' C:DG3 3.8 0.6 1.0
O4' C:DA2 3.9 0.4 1.0
H21 C:DG3 3.9 0.4 1.0
H3' C:DG3 4.1 0.7 1.0
OP1 A:DG3 4.2 1.2 1.0
H2' C:DA2 4.3 0.6 1.0
C2' C:DG3 4.3 0.5 1.0
O4' C:DG3 4.3 0.5 1.0
C3' C:DG3 4.4 0.6 1.0
C4 C:DG3 4.4 0.3 1.0
H4' C:DG3 4.6 0.6 1.0
N9 C:DA2 4.6 0.3 1.0
H61 D:DA2 4.7 0.9 1.0
C1' C:DG3 4.8 0.4 1.0
N1 C:DG3 4.9 0.3 1.0
N3 C:DA2 4.9 0.3 1.0
N6 D:DA2 5.0 0.8 1.0

Phosphorus binding site 9 out of 12 in 1aff

Go back to Phosphorus Binding Sites List in 1aff
Phosphorus binding site 9 out of 12 in the Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 9 of Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P4

b:0.6
occ:1.00
P C:DG4 0.0 0.6 1.0
OP2 C:DG4 1.5 0.7 1.0
OP1 C:DG4 1.5 0.7 1.0
O3' C:DG3 1.6 0.6 1.0
O5' C:DG4 1.6 0.9 1.0
C5' C:DG4 2.6 0.6 1.0
C3' C:DG3 2.7 0.6 1.0
H5'' C:DG4 2.9 0.7 1.0
H2'' C:DG3 2.9 0.5 1.0
H5' C:DG4 2.9 1.0 1.0
H3' C:DG3 3.0 0.7 1.0
C2' C:DG3 3.3 0.5 1.0
H1' C:DG3 3.6 0.4 1.0
C1' C:DG3 3.9 0.4 1.0
C4' C:DG3 4.0 0.6 1.0
C4' C:DG4 4.0 0.6 1.0
H4' C:DG3 4.1 0.6 1.0
H4' C:DG4 4.1 0.7 1.0
H2' C:DG3 4.2 0.6 1.0
O4' C:DG3 4.4 0.5 1.0
O4' C:DG4 4.5 0.6 1.0
H8 C:DG4 4.9 0.5 1.0
H2' C:DG4 4.9 0.6 1.0

Phosphorus binding site 10 out of 12 in 1aff

Go back to Phosphorus Binding Sites List in 1aff
Phosphorus binding site 10 out of 12 in the Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 10 of Dna Quadruplex Containing Gggg Tetrads and (T.A).A Triads, uc(Nmr), 8 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
D:P2

b:0.6
occ:1.00
P D:DA2 0.0 0.6 1.0
OP1 D:DA2 1.5 0.9 1.0
OP2 D:DA2 1.5 0.8 1.0
O5' D:DA2 1.6 0.5 1.0
O3' D:DT1 1.6 0.6 1.0
C5' D:DA2 2.6 0.5 1.0
H5' D:DA2 2.6 0.5 1.0
C3' D:DT1 2.7 0.4 1.0
H2'' D:DT1 2.8 0.5 1.0
H3' D:DT1 2.9 0.5 1.0
H5'' D:DA2 2.9 0.5 1.0
C2' D:DT1 3.2 0.5 1.0
H2' D:DT1 3.7 0.6 1.0
C4' D:DA2 4.0 0.5 1.0
C4' D:DT1 4.1 0.4 1.0
O4' D:DA2 4.1 0.4 1.0
H4' D:DT1 4.3 0.4 1.0
C1' D:DT1 4.5 0.4 1.0
H1' D:DT1 4.7 0.4 1.0
H4' D:DA2 4.7 0.5 1.0
H2' D:DA2 4.8 0.5 1.0
O4' D:DT1 4.9 0.4 1.0
H3' D:DA2 4.9 0.6 1.0
C3' D:DA2 5.0 0.5 1.0

Reference:

A.Kettani, S.Bouaziz, W.Wang, R.A.Jones, D.J.Patel. Bombyx Mori Single Repeat Telomeric Dna Sequence Forms A G-Quadruplex Capped By Base Triads. Nat.Struct.Biol. V. 4 382 1997.
ISSN: ISSN 1072-8368
PubMed: 9145109
DOI: 10.1038/NSB0597-382
Page generated: Fri Sep 25 12:47:06 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy