Phosphorus in PDB 136d: Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples

Phosphorus Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 22;

Binding sites:

The binding sites of Phosphorus atom in the Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples (pdb code 136d). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 22 binding sites of Phosphorus where determined in the Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples, PDB code: 136d:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 22 in 136d

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Phosphorus binding site 1 out of 22 in the Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P2

b:0.0
occ:1.00
P A:DC2 0.0 0.0 1.0
OP2 A:DC2 1.5 0.0 1.0
OP1 A:DC2 1.5 0.0 1.0
O3' A:DT1 1.6 0.0 1.0
O5' A:DC2 1.6 0.0 1.0
C3' A:DT1 2.6 0.0 1.0
C5' A:DC2 2.6 0.0 1.0
H2'' A:DT1 2.7 0.0 1.0
H5'' A:DC2 2.7 0.0 1.0
H3' A:DT1 3.0 0.0 1.0
H5' A:DC2 3.1 0.0 1.0
C2' A:DT1 3.1 0.0 1.0
H6 A:DC2 3.7 0.0 1.0
H2' A:DC2 3.7 0.0 1.0
H2' A:DT1 3.8 0.0 1.0
H4' A:DT1 3.8 0.0 1.0
C4' A:DT1 3.9 0.0 1.0
C4' A:DC2 3.9 0.0 1.0
O4' A:DC2 4.3 0.0 1.0
C1' A:DT1 4.3 0.0 1.0
H3' A:DC2 4.5 0.0 1.0
H5'' A:DT1 4.5 0.0 1.0
C2' A:DC2 4.5 0.0 1.0
C3' A:DC2 4.6 0.0 1.0
H1' A:DT1 4.6 0.0 1.0
C6 A:DC2 4.6 0.0 1.0
O4' A:DT1 4.7 0.0 1.0
H4' A:DC2 4.7 0.0 1.0
C5' A:DT1 4.8 0.0 1.0
HO5' A:DT1 4.8 0.0 1.0

Phosphorus binding site 2 out of 22 in 136d

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Phosphorus binding site 2 out of 22 in the Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P3

b:0.0
occ:1.00
P A:DC3 0.0 0.0 1.0
OP2 A:DC3 1.5 0.0 1.0
OP1 A:DC3 1.5 0.0 1.0
O5' A:DC3 1.6 0.0 1.0
O3' A:DC2 1.7 0.0 1.0
C5' A:DC3 2.6 0.0 1.0
H2'' A:DC2 2.7 0.0 1.0
H5'' A:DC3 2.8 0.0 1.0
C3' A:DC2 2.9 0.0 1.0
H5' A:DC3 3.0 0.0 1.0
H3' A:DC2 3.1 0.0 1.0
C2' A:DC2 3.3 0.0 1.0
H6 A:DC3 3.4 0.0 1.0
H1' A:DC2 3.6 0.0 1.0
H2' A:DC3 3.7 0.0 1.0
C1' A:DC2 3.9 0.0 1.0
H3' A:DC3 3.9 0.0 1.0
C4' A:DC3 3.9 0.0 1.0
C4' A:DC2 4.2 0.0 1.0
H2' A:DC2 4.2 0.0 1.0
H4' A:DC2 4.3 0.0 1.0
C3' A:DC3 4.3 0.0 1.0
C6 A:DC3 4.4 0.0 1.0
O4' A:DC3 4.5 0.0 1.0
C2' A:DC3 4.6 0.0 1.0
O4' A:DC2 4.6 0.0 1.0
H4' A:DC3 4.6 0.0 1.0

Phosphorus binding site 3 out of 22 in 136d

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Phosphorus binding site 3 out of 22 in the Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 3 of Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P4

b:0.0
occ:1.00
P A:DT4 0.0 0.0 1.0
OP2 A:DT4 1.5 0.0 1.0
OP1 A:DT4 1.5 0.0 1.0
O3' A:DC3 1.6 0.0 1.0
O5' A:DT4 1.6 0.0 1.0
C3' A:DC3 2.6 0.0 1.0
H3' A:DC3 2.7 0.0 1.0
C5' A:DT4 2.8 0.0 1.0
H5' A:DT4 3.0 0.0 1.0
H2'' A:DC3 3.0 0.0 1.0
C2' A:DC3 3.3 0.0 1.0
H5'' A:DT4 3.3 0.0 1.0
C4' A:DC3 3.9 0.0 1.0
H2' A:DC3 3.9 0.0 1.0
H3' A:DT4 4.0 0.0 1.0
C4' A:DT4 4.0 0.0 1.0
H4' A:DC3 4.1 0.0 1.0
H1' A:DC3 4.3 0.0 1.0
O4' A:DT4 4.3 0.0 1.0
C1' A:DC3 4.4 0.0 1.0
C3' A:DT4 4.6 0.0 1.0
O4' A:DC3 4.7 0.0 1.0
H5'' A:DC3 4.7 0.0 1.0
H4' A:DT4 4.8 0.0 1.0
C5' A:DC3 4.9 0.0 1.0
H2' A:DT4 5.0 0.0 1.0

Phosphorus binding site 4 out of 22 in 136d

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Phosphorus binding site 4 out of 22 in the Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 4 of Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P5

b:0.0
occ:1.00
P A:DC5 0.0 0.0 1.0
OP2 A:DC5 1.4 0.0 1.0
OP1 A:DC5 1.5 0.0 1.0
O3' A:DT4 1.6 0.0 1.0
O5' A:DC5 1.6 0.0 1.0
C3' A:DT4 2.7 0.0 1.0
C5' A:DC5 2.8 0.0 1.0
H3' A:DT4 2.8 0.0 1.0
O4' A:DC5 3.1 0.0 1.0
H5' A:DC5 3.2 0.0 1.0
H2'' A:DT4 3.3 0.0 1.0
H6 A:DC5 3.4 0.0 1.0
C4' A:DC5 3.4 0.0 1.0
C2' A:DT4 3.5 0.0 1.0
H3' A:DC5 3.5 0.0 1.0
H5'' A:DC5 3.5 0.0 1.0
C3' A:DC5 3.9 0.0 1.0
H4' A:DT4 3.9 0.0 1.0
C4' A:DT4 3.9 0.0 1.0
H2' A:DT4 4.1 0.0 1.0
C6 A:DC5 4.2 0.0 1.0
H2' A:DC5 4.2 0.0 1.0
C1' A:DC5 4.3 0.0 1.0
C2' A:DC5 4.4 0.0 1.0
H5'' A:DT4 4.4 0.0 1.0
H4' A:DC5 4.5 0.0 1.0
H1' A:DT4 4.5 0.0 1.0
N1 A:DC5 4.6 0.0 1.0
C1' A:DT4 4.6 0.0 1.0
C5' A:DT4 4.8 0.0 1.0
O4' A:DT4 4.9 0.0 1.0

Phosphorus binding site 5 out of 22 in 136d

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Phosphorus binding site 5 out of 22 in the Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P6

b:0.0
occ:1.00
P A:DC6 0.0 0.0 1.0
OP2 A:DC6 1.4 0.0 1.0
OP1 A:DC6 1.5 0.0 1.0
O5' A:DC6 1.6 0.0 1.0
O3' A:DC5 1.6 0.0 1.0
C5' A:DC6 2.7 0.0 1.0
C3' A:DC5 2.7 0.0 1.0
H2'' A:DC5 2.9 0.0 1.0
H3' A:DC5 3.0 0.0 1.0
H3' A:DC6 3.0 0.0 1.0
H5' A:DC6 3.1 0.0 1.0
O4' A:DC6 3.2 0.0 1.0
C2' A:DC5 3.2 0.0 1.0
H6 A:DC6 3.3 0.0 1.0
C4' A:DC6 3.3 0.0 1.0
H5'' A:DC6 3.5 0.0 1.0
H2' A:DC5 3.6 0.0 1.0
C3' A:DC6 3.7 0.0 1.0
H4' A:DC5 4.0 0.0 1.0
C4' A:DC5 4.0 0.0 1.0
C6 A:DC6 4.2 0.0 1.0
H2' A:DC6 4.3 0.0 1.0
C1' A:DC6 4.3 0.0 1.0
H4' A:DC6 4.4 0.0 1.0
C2' A:DC6 4.4 0.0 1.0
C1' A:DC5 4.5 0.0 1.0
H1' A:DC5 4.5 0.0 1.0
N1 A:DC6 4.7 0.0 1.0
H5'' A:DC5 4.8 0.0 1.0
O4' A:DC5 4.9 0.0 1.0
O3' A:DC6 5.0 0.0 1.0

Phosphorus binding site 6 out of 22 in 136d

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Phosphorus binding site 6 out of 22 in the Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 6 of Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P7

b:0.0
occ:1.00
P A:DT7 0.0 0.0 1.0
OP2 A:DT7 1.5 0.0 1.0
OP1 A:DT7 1.5 0.0 1.0
O3' A:DC6 1.6 0.0 1.0
O5' A:DT7 1.7 0.0 1.0
C5' A:DT7 2.7 0.0 1.0
C3' A:DC6 2.7 0.0 1.0
H2'' A:DC6 2.9 0.0 1.0
H5' A:DT7 3.0 0.0 1.0
H5'' A:DT7 3.0 0.0 1.0
C2' A:DC6 3.1 0.0 1.0
H3' A:DC6 3.1 0.0 1.0
H3' A:DT7 3.5 0.0 1.0
H2' A:DC6 3.5 0.0 1.0
C4' A:DT7 4.0 0.0 1.0
H4' A:DC6 4.0 0.0 1.0
C4' A:DC6 4.1 0.0 1.0
C3' A:DT7 4.2 0.0 1.0
O4' A:DT7 4.3 0.0 1.0
H2' A:DT7 4.3 0.0 1.0
H6 A:DT7 4.4 0.0 1.0
C1' A:DC6 4.5 0.0 1.0
H5'' A:DC6 4.6 0.0 1.0
C2' A:DT7 4.7 0.0 1.0
H4' A:DT7 4.8 0.0 1.0
H1' A:DC6 4.9 0.0 1.0
C5' A:DC6 5.0 0.0 1.0
O4' A:DC6 5.0 0.0 1.0

Phosphorus binding site 7 out of 22 in 136d

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Phosphorus binding site 7 out of 22 in the Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 7 of Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P1

b:0.0
occ:1.00
P A:DT1L 0.0 0.0 1.0
OP2 A:DT1L 1.4 0.0 1.0
OP1 A:DT1L 1.5 0.0 1.0
O3' A:DT7 1.6 0.0 1.0
O5' A:DT1L 1.7 0.0 1.0
C3' A:DT7 2.7 0.0 1.0
C5' A:DT1L 2.8 0.0 1.0
H5'' A:DT1L 2.9 0.0 1.0
H2'' A:DT7 3.0 0.0 1.0
H5' A:DT1L 3.0 0.0 1.0
H3' A:DT7 3.1 0.0 1.0
C2' A:DT7 3.4 0.0 1.0
H6 A:DT1L 3.9 0.0 1.0
C4' A:DT7 3.9 0.0 1.0
H4' A:DT7 3.9 0.0 1.0
C4' A:DT1L 4.1 0.0 1.0
H1' A:DT7 4.2 0.0 1.0
H2' A:DT7 4.2 0.0 1.0
H2' A:DT1L 4.2 0.0 1.0
C1' A:DT7 4.3 0.0 1.0
O4' A:DT1L 4.5 0.0 1.0
H5'' A:DT7 4.7 0.0 1.0
H3' A:DT1L 4.7 0.0 1.0
H71 A:DT1L 4.8 0.0 1.0
C6 A:DT1L 4.9 0.0 1.0
C5' A:DT7 4.9 0.0 1.0
O4' A:DT7 4.9 0.0 1.0
C3' A:DT1L 4.9 0.0 1.0
H4' A:DT1L 4.9 0.0 1.0

Phosphorus binding site 8 out of 22 in 136d

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Phosphorus binding site 8 out of 22 in the Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 8 of Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P8

b:0.0
occ:1.00
P A:DA8 0.0 0.0 1.0
OP2 A:DA8 1.5 0.0 1.0
OP1 A:DA8 1.5 0.0 1.0
O3' A:DT5L 1.6 0.0 1.0
O5' A:DA8 1.6 0.0 1.0
C5' A:DA8 2.6 0.0 1.0
H5'' A:DA8 2.7 0.0 1.0
C3' A:DT5L 2.7 0.0 1.0
H2'' A:DT5L 2.8 0.0 1.0
H5' A:DA8 2.9 0.0 1.0
H3' A:DT5L 2.9 0.0 1.0
C2' A:DT5L 3.1 0.0 1.0
H3' A:DA8 3.4 0.0 1.0
H1' A:DT5L 3.9 0.0 1.0
H2' A:DT5L 3.9 0.0 1.0
C4' A:DA8 4.0 0.0 1.0
C4' A:DT5L 4.1 0.0 1.0
C1' A:DT5L 4.2 0.0 1.0
H4' A:DT5L 4.3 0.0 1.0
C3' A:DA8 4.3 0.0 1.0
O4' A:DA8 4.5 0.0 1.0
H4' A:DA8 4.6 0.0 1.0
O4' A:DT5L 4.7 0.0 1.0
H2' A:DA8 4.8 0.0 1.0
H8 A:DA8 4.8 0.0 1.0

Phosphorus binding site 9 out of 22 in 136d

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Phosphorus binding site 9 out of 22 in the Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 9 of Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P9

b:0.0
occ:1.00
P A:DG9 0.0 0.0 1.0
OP1 A:DG9 1.5 0.0 1.0
OP2 A:DG9 1.5 0.0 1.0
O3' A:DA8 1.6 0.0 1.0
O5' A:DG9 1.6 0.0 1.0
C3' A:DA8 2.6 0.0 1.0
C5' A:DG9 2.7 0.0 1.0
H5'' A:DG9 2.8 0.0 1.0
H2'' A:DA8 2.8 0.0 1.0
H5' A:DG9 3.1 0.0 1.0
C2' A:DA8 3.1 0.0 1.0
H3' A:DA8 3.2 0.0 1.0
H3' A:DG9 3.7 0.0 1.0
H2' A:DA8 3.7 0.0 1.0
C4' A:DA8 3.9 0.0 1.0
C4' A:DG9 4.0 0.0 1.0
H1' A:DA8 4.1 0.0 1.0
H4' A:DA8 4.1 0.0 1.0
C1' A:DA8 4.2 0.0 1.0
C3' A:DG9 4.3 0.0 1.0
O4' A:DG9 4.6 0.0 1.0
N7 A:DG19 4.7 0.0 1.0
H4' A:DG9 4.7 0.0 1.0
O4' A:DA8 4.7 0.0 1.0
H8 A:DG9 4.7 0.0 1.0
H5'' A:DA8 4.8 0.0 1.0
H8 A:DG19 4.9 0.0 1.0
C5' A:DA8 5.0 0.0 1.0

Phosphorus binding site 10 out of 22 in 136d

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Phosphorus binding site 10 out of 22 in the Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 10 of Solution Structure of A Purine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing G(Dot)Gc and T(Dot)at Triples within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P10

b:0.0
occ:1.00
P A:DG10 0.0 0.0 1.0
OP1 A:DG10 1.4 0.0 1.0
OP2 A:DG10 1.5 0.0 1.0
O3' A:DG9 1.6 0.0 1.0
O5' A:DG10 1.6 0.0 1.0
C5' A:DG10 2.6 0.0 1.0
C3' A:DG9 2.6 0.0 1.0
H5'' A:DG10 2.7 0.0 1.0
H3' A:DG9 2.8 0.0 1.0
H2'' A:DG9 2.9 0.0 1.0
H5' A:DG10 2.9 0.0 1.0
C2' A:DG9 3.1 0.0 1.0
H2' A:DG9 3.6 0.0 1.0
H3' A:DG10 3.7 0.0 1.0
C4' A:DG10 4.0 0.0 1.0
C4' A:DG9 4.0 0.0 1.0
H71 A:DT18 4.2 0.0 1.0
C3' A:DG10 4.4 0.0 1.0
H4' A:DG9 4.5 0.0 1.0
C1' A:DG9 4.5 0.0 1.0
H5'' A:DG9 4.7 0.0 1.0
H4' A:DG10 4.7 0.0 1.0
O4' A:DG10 4.7 0.0 1.0
H1' A:DG9 4.8 0.0 1.0
O4' A:DG9 4.8 0.0 1.0
C5' A:DG9 4.9 0.0 1.0
H8 A:DG10 4.9 0.0 1.0
H2' A:DG10 4.9 0.0 1.0

Reference:

I.Radhakrishnan, D.J.Patel. Solution Structure of A Purine.Purine.Pyrimidine Dna Triplex Containing G.Gc and T.at Triples. Structure V. 1 135 1993.
ISSN: ISSN 0969-2126
PubMed: 8069626
DOI: 10.1016/0969-2126(93)90028-F
Page generated: Fri Sep 25 11:22:29 2020

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