Phosphorus in PDB 177d: Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple

Phosphorus Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 18;

Binding sites:

The binding sites of Phosphorus atom in the Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple (pdb code 177d). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 18 binding sites of Phosphorus where determined in the Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple, PDB code: 177d:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 18 in 177d

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Phosphorus binding site 1 out of 18 in the Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P9

b:0.0
occ:1.00
P A:DA9 0.0 0.0 1.0
OP2 A:DA9 1.5 0.0 1.0
OP1 A:DA9 1.5 0.0 1.0
O3' A:DG8 1.6 0.0 1.0
O5' A:DA9 1.6 0.0 1.0
C3' A:DG8 2.6 0.0 1.0
C5' A:DA9 2.6 0.0 1.0
H5' A:DA9 2.7 0.0 1.0
H3' A:DG8 2.7 0.0 1.0
H2'' A:DG8 2.9 0.0 1.0
H5'' A:DA9 2.9 0.0 1.0
C2' A:DG8 3.2 0.0 1.0
C4' A:DG8 4.0 0.0 1.0
C4' A:DA9 4.0 0.0 1.0
H2' A:DG8 4.0 0.0 1.0
H4' A:DG8 4.0 0.0 1.0
O4' A:DA9 4.3 0.0 1.0
C1' A:DG8 4.3 0.0 1.0
H1' A:DG8 4.4 0.0 1.0
H3' A:DA9 4.4 0.0 1.0
O4' A:DG8 4.7 0.0 1.0
H4' A:DA9 4.7 0.0 1.0
C3' A:DA9 4.8 0.0 1.0
H5'' A:DG8 5.0 0.0 1.0

Phosphorus binding site 2 out of 18 in 177d

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Phosphorus binding site 2 out of 18 in the Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P10

b:0.0
occ:1.00
P A:DA10 0.0 0.0 1.0
OP2 A:DA10 1.5 0.0 1.0
OP1 A:DA10 1.5 0.0 1.0
O3' A:DA9 1.6 0.0 1.0
O5' A:DA10 1.6 0.0 1.0
C3' A:DA9 2.6 0.0 1.0
C5' A:DA10 2.6 0.0 1.0
H2'' A:DA9 2.7 0.0 1.0
H3' A:DA9 2.8 0.0 1.0
H5'' A:DA10 2.8 0.0 1.0
H5' A:DA10 2.8 0.0 1.0
C2' A:DA9 3.1 0.0 1.0
H2' A:DA9 3.7 0.0 1.0
H4' A:DA9 3.9 0.0 1.0
C4' A:DA9 3.9 0.0 1.0
C4' A:DA10 4.0 0.0 1.0
H3' A:DA10 4.0 0.0 1.0
H1' A:DA9 4.2 0.0 1.0
C1' A:DA9 4.3 0.0 1.0
O4' A:DA10 4.5 0.0 1.0
C3' A:DA10 4.5 0.0 1.0
H2' A:DA10 4.6 0.0 1.0
H8 A:DA10 4.7 0.0 1.0
O4' A:DA9 4.8 0.0 1.0
H5'' A:DA9 4.8 0.0 1.0
H4' A:DA10 4.8 0.0 1.0
C5' A:DA9 5.0 0.0 1.0

Phosphorus binding site 3 out of 18 in 177d

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Phosphorus binding site 3 out of 18 in the Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 3 of Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P11

b:0.0
occ:1.00
P A:DC11 0.0 0.0 1.0
OP2 A:DC11 1.5 0.0 1.0
OP1 A:DC11 1.5 0.0 1.0
O5' A:DC11 1.6 0.0 1.0
O3' A:DA10 1.6 0.0 1.0
C5' A:DC11 2.6 0.0 1.0
C3' A:DA10 2.6 0.0 1.0
H2'' A:DA10 2.8 0.0 1.0
H3' A:DA10 2.8 0.0 1.0
H5' A:DC11 2.9 0.0 1.0
H4' A:DC11 2.9 0.0 1.0
C4' A:DC11 3.2 0.0 1.0
C2' A:DA10 3.3 0.0 1.0
H5'' A:DC11 3.5 0.0 1.0
O4' A:DC11 3.5 0.0 1.0
H4' A:DT19 3.7 0.0 1.0
H4' A:DA10 3.9 0.0 1.0
C4' A:DA10 3.9 0.0 1.0
H1' A:DA10 3.9 0.0 1.0
H2' A:DA10 4.0 0.0 1.0
C1' A:DA10 4.2 0.0 1.0
O4' A:DA10 4.7 0.0 1.0
C3' A:DC11 4.7 0.0 1.0
H6 A:DC11 4.7 0.0 1.0
C4' A:DT19 4.8 0.0 1.0
C1' A:DC11 4.9 0.0 1.0

Phosphorus binding site 4 out of 18 in 177d

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Phosphorus binding site 4 out of 18 in the Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 4 of Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P12

b:0.0
occ:1.00
P A:DA12 0.0 0.0 1.0
OP2 A:DA12 1.5 0.0 1.0
OP1 A:DA12 1.5 0.0 1.0
O3' A:DC11 1.6 0.0 1.0
O5' A:DA12 1.6 0.0 1.0
C3' A:DC11 2.6 0.0 1.0
H3' A:DC11 2.6 0.0 1.0
C5' A:DA12 2.6 0.0 1.0
H2'' A:DC11 2.8 0.0 1.0
H5'' A:DA12 2.8 0.0 1.0
H5' A:DA12 2.8 0.0 1.0
C2' A:DC11 3.2 0.0 1.0
H1' A:DC11 3.8 0.0 1.0
C4' A:DC11 4.0 0.0 1.0
C4' A:DA12 4.0 0.0 1.0
C1' A:DC11 4.0 0.0 1.0
H2' A:DC11 4.0 0.0 1.0
H4' A:DC11 4.1 0.0 1.0
H4' A:DC20 4.2 0.0 1.0
H3' A:DA12 4.2 0.0 1.0
O4' A:DA12 4.3 0.0 1.0
O4' A:DC11 4.6 0.0 1.0
C3' A:DA12 4.7 0.0 1.0
H4' A:DA12 4.7 0.0 1.0
H8 A:DA12 4.8 0.0 1.0

Phosphorus binding site 5 out of 18 in 177d

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Phosphorus binding site 5 out of 18 in the Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P13

b:0.0
occ:1.00
P A:DG13 0.0 0.0 1.0
OP1 A:DG13 1.5 0.0 1.0
OP2 A:DG13 1.5 0.0 1.0
O5' A:DG13 1.6 0.0 1.0
O3' A:DA12 1.6 0.0 1.0
C5' A:DG13 2.6 0.0 1.0
C3' A:DA12 2.6 0.0 1.0
H5' A:DG13 2.8 0.0 1.0
H3' A:DA12 2.8 0.0 1.0
H2'' A:DA12 2.8 0.0 1.0
H5'' A:DG13 2.9 0.0 1.0
C2' A:DA12 3.2 0.0 1.0
H3' A:DG13 3.9 0.0 1.0
H4' A:DA12 3.9 0.0 1.0
C4' A:DA12 3.9 0.0 1.0
C4' A:DG13 3.9 0.0 1.0
H2' A:DA12 4.0 0.0 1.0
H1' A:DA12 4.3 0.0 1.0
C1' A:DA12 4.3 0.0 1.0
O4' A:DG13 4.4 0.0 1.0
C3' A:DG13 4.5 0.0 1.0
H5'' A:DA12 4.7 0.0 1.0
H4' A:DG13 4.7 0.0 1.0
O4' A:DA12 4.8 0.0 1.0
C5' A:DA12 4.9 0.0 1.0

Phosphorus binding site 6 out of 18 in 177d

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Phosphorus binding site 6 out of 18 in the Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 6 of Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P14

b:0.0
occ:1.00
P A:DG14 0.0 0.0 1.0
OP1 A:DG14 1.5 0.0 1.0
OP2 A:DG14 1.5 0.0 1.0
O5' A:DG14 1.6 0.0 1.0
O3' A:DG13 1.6 0.0 1.0
C5' A:DG14 2.6 0.0 1.0
C3' A:DG13 2.6 0.0 1.0
H5' A:DG14 2.7 0.0 1.0
H2'' A:DG13 2.8 0.0 1.0
H5'' A:DG14 2.9 0.0 1.0
H3' A:DG13 2.9 0.0 1.0
C2' A:DG13 3.1 0.0 1.0
H2' A:DG13 3.5 0.0 1.0
C4' A:DG13 3.9 0.0 1.0
C4' A:DG14 3.9 0.0 1.0
H4' A:DG13 3.9 0.0 1.0
H3' A:DG14 4.1 0.0 1.0
H8 A:DG14 4.2 0.0 1.0
O4' A:DG14 4.3 0.0 1.0
C1' A:DG13 4.5 0.0 1.0
C3' A:DG14 4.6 0.0 1.0
O2 A:DC21 4.6 0.0 1.0
H5'' A:DG13 4.7 0.0 1.0
H4' A:DG14 4.7 0.0 1.0
H1' A:DG13 4.8 0.0 1.0
O4' A:DG13 4.8 0.0 1.0
C5' A:DG13 4.8 0.0 1.0

Phosphorus binding site 7 out of 18 in 177d

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Phosphorus binding site 7 out of 18 in the Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 7 of Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple 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
O5' A:DC2 1.5 0.0 1.0
O3' A:DC1 1.6 0.0 1.0
C3' A:DC1 2.6 0.0 1.0
C5' A:DC2 2.6 0.0 1.0
H5' A:DC2 2.6 0.0 1.0
H3' A:DC1 2.6 0.0 1.0
H2'' A:DC1 3.1 0.0 1.0
H5'' A:DC2 3.3 0.0 1.0
C2' A:DC1 3.3 0.0 1.0
O4' A:DC2 3.6 0.0 1.0
C4' A:DC2 3.7 0.0 1.0
H6 A:DC2 3.8 0.0 1.0
H1' A:DC1 3.9 0.0 1.0
C4' A:DC1 3.9 0.0 1.0
H4' A:DC1 4.0 0.0 1.0
H3' A:DC2 4.0 0.0 1.0
H2' A:DC1 4.2 0.0 1.0
C1' A:DC1 4.2 0.0 1.0
C3' A:DC2 4.5 0.0 1.0
H4' A:DC2 4.5 0.0 1.0
O4' A:DC1 4.6 0.0 1.0
C6 A:DC2 4.7 0.0 1.0
C1' A:DC2 4.9 0.0 1.0

Phosphorus binding site 8 out of 18 in 177d

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Phosphorus binding site 8 out of 18 in the Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 8 of Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P3

b:0.0
occ:1.00
P A:DT3 0.0 0.0 1.0
OP1 A:DT3 1.5 0.0 1.0
OP2 A:DT3 1.5 0.0 1.0
O3' A:DC2 1.6 0.0 1.0
O5' A:DT3 1.6 0.0 1.0
C3' A:DC2 2.6 0.0 1.0
C5' A:DT3 2.6 0.0 1.0
H5' A:DT3 2.7 0.0 1.0
H3' A:DC2 2.8 0.0 1.0
H2'' A:DC2 2.9 0.0 1.0
H5'' A:DT3 3.0 0.0 1.0
C2' A:DC2 3.2 0.0 1.0
H2' A:DC2 3.6 0.0 1.0
C4' A:DC2 3.9 0.0 1.0
C4' A:DT3 3.9 0.0 1.0
H4' A:DC2 4.0 0.0 1.0
O4' A:DT3 4.1 0.0 1.0
H6 A:DT3 4.2 0.0 1.0
H3' A:DT3 4.3 0.0 1.0
C1' A:DC2 4.5 0.0 1.0
H5'' A:DC2 4.5 0.0 1.0
C3' A:DT3 4.7 0.0 1.0
H1' A:DC2 4.8 0.0 1.0
H4' A:DT3 4.8 0.0 1.0
C5' A:DC2 4.8 0.0 1.0
O4' A:DC2 4.8 0.0 1.0

Phosphorus binding site 9 out of 18 in 177d

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Phosphorus binding site 9 out of 18 in the Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 9 of Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P4

b:0.0
occ:1.00
P A:DG4 0.0 0.0 1.0
OP1 A:DG4 1.5 0.0 1.0
OP2 A:DG4 1.5 0.0 1.0
O5' A:DG4 1.6 0.0 1.0
O3' A:DT3 1.6 0.0 1.0
C3' A:DT3 2.6 0.0 1.0
C5' A:DG4 2.6 0.0 1.0
H2'' A:DT3 2.8 0.0 1.0
H5' A:DG4 2.8 0.0 1.0
H3' A:DT3 2.8 0.0 1.0
H5'' A:DG4 2.9 0.0 1.0
C2' A:DT3 3.1 0.0 1.0
H2' A:DT3 3.3 0.0 1.0
C4' A:DT3 4.0 0.0 1.0
C4' A:DG4 4.0 0.0 1.0
H4' A:DT3 4.1 0.0 1.0
H3' A:DG4 4.1 0.0 1.0
O4' A:DG4 4.4 0.0 1.0
C1' A:DT3 4.5 0.0 1.0
H5'' A:DT3 4.6 0.0 1.0
C3' A:DG4 4.6 0.0 1.0
H4' A:DG4 4.7 0.0 1.0
H8 A:DG4 4.8 0.0 1.0
O4' A:DT3 4.8 0.0 1.0
H1' A:DT3 4.8 0.0 1.0
C5' A:DT3 4.9 0.0 1.0

Phosphorus binding site 10 out of 18 in 177d

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Phosphorus binding site 10 out of 18 in the Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 10 of Solution Structure and Hydration Patterns of A Pyrimidine(Dot)Purine(Dot)Pyrimidine Dna Triplex Containing A Novel T(Dot)Cg Triple within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P5

b:0.0
occ:1.00
P A:DT5 0.0 0.0 1.0
OP2 A:DT5 1.5 0.0 1.0
OP1 A:DT5 1.5 0.0 1.0
O5' A:DT5 1.6 0.0 1.0
O3' A:DG4 1.6 0.0 1.0
C5' A:DT5 2.6 0.0 1.0
C3' A:DG4 2.6 0.0 1.0
H5' A:DT5 2.7 0.0 1.0
H3' A:DG4 2.8 0.0 1.0
H5'' A:DT5 2.8 0.0 1.0
H2'' A:DG4 2.9 0.0 1.0
C2' A:DG4 3.1 0.0 1.0
H6 A:DT5 3.3 0.0 1.0
H2' A:DG4 3.4 0.0 1.0
H73 A:DT5 3.7 0.0 1.0
C4' A:DG4 3.9 0.0 1.0
C4' A:DT5 3.9 0.0 1.0
H4' A:DG4 4.0 0.0 1.0
H3' A:DT5 4.2 0.0 1.0
O4' A:DT5 4.2 0.0 1.0
C6 A:DT5 4.3 0.0 1.0
C1' A:DG4 4.6 0.0 1.0
C3' A:DT5 4.6 0.0 1.0
H5'' A:DG4 4.6 0.0 1.0
H4' A:DT5 4.7 0.0 1.0
C7 A:DT5 4.7 0.0 1.0
H2' A:DT5 4.7 0.0 1.0
C5' A:DG4 4.8 0.0 1.0
O4' A:DG4 4.8 0.0 1.0

Reference:

I.Radhakrishnan, D.J.Patel. Solution Structure and Hydration Patterns of A Pyrimidine.Purine.Pyrimidine Dna Triplex Containing A Novel T.Cg Base-Triple. J.Mol.Biol. V. 241 600 1994.
ISSN: ISSN 0022-2836
PubMed: 8057381
DOI: 10.1006/JMBI.1994.1534
Page generated: Fri Sep 25 11:43:41 2020

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