Phosphorus in PDB 1ac7: Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures

Phosphorus Binding Sites:

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>>> Page 1 <<< Page 2, Binding sites: 11 - 15;

Binding sites:

The binding sites of Phosphorus atom in the Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures (pdb code 1ac7). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 15 binding sites of Phosphorus where determined in the Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures, PDB code: 1ac7:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 15 in 1ac7

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Phosphorus binding site 1 out of 15 in the Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures


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A full contact list of Phosphorus with other atoms in the P binding site number 1 of Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P2

b:0.0
occ:1.00
P A:DT2 0.0 0.0 1.0
OP1 A:DT2 1.5 0.0 1.0
OP2 A:DT2 1.5 0.0 1.0
O5' A:DT2 1.6 0.0 1.0
O3' A:DA1 1.6 0.0 1.0
C5' A:DT2 2.6 0.0 1.0
C3' A:DA1 2.6 0.0 1.0
H2'' A:DA1 2.7 0.0 1.0
H5'' A:DT2 2.8 0.0 1.0
H3' A:DA1 2.9 0.0 1.0
H5' A:DT2 3.0 0.0 1.0
C2' A:DA1 3.2 0.0 1.0
H3' A:DT2 3.6 0.0 1.0
H6 A:DT2 3.8 0.0 1.0
H2' A:DA1 3.9 0.0 1.0
C4' A:DA1 4.0 0.0 1.0
C4' A:DT2 4.0 0.0 1.0
H4' A:DA1 4.0 0.0 1.0
H1' A:DA1 4.2 0.0 1.0
C1' A:DA1 4.3 0.0 1.0
H2' A:DT2 4.3 0.0 1.0
C3' A:DT2 4.3 0.0 1.0
H72 A:DT2 4.5 0.0 1.0
O4' A:DT2 4.7 0.0 1.0
O4' A:DA1 4.7 0.0 1.0
H4' A:DT2 4.7 0.0 1.0
C2' A:DT2 4.8 0.0 1.0
C6 A:DT2 4.9 0.0 1.0

Phosphorus binding site 2 out of 15 in 1ac7

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Phosphorus binding site 2 out of 15 in the Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures


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A full contact list of Phosphorus with other atoms in the P binding site number 2 of Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures 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
O3' A:DT2 1.6 0.0 1.0
O5' A:DC3 1.6 0.0 1.0
H2'' A:DT2 2.6 0.0 1.0
C5' A:DC3 2.6 0.0 1.0
C3' A:DT2 2.6 0.0 1.0
H5'' A:DC3 2.8 0.0 1.0
H3' A:DT2 2.9 0.0 1.0
H5' A:DC3 2.9 0.0 1.0
C2' A:DT2 3.1 0.0 1.0
H6 A:DC3 3.7 0.0 1.0
H3' A:DC3 3.8 0.0 1.0
H2' A:DT2 3.8 0.0 1.0
C4' A:DT2 4.0 0.0 1.0
C4' A:DC3 4.0 0.0 1.0
H4' A:DT2 4.0 0.0 1.0
H1' A:DT2 4.1 0.0 1.0
C1' A:DT2 4.2 0.0 1.0
H2' A:DC3 4.4 0.0 1.0
C3' A:DC3 4.4 0.0 1.0
O4' A:DC3 4.6 0.0 1.0
O4' A:DT2 4.7 0.0 1.0
H4' A:DC3 4.8 0.0 1.0
C6 A:DC3 4.8 0.0 1.0
C2' A:DC3 4.9 0.0 1.0

Phosphorus binding site 3 out of 15 in 1ac7

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Phosphorus binding site 3 out of 15 in the Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures


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Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 3 of Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P4

b:0.0
occ:1.00
P A:DC4 0.0 0.0 1.0
OP2 A:DC4 1.5 0.0 1.0
OP1 A:DC4 1.5 0.0 1.0
O3' A:DC3 1.6 0.0 1.0
O5' A:DC4 1.6 0.0 1.0
H2'' A:DC3 2.6 0.0 1.0
C5' A:DC4 2.6 0.0 1.0
C3' A:DC3 2.6 0.0 1.0
H5'' A:DC4 2.8 0.0 1.0
H3' A:DC3 2.9 0.0 1.0
H5' A:DC4 2.9 0.0 1.0
C2' A:DC3 3.1 0.0 1.0
H3' A:DC4 3.6 0.0 1.0
H2' A:DC3 3.8 0.0 1.0
C4' A:DC3 4.0 0.0 1.0
C4' A:DC4 4.0 0.0 1.0
H6 A:DC4 4.0 0.0 1.0
H4' A:DC3 4.0 0.0 1.0
H1' A:DC3 4.2 0.0 1.0
C1' A:DC3 4.2 0.0 1.0
C3' A:DC4 4.3 0.0 1.0
H2' A:DC4 4.4 0.0 1.0
O4' A:DC4 4.7 0.0 1.0
H4' A:DC4 4.7 0.0 1.0
O4' A:DC3 4.7 0.0 1.0
C2' A:DC4 4.9 0.0 1.0
H5'' A:DC3 5.0 0.0 1.0

Phosphorus binding site 4 out of 15 in 1ac7

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Phosphorus binding site 4 out of 15 in the Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 4 of Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures 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
O3' A:DC4 1.6 0.0 1.0
O5' A:DT5 1.6 0.0 1.0
H2'' A:DC4 2.6 0.0 1.0
C3' A:DC4 2.6 0.0 1.0
C5' A:DT5 2.6 0.0 1.0
H5' A:DT5 2.8 0.0 1.0
H3' A:DC4 2.9 0.0 1.0
H5'' A:DT5 2.9 0.0 1.0
C2' A:DC4 3.1 0.0 1.0
H6 A:DT5 3.5 0.0 1.0
H2' A:DC4 3.8 0.0 1.0
C4' A:DC4 4.0 0.0 1.0
C4' A:DT5 4.0 0.0 1.0
H4' A:DC4 4.0 0.0 1.0
H3' A:DT5 4.1 0.0 1.0
H72 A:DT5 4.1 0.0 1.0
H1' A:DC4 4.2 0.0 1.0
C1' A:DC4 4.2 0.0 1.0
O4' A:DT5 4.4 0.0 1.0
H2' A:DT5 4.5 0.0 1.0
C3' A:DT5 4.6 0.0 1.0
C6 A:DT5 4.6 0.0 1.0
O4' A:DC4 4.7 0.0 1.0
H4' A:DT5 4.8 0.0 1.0
C2' A:DT5 5.0 0.0 1.0
C5' A:DC4 5.0 0.0 1.0

Phosphorus binding site 5 out of 15 in 1ac7

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Phosphorus binding site 5 out of 15 in the Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures


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Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P6

b:0.0
occ:1.00
P A:DA6 0.0 0.0 1.0
OP2 A:DA6 1.5 0.0 1.0
OP1 A:DA6 1.5 0.0 1.0
O3' A:DT5 1.6 0.0 1.0
O5' A:DA6 1.6 0.0 1.0
C5' A:DA6 2.6 0.0 1.0
C3' A:DT5 2.6 0.0 1.0
H3' A:DT5 2.7 0.0 1.0
H5' A:DA6 2.8 0.0 1.0
H5'' A:DA6 2.9 0.0 1.0
H2'' A:DT5 3.1 0.0 1.0
C2' A:DT5 3.4 0.0 1.0
H3' A:DA6 3.8 0.0 1.0
C4' A:DT5 3.9 0.0 1.0
H4' A:DT5 3.9 0.0 1.0
C4' A:DA6 4.0 0.0 1.0
H2' A:DT5 4.1 0.0 1.0
H2' A:DA6 4.2 0.0 1.0
H8 A:DA6 4.2 0.0 1.0
C3' A:DA6 4.4 0.0 1.0
O4' A:DA6 4.5 0.0 1.0
H5'' A:DT5 4.5 0.0 1.0
C1' A:DT5 4.5 0.0 1.0
H1' A:DT5 4.5 0.0 1.0
H4' A:DA6 4.8 0.0 1.0
C2' A:DA6 4.8 0.0 1.0
C5' A:DT5 4.8 0.0 1.0
O4' A:DT5 4.8 0.0 1.0

Phosphorus binding site 6 out of 15 in 1ac7

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Phosphorus binding site 6 out of 15 in the Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 6 of Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P7

b:0.0
occ:1.00
P A:DG7 0.0 0.0 1.0
OP2 A:DG7 1.5 0.0 1.0
OP1 A:DG7 1.5 0.0 1.0
O3' A:DA6 1.6 0.0 1.0
O5' A:DG7 1.6 0.0 1.0
C3' A:DA6 2.7 0.0 1.0
C5' A:DG7 2.7 0.0 1.0
H5' A:DG7 2.7 0.0 1.0
H3' A:DA6 2.8 0.0 1.0
H2'' A:DA6 3.0 0.0 1.0
H5'' A:DG7 3.1 0.0 1.0
C2' A:DA6 3.4 0.0 1.0
H8 A:DG7 3.5 0.0 1.0
C4' A:DA6 3.9 0.0 1.0
C4' A:DG7 3.9 0.0 1.0
H4' A:DA6 3.9 0.0 1.0
H3' A:DG7 4.1 0.0 1.0
H2' A:DA6 4.1 0.0 1.0
H2' A:DG7 4.2 0.0 1.0
O4' A:DG7 4.3 0.0 1.0
H1' A:DA6 4.4 0.0 1.0
C8 A:DG7 4.4 0.0 1.0
C3' A:DG7 4.5 0.0 1.0
C1' A:DA6 4.5 0.0 1.0
H4' A:DG7 4.8 0.0 1.0
C2' A:DG7 4.8 0.0 1.0
H5'' A:DA6 4.8 0.0 1.0
O4' A:DA6 4.8 0.0 1.0
C5' A:DA6 4.9 0.0 1.0
C1' A:DG7 5.0 0.0 1.0

Phosphorus binding site 7 out of 15 in 1ac7

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Phosphorus binding site 7 out of 15 in the Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 7 of Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P8

b:0.0
occ:1.00
P A:DT8 0.0 0.0 1.0
OP2 A:DT8 1.5 0.0 1.0
OP1 A:DT8 1.5 0.0 1.0
O3' A:DG7 1.6 0.0 1.0
O5' A:DT8 1.6 0.0 1.0
H2'' A:DG7 2.6 0.0 1.0
C3' A:DG7 2.6 0.0 1.0
C5' A:DT8 2.6 0.0 1.0
H5' A:DT8 2.8 0.0 1.0
H3' A:DG7 2.9 0.0 1.0
H5'' A:DT8 3.0 0.0 1.0
C2' A:DG7 3.1 0.0 1.0
H6 A:DT8 3.6 0.0 1.0
H2' A:DG7 3.8 0.0 1.0
C4' A:DT8 4.0 0.0 1.0
C4' A:DG7 4.0 0.0 1.0
H4' A:DG7 4.0 0.0 1.0
H71 A:DT8 4.1 0.0 1.0
H1' A:DG7 4.2 0.0 1.0
O4' A:DT8 4.2 0.0 1.0
C1' A:DG7 4.2 0.0 1.0
C6 A:DT8 4.5 0.0 1.0
H3' A:DT8 4.6 0.0 1.0
H61 A:DA10 4.6 0.0 1.0
H4' A:DT8 4.7 0.0 1.0
O4' A:DG7 4.7 0.0 1.0
H2' A:DT8 4.7 0.0 1.0
C3' A:DT8 4.8 0.0 1.0

Phosphorus binding site 8 out of 15 in 1ac7

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Phosphorus binding site 8 out of 15 in the Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 8 of Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P9

b:0.0
occ:1.00
P A:DT9 0.0 0.0 1.0
OP1 A:DT9 1.5 0.0 1.0
OP2 A:DT9 1.5 0.0 1.0
O3' A:DT8 1.6 0.0 1.0
O5' A:DT9 1.6 0.0 1.0
H5' A:DT9 2.6 0.0 1.0
C3' A:DT8 2.6 0.0 1.0
C5' A:DT9 2.6 0.0 1.0
H2'' A:DT8 2.8 0.0 1.0
H3' A:DT8 2.8 0.0 1.0
C2' A:DT8 3.3 0.0 1.0
H5'' A:DT9 3.3 0.0 1.0
C4' A:DT9 3.7 0.0 1.0
H4' A:DT9 3.8 0.0 1.0
H2' A:DT8 3.9 0.0 1.0
C4' A:DT8 4.0 0.0 1.0
H4' A:DT8 4.0 0.0 1.0
O4' A:DT9 4.1 0.0 1.0
H1' A:DT8 4.3 0.0 1.0
C1' A:DT8 4.4 0.0 1.0
H5'' A:DT8 4.7 0.0 1.0
O4' A:DT8 4.8 0.0 1.0
H6 A:DT9 4.9 0.0 1.0
C5' A:DT8 5.0 0.0 1.0

Phosphorus binding site 9 out of 15 in 1ac7

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Phosphorus binding site 9 out of 15 in the Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 9 of Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures 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
OP1 A:DA10 1.5 0.0 1.0
OP2 A:DA10 1.5 0.0 1.0
O3' A:DT9 1.6 0.0 1.0
O5' A:DA10 1.6 0.0 1.0
H5'' A:DA10 2.6 0.0 1.0
C5' A:DA10 2.6 0.0 1.0
C3' A:DT9 2.6 0.0 1.0
H3' A:DT9 2.6 0.0 1.0
H8 A:DA10 2.9 0.0 1.0
H5' A:DA10 3.2 0.0 1.0
H2'' A:DT9 3.4 0.0 1.0
H2' A:DA10 3.4 0.0 1.0
C8 A:DA10 3.6 0.0 1.0
C2' A:DT9 3.6 0.0 1.0
H4' A:DT9 3.7 0.0 1.0
C4' A:DT9 3.8 0.0 1.0
C4' A:DA10 3.8 0.0 1.0
H3' A:DA10 4.0 0.0 1.0
C2' A:DA10 4.2 0.0 1.0
O4' A:DA10 4.2 0.0 1.0
N7 A:DA10 4.2 0.0 1.0
H2' A:DT9 4.2 0.0 1.0
N9 A:DA10 4.2 0.0 1.0
C3' A:DA10 4.3 0.0 1.0
C1' A:DA10 4.4 0.0 1.0
H5' A:DT9 4.4 0.0 1.0
C5' A:DT9 4.6 0.0 1.0
H5'' A:DT9 4.7 0.0 1.0
C1' A:DT9 4.7 0.0 1.0
H4' A:DA10 4.7 0.0 1.0
H1' A:DT9 4.7 0.0 1.0
O4' A:DT9 4.8 0.0 1.0

Phosphorus binding site 10 out of 15 in 1ac7

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Phosphorus binding site 10 out of 15 in the Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 10 of Structural Features of the Dna Hairpin D(Atcctagttataggat): the Formation of A G-A Base Pair in the Loop, uc(Nmr), 10 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P11

b:0.0
occ:1.00
P A:DT11 0.0 0.0 1.0
OP2 A:DT11 1.5 0.0 1.0
OP1 A:DT11 1.5 0.0 1.0
O5' A:DT11 1.6 0.0 1.0
O3' A:DA10 1.6 0.0 1.0
C5' A:DT11 2.6 0.0 1.0
C3' A:DA10 2.6 0.0 1.0
H2'' A:DA10 2.6 0.0 1.0
H5' A:DT11 2.7 0.0 1.0
H3' A:DA10 2.9 0.0 1.0
H5'' A:DT11 3.0 0.0 1.0
C2' A:DA10 3.1 0.0 1.0
H6 A:DT11 3.7 0.0 1.0
H2' A:DA10 3.9 0.0 1.0
C4' A:DT11 3.9 0.0 1.0
C4' A:DA10 4.0 0.0 1.0
H1' A:DA10 4.0 0.0 1.0
H4' A:DA10 4.1 0.0 1.0
C1' A:DA10 4.1 0.0 1.0
O4' A:DT11 4.2 0.0 1.0
H3' A:DT11 4.4 0.0 1.0
O4' A:DA10 4.6 0.0 1.0
C6 A:DT11 4.6 0.0 1.0
H73 A:DT11 4.7 0.0 1.0
H4' A:DT11 4.7 0.0 1.0
C3' A:DT11 4.7 0.0 1.0
H2' A:DT11 4.7 0.0 1.0
H72 A:DT11 4.8 0.0 1.0
H5'' A:DA10 4.9 0.0 1.0

Reference:

M.J.Van Dongen, M.M.Mooren, E.F.Willems, G.A.Van Der Marel, J.H.Van Boom, S.S.Wijmenga, C.W.Hilbers. Structural Features of the Dna Hairpin D(Atccta-Gtta-Taggat): Formation of A G-A Base Pair in the Loop. Nucleic Acids Res. V. 25 1537 1997.
ISSN: ISSN 0305-1048
PubMed: 9092659
DOI: 10.1093/NAR/25.8.1537
Page generated: Fri Sep 25 12:43:27 2020

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