Phosphorus in PDB 1a60: uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures

Phosphorus Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40; Page 5, Binding sites: 41 - 43;

Binding sites:

The binding sites of Phosphorus atom in the uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures (pdb code 1a60). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 43 binding sites of Phosphorus where determined in the uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures, PDB code: 1a60:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 43 in 1a60

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Phosphorus binding site 1 out of 43 in the uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures


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A full contact list of Phosphorus with other atoms in the P binding site number 1 of uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P2

b:0.0
occ:1.00
P A:G2 0.0 0.0 1.0
OP2 A:G2 1.5 0.0 1.0
OP1 A:G2 1.5 0.0 1.0
O3' A:G1 1.6 0.0 1.0
O5' A:G2 1.6 0.0 1.0
C5' A:G2 2.6 0.0 1.0
H3' A:G1 2.6 0.0 1.0
H5' A:G2 2.6 0.0 1.0
C3' A:G1 2.6 0.0 1.0
H5'' A:G2 3.1 0.0 1.0
C2' A:G1 3.7 0.0 1.0
C4' A:G1 3.7 0.0 1.0
HO2' A:G1 3.8 0.0 1.0
H2' A:G1 3.8 0.0 1.0
H4' A:G1 3.8 0.0 1.0
C4' A:G2 3.9 0.0 1.0
O5' A:G1 3.9 0.0 1.0
O2' A:G1 4.0 0.0 1.0
H5'' A:G1 4.1 0.0 1.0
O4' A:G2 4.1 0.0 1.0
H8 A:G2 4.1 0.0 1.0
C5' A:G1 4.1 0.0 1.0
H3' A:G2 4.3 0.0 1.0
HO5' A:G1 4.5 0.0 1.0
H4' A:G2 4.6 0.0 1.0
C3' A:G2 4.7 0.0 1.0
C1' A:G1 4.9 0.0 1.0
O4' A:G1 4.9 0.0 1.0

Phosphorus binding site 2 out of 43 in 1a60

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Phosphorus binding site 2 out of 43 in the uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures


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Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P3

b:0.0
occ:1.00
P A:G3 0.0 0.0 1.0
OP2 A:G3 1.5 0.0 1.0
OP1 A:G3 1.5 0.0 1.0
O5' A:G3 1.6 0.0 1.0
O3' A:G2 1.6 0.0 1.0
H5' A:G3 2.6 0.0 1.0
C5' A:G3 2.6 0.0 1.0
C3' A:G2 2.6 0.0 1.0
H3' A:G2 2.7 0.0 1.0
H5'' A:G3 3.2 0.0 1.0
H8 A:G3 3.3 0.0 1.0
H5'' A:G2 3.6 0.0 1.0
C2' A:G2 3.6 0.0 1.0
H2' A:G2 3.7 0.0 1.0
C4' A:G2 3.8 0.0 1.0
C4' A:G3 3.9 0.0 1.0
O2' A:G2 3.9 0.0 1.0
O4' A:G3 3.9 0.0 1.0
HO2' A:G2 4.0 0.0 1.0
H4' A:G2 4.1 0.0 1.0
C5' A:G2 4.2 0.0 1.0
H3' A:G3 4.2 0.0 1.0
C8 A:G3 4.4 0.0 1.0
H4' A:G3 4.6 0.0 1.0
C3' A:G3 4.7 0.0 1.0
O5' A:G2 4.8 0.0 1.0
C1' A:G2 4.9 0.0 1.0
O4' A:G2 5.0 0.0 1.0

Phosphorus binding site 3 out of 43 in 1a60

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Phosphorus binding site 3 out of 43 in the uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 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 uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P4

b:0.0
occ:1.00
P A:A4 0.0 0.0 1.0
OP1 A:A4 1.5 0.0 1.0
OP2 A:A4 1.5 0.0 1.0
O3' A:G3 1.6 0.0 1.0
O5' A:A4 1.6 0.0 1.0
C3' A:G3 2.6 0.0 1.0
C5' A:A4 2.6 0.0 1.0
H5' A:A4 2.7 0.0 1.0
H3' A:G3 2.8 0.0 1.0
H8 A:A4 2.9 0.0 1.0
H5'' A:A4 3.0 0.0 1.0
C2' A:G3 3.4 0.0 1.0
H2' A:G3 3.5 0.0 1.0
O2' A:G3 3.5 0.0 1.0
HO2' A:G3 3.7 0.0 1.0
C4' A:G3 3.9 0.0 1.0
C4' A:A4 4.0 0.0 1.0
H5'' A:G3 4.0 0.0 1.0
C8 A:A4 4.0 0.0 1.0
H4' A:G3 4.1 0.0 1.0
O4' A:A4 4.2 0.0 1.0
H3' A:A4 4.3 0.0 1.0
C5' A:G3 4.5 0.0 1.0
H4' A:A4 4.7 0.0 1.0
N7 A:A4 4.7 0.0 1.0
C3' A:A4 4.7 0.0 1.0
C1' A:G3 4.8 0.0 1.0
N9 A:A4 5.0 0.0 1.0
O4' A:G3 5.0 0.0 1.0

Phosphorus binding site 4 out of 43 in 1a60

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Phosphorus binding site 4 out of 43 in the uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures


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Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 4 of uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P5

b:0.0
occ:1.00
P A:G5 0.0 0.0 1.0
OP2 A:G5 1.5 0.0 1.0
OP1 A:G5 1.5 0.0 1.0
O3' A:A4 1.6 0.0 1.0
O5' A:G5 1.6 0.0 1.0
C3' A:A4 2.6 0.0 1.0
C5' A:G5 2.6 0.0 1.0
H5' A:G5 2.6 0.0 1.0
H3' A:A4 2.6 0.0 1.0
H5'' A:G5 3.1 0.0 1.0
H8 A:G5 3.5 0.0 1.0
C2' A:A4 3.6 0.0 1.0
H5'' A:A4 3.6 0.0 1.0
H2' A:A4 3.7 0.0 1.0
C4' A:A4 3.8 0.0 1.0
C4' A:G5 3.9 0.0 1.0
O2' A:A4 3.9 0.0 1.0
H4' A:A4 4.0 0.0 1.0
O4' A:G5 4.0 0.0 1.0
C5' A:A4 4.2 0.0 1.0
H3' A:G5 4.3 0.0 1.0
C8 A:G5 4.6 0.0 1.0
H4' A:G5 4.6 0.0 1.0
C3' A:G5 4.8 0.0 1.0
HO2' A:A4 4.8 0.0 1.0
C1' A:A4 4.9 0.0 1.0
O4' A:A4 5.0 0.0 1.0
O5' A:A4 5.0 0.0 1.0

Phosphorus binding site 5 out of 43 in 1a60

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Phosphorus binding site 5 out of 43 in the uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P6

b:0.0
occ:1.00
P A:C6 0.0 0.0 1.0
OP1 A:C6 1.5 0.0 1.0
OP2 A:C6 1.5 0.0 1.0
O3' A:G5 1.6 0.0 1.0
O5' A:C6 1.6 0.0 1.0
C5' A:C6 2.6 0.0 1.0
C3' A:G5 2.6 0.0 1.0
H3' A:G5 2.7 0.0 1.0
H5'' A:C6 2.8 0.0 1.0
H5' A:C6 3.0 0.0 1.0
H6 A:C6 3.4 0.0 1.0
H5'' A:G5 3.4 0.0 1.0
H3' A:C6 3.6 0.0 1.0
C2' A:G5 3.7 0.0 1.0
C4' A:G5 3.7 0.0 1.0
H2' A:G5 3.9 0.0 1.0
H4' A:G5 3.9 0.0 1.0
C4' A:C6 4.0 0.0 1.0
O2' A:G5 4.0 0.0 1.0
C5' A:G5 4.1 0.0 1.0
OP2 A:U7 4.2 0.0 1.0
C3' A:C6 4.3 0.0 1.0
C6 A:C6 4.4 0.0 1.0
O4' A:C6 4.5 0.0 1.0
H5 A:C6 4.7 0.0 1.0
H4' A:C6 4.8 0.0 1.0
O5' A:G5 4.8 0.0 1.0
HO2' A:G5 4.9 0.0 1.0
H5' A:G5 4.9 0.0 1.0
O4' A:G5 4.9 0.0 1.0
C1' A:G5 5.0 0.0 1.0

Phosphorus binding site 6 out of 43 in 1a60

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Phosphorus binding site 6 out of 43 in the uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 6 of uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P7

b:0.0
occ:1.00
P A:U7 0.0 0.0 1.0
OP2 A:U7 1.5 0.0 1.0
OP1 A:U7 1.5 0.0 1.0
O5' A:U7 1.6 0.0 1.0
O3' A:C6 1.6 0.0 1.0
C5' A:U7 2.6 0.0 1.0
C3' A:C6 2.6 0.0 1.0
H3' A:C6 2.7 0.0 1.0
H5' A:U7 2.7 0.0 1.0
H5'' A:U7 3.1 0.0 1.0
H6 A:U7 3.3 0.0 1.0
HO2' A:C6 3.3 0.0 1.0
C2' A:C6 3.6 0.0 1.0
H5'' A:C6 3.7 0.0 1.0
H2' A:C6 3.8 0.0 1.0
C4' A:C6 3.8 0.0 1.0
O2' A:C6 3.9 0.0 1.0
C4' A:U7 3.9 0.0 1.0
H4' A:C6 4.0 0.0 1.0
O4' A:U7 4.1 0.0 1.0
H3' A:U7 4.2 0.0 1.0
C5' A:C6 4.2 0.0 1.0
C6 A:U7 4.3 0.0 1.0
O5' A:C6 4.5 0.0 1.0
H5 A:U7 4.6 0.0 1.0
C3' A:U7 4.7 0.0 1.0
H4' A:U7 4.7 0.0 1.0
C5 A:U7 4.9 0.0 1.0
C1' A:C6 4.9 0.0 1.0
O4' A:C6 5.0 0.0 1.0
H6 A:C6 5.0 0.0 1.0

Phosphorus binding site 7 out of 43 in 1a60

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Phosphorus binding site 7 out of 43 in the uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures


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Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 7 of uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P8

b:0.0
occ:1.00
P A:C8 0.0 0.0 1.0
OP1 A:C8 1.5 0.0 1.0
OP2 A:C8 1.5 0.0 1.0
O3' A:U7 1.6 0.0 1.0
O5' A:C8 1.6 0.0 1.0
C5' A:C8 2.6 0.0 1.0
C3' A:U7 2.6 0.0 1.0
H3' A:U7 2.7 0.0 1.0
H5'' A:C8 2.7 0.0 1.0
H6 A:C8 3.1 0.0 1.0
H5' A:C8 3.1 0.0 1.0
H3' A:C8 3.5 0.0 1.0
C2' A:U7 3.5 0.0 1.0
H2' A:U7 3.7 0.0 1.0
O2' A:U7 3.7 0.0 1.0
H5'' A:U7 3.7 0.0 1.0
C4' A:U7 3.9 0.0 1.0
C4' A:C8 3.9 0.0 1.0
HO2' A:U7 4.0 0.0 1.0
H4' A:U7 4.0 0.0 1.0
C6 A:C8 4.1 0.0 1.0
C3' A:C8 4.2 0.0 1.0
C5' A:U7 4.3 0.0 1.0
H2' A:C8 4.3 0.0 1.0
O4' A:C8 4.5 0.0 1.0
H5 A:C8 4.5 0.0 1.0
H4' A:C8 4.7 0.0 1.0
C2' A:C8 4.8 0.0 1.0
C5 A:C8 4.8 0.0 1.0
C1' A:U7 4.9 0.0 1.0
O5' A:U7 4.9 0.0 1.0
O4' A:U7 5.0 0.0 1.0

Phosphorus binding site 8 out of 43 in 1a60

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Phosphorus binding site 8 out of 43 in the uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 8 of uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P9

b:0.0
occ:1.00
P A:A9 0.0 0.0 1.0
OP2 A:A9 1.5 0.0 1.0
OP1 A:A9 1.5 0.0 1.0
O3' A:C8 1.6 0.0 1.0
O5' A:A9 1.6 0.0 1.0
C5' A:A9 2.6 0.0 1.0
C3' A:C8 2.6 0.0 1.0
H3' A:C8 2.8 0.0 1.0
H5'' A:A9 2.8 0.0 1.0
HO2' A:C8 2.9 0.0 1.0
O2' A:C8 2.9 0.0 1.0
H5' A:A9 2.9 0.0 1.0
C2' A:C8 3.3 0.0 1.0
H2' A:U7 3.6 0.0 1.0
H3' A:A9 3.7 0.0 1.0
H2' A:C8 3.8 0.0 1.0
C4' A:C8 3.9 0.0 1.0
O2 A:U7 4.0 0.0 1.0
C4' A:A9 4.0 0.0 1.0
H4' A:C8 4.0 0.0 1.0
H8 A:A9 4.2 0.0 1.0
C2 A:U7 4.2 0.0 1.0
O2' A:U7 4.3 0.0 1.0
OP2 A:A10 4.3 0.0 1.0
C2' A:U7 4.4 0.0 1.0
C3' A:A9 4.4 0.0 1.0
O4' A:A9 4.5 0.0 1.0
C1' A:C8 4.5 0.0 1.0
H5'' A:C8 4.6 0.0 1.0
N3 A:U7 4.7 0.0 1.0
H3 A:U7 4.7 0.0 1.0
H1' A:C8 4.7 0.0 1.0
H4' A:A9 4.8 0.0 1.0
N1 A:U7 4.8 0.0 1.0
C5' A:C8 4.8 0.0 1.0
O4' A:C8 4.9 0.0 1.0
C8 A:A9 4.9 0.0 1.0
C1' A:U7 5.0 0.0 1.0

Phosphorus binding site 9 out of 43 in 1a60

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Phosphorus binding site 9 out of 43 in the uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 9 of uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P10

b:0.0
occ:1.00
P A:A10 0.0 0.0 1.0
OP1 A:A10 1.5 0.0 1.0
OP2 A:A10 1.5 0.0 1.0
O5' A:A10 1.6 0.0 1.0
O3' A:A9 1.6 0.0 1.0
C5' A:A10 2.6 0.0 1.0
C3' A:A9 2.6 0.0 1.0
H5' A:A10 2.7 0.0 1.0
H3' A:A9 2.7 0.0 1.0
H5'' A:A10 3.1 0.0 1.0
H8 A:A10 3.2 0.0 1.0
C2' A:A9 3.6 0.0 1.0
H5'' A:A9 3.7 0.0 1.0
H2' A:A9 3.8 0.0 1.0
C4' A:A9 3.8 0.0 1.0
C4' A:A10 3.9 0.0 1.0
O2' A:A9 3.9 0.0 1.0
H4' A:A9 4.0 0.0 1.0
O4' A:A10 4.0 0.0 1.0
C5' A:A9 4.2 0.0 1.0
C8 A:A10 4.3 0.0 1.0
H3' A:A10 4.4 0.0 1.0
O5' A:A9 4.5 0.0 1.0
H4' A:A10 4.6 0.0 1.0
HO2' A:A9 4.7 0.0 1.0
C3' A:A10 4.8 0.0 1.0
C1' A:A9 4.9 0.0 1.0
O4' A:A9 5.0 0.0 1.0

Phosphorus binding site 10 out of 43 in 1a60

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Phosphorus binding site 10 out of 43 in the uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 10 of uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single-and Double-Stranded Rna, 24 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P11

b:0.0
occ:1.00
P A:C11 0.0 0.0 1.0
OP1 A:C11 1.5 0.0 1.0
OP2 A:C11 1.5 0.0 1.0
O5' A:C11 1.6 0.0 1.0
O3' A:A10 1.6 0.0 1.0
C5' A:C11 2.6 0.0 1.0
C3' A:A10 2.6 0.0 1.0
H3' A:A10 2.7 0.0 1.0
H5' A:C11 2.7 0.0 1.0
H5'' A:C11 3.0 0.0 1.0
H6 A:C11 3.1 0.0 1.0
HO2' A:A10 3.1 0.0 1.0
C2' A:A10 3.5 0.0 1.0
H2' A:A10 3.6 0.0 1.0
O2' A:A10 3.7 0.0 1.0
H5'' A:A10 3.8 0.0 1.0
C4' A:A10 3.9 0.0 1.0
C4' A:C11 3.9 0.0 1.0
H4' A:A10 4.1 0.0 1.0
C6 A:C11 4.1 0.0 1.0
H3' A:C11 4.1 0.0 1.0
O4' A:C11 4.2 0.0 1.0
H5 A:C11 4.3 0.0 1.0
C5' A:A10 4.4 0.0 1.0
C5 A:C11 4.6 0.0 1.0
C3' A:C11 4.6 0.0 1.0
H4' A:C11 4.7 0.0 1.0
C1' A:A10 4.9 0.0 1.0

Reference:

M.H.Kolk, M.Van Der Graaf, S.S.Wijmenga, C.W.Pleij, H.A.Heus, C.W.Hilbers. uc(Nmr) Structure of A Classical Pseudoknot: Interplay of Single- and Double-Stranded Rna. Science V. 280 434 1998.
ISSN: ISSN 0036-8075
PubMed: 9545221
DOI: 10.1126/SCIENCE.280.5362.434
Page generated: Fri Sep 25 12:17:10 2020

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