Phosphorus in PDB 1a9l: Solution Structure of A Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures

Phosphorus Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 37;

Binding sites:

The binding sites of Phosphorus atom in the Solution Structure of A Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures (pdb code 1a9l). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 37 binding sites of Phosphorus where determined in the Solution Structure of A Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures, PDB code: 1a9l:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 37 in 1a9l

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Phosphorus binding site 1 out of 37 in the Solution Structure of A Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures


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 Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P2

b:7.7
occ:1.00
P A:G2 0.0 7.7 1.0
OP1 A:G2 1.5 7.8 1.0
OP2 A:G2 1.5 7.3 1.0
O5' A:G2 1.6 7.6 1.0
O3' A:G1 1.6 8.6 1.0
C5' A:G2 2.6 8.0 1.0
C3' A:G1 2.7 8.8 1.0
H3' A:G1 2.7 8.3 1.0
H5' A:G2 2.9 8.6 1.0
H5'' A:G2 2.9 7.9 1.0
H2' A:G1 3.6 8.6 1.0
C2' A:G1 3.6 9.1 1.0
H8 A:G2 3.8 7.3 1.0
HO2' A:G1 3.8 9.8 1.0
HO5' A:G1 3.9 9.3 1.0
H5'' A:G1 3.9 9.6 1.0
C4' A:G1 3.9 9.6 1.0
C4' A:G2 3.9 8.0 1.0
H3' A:G2 4.1 6.9 1.0
H4' A:G1 4.2 10.1 1.0
O2' A:G1 4.2 9.7 1.0
C5' A:G1 4.3 9.7 1.0
O4' A:G2 4.4 8.2 1.0
C3' A:G2 4.5 7.4 1.0
O5' A:G1 4.6 9.2 1.0
OP2 A:G3 4.6 6.1 1.0
H4' A:G2 4.7 8.5 1.0
C8 A:G2 4.8 7.2 1.0
C1' A:G1 4.9 9.6 1.0
O4' A:G1 5.0 9.9 1.0

Phosphorus binding site 2 out of 37 in 1a9l

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Phosphorus binding site 2 out of 37 in the Solution Structure of A Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures


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 Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P3

b:6.6
occ:1.00
P A:G3 0.0 6.6 1.0
OP1 A:G3 1.5 6.8 1.0
OP2 A:G3 1.5 6.1 1.0
O5' A:G3 1.6 6.6 1.0
O3' A:G2 1.6 7.3 1.0
C5' A:G3 2.7 7.1 1.0
C3' A:G2 2.7 7.4 1.0
H3' A:G2 2.7 6.9 1.0
H5'' A:G3 2.9 7.2 1.0
H5' A:G3 2.9 7.6 1.0
H2' A:G2 3.6 7.2 1.0
C2' A:G2 3.6 7.7 1.0
HO2' A:G2 3.7 8.5 1.0
C4' A:G2 3.9 8.0 1.0
H8 A:G3 3.9 6.0 1.0
H5'' A:G2 3.9 7.9 1.0
C4' A:G3 4.0 7.1 1.0
H3' A:G3 4.1 6.1 1.0
H4' A:G2 4.2 8.5 1.0
O2' A:G2 4.2 8.3 1.0
C5' A:G2 4.3 8.0 1.0
O4' A:G3 4.4 7.0 1.0
O5' A:G2 4.5 7.6 1.0
C3' A:G3 4.5 6.6 1.0
OP2 A:U4 4.7 5.9 1.0
H4' A:G3 4.7 7.6 1.0
C1' A:G2 4.8 8.0 1.0
C8 A:G3 4.9 5.8 1.0
O3' A:G3 4.9 6.8 1.0
O4' A:G2 4.9 8.2 1.0

Phosphorus binding site 3 out of 37 in 1a9l

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Phosphorus binding site 3 out of 37 in the Solution Structure of A Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures


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 Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P4

b:6.4
occ:1.00
P A:U4 0.0 6.4 1.0
OP1 A:U4 1.5 7.0 1.0
OP2 A:U4 1.5 5.9 1.0
O5' A:U4 1.6 6.3 1.0
O3' A:G3 1.6 6.8 1.0
C3' A:G3 2.7 6.6 1.0
C5' A:U4 2.7 6.9 1.0
H3' A:G3 2.7 6.1 1.0
H5' A:U4 2.9 7.2 1.0
H5'' A:U4 2.9 7.2 1.0
H2' A:G3 3.5 6.3 1.0
C2' A:G3 3.6 6.7 1.0
H6 A:U4 3.9 5.1 1.0
C4' A:G3 3.9 7.1 1.0
C4' A:U4 4.0 6.6 1.0
H5'' A:G3 4.0 7.2 1.0
H3' A:U4 4.0 5.8 1.0
O2' A:G3 4.2 7.4 1.0
H4' A:G3 4.2 7.6 1.0
C5' A:G3 4.4 7.1 1.0
O4' A:U4 4.4 6.2 1.0
O5' A:G3 4.5 6.6 1.0
C3' A:U4 4.5 6.2 1.0
OP2 A:G5 4.6 6.1 1.0
H4' A:U4 4.7 7.1 1.0
C1' A:G3 4.8 6.7 1.0
HO2' A:G3 4.9 7.5 1.0
O3' A:U4 4.9 6.8 1.0
C6 A:U4 4.9 4.8 1.0
O4' A:G3 5.0 7.0 1.0

Phosphorus binding site 4 out of 37 in 1a9l

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Phosphorus binding site 4 out of 37 in the Solution Structure of A Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures


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 Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P5

b:6.7
occ:1.00
P A:G5 0.0 6.7 1.0
OP1 A:G5 1.5 7.5 1.0
OP2 A:G5 1.5 6.1 1.0
O5' A:G5 1.6 6.3 1.0
O3' A:U4 1.6 6.8 1.0
C5' A:G5 2.6 6.8 1.0
C3' A:U4 2.7 6.2 1.0
H3' A:U4 2.7 5.8 1.0
H5' A:G5 2.9 7.1 1.0
H5'' A:G5 3.0 7.3 1.0
H8 A:G5 3.6 4.8 1.0
H2' A:U4 3.6 5.5 1.0
C2' A:U4 3.6 6.0 1.0
H5'' A:U4 3.9 7.2 1.0
C4' A:U4 3.9 6.6 1.0
C4' A:G5 3.9 6.3 1.0
H3' A:G5 4.0 5.8 1.0
H4' A:U4 4.2 7.1 1.0
O2' A:U4 4.2 6.5 1.0
C5' A:U4 4.3 6.9 1.0
O5' A:U4 4.4 6.3 1.0
O4' A:G5 4.4 5.7 1.0
C3' A:G5 4.5 6.1 1.0
C8 A:G5 4.6 4.5 1.0
H4' A:G5 4.7 6.7 1.0
HO2' A:U4 4.7 6.6 1.0
C1' A:U4 4.9 5.8 1.0
O3' A:G5 4.9 6.7 1.0
OP2 A:A6 4.9 6.4 1.0
O4' A:U4 4.9 6.2 1.0

Phosphorus binding site 5 out of 37 in 1a9l

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Phosphorus binding site 5 out of 37 in the Solution Structure of A Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures


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 Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P6

b:6.8
occ:1.00
P A:A6 0.0 6.8 1.0
OP1 A:A6 1.5 7.7 1.0
OP2 A:A6 1.5 6.4 1.0
O5' A:A6 1.6 6.4 1.0
O3' A:G5 1.6 6.7 1.0
C5' A:A6 2.7 6.2 1.0
C3' A:G5 2.7 6.1 1.0
H3' A:G5 2.8 5.8 1.0
H5'' A:A6 2.9 6.4 1.0
H4' A:A6 3.3 5.8 1.0
C4' A:A6 3.3 5.6 1.0
O4' A:A6 3.4 5.0 1.0
H5' A:A6 3.5 6.5 1.0
C2' A:G5 3.8 5.5 1.0
H2' A:G5 3.8 5.3 1.0
H5'' A:G5 3.9 7.3 1.0
C4' A:G5 3.9 6.3 1.0
H4' A:G5 4.2 6.7 1.0
C5' A:G5 4.2 6.8 1.0
O5' A:G5 4.3 6.3 1.0
H8 A:A6 4.3 4.8 1.0
O2' A:G5 4.4 5.8 1.0
C1' A:A6 4.8 4.8 1.0
C3' A:A6 4.8 5.6 1.0
C1' A:G5 4.9 5.2 1.0
HO2' A:G5 5.0 6.1 1.0

Phosphorus binding site 6 out of 37 in 1a9l

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Phosphorus binding site 6 out of 37 in the Solution Structure of A Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures


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 Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P7

b:5.7
occ:1.00
P A:C7 0.0 5.7 1.0
OP1 A:C7 1.5 5.8 1.0
OP2 A:C7 1.5 6.1 1.0
O5' A:C7 1.6 5.4 1.0
O3' A:A6 1.6 5.4 1.0
C5' A:C7 2.7 5.0 1.0
C3' A:A6 2.7 5.6 1.0
H3' A:A6 2.8 6.1 1.0
H5' A:C7 2.9 4.8 1.0
H5'' A:C7 3.0 4.9 1.0
H6 A:C7 3.2 5.6 1.0
O2' A:A6 3.6 5.2 1.0
H1' A:A6 3.7 4.5 1.0
H4' A:A6 3.7 5.8 1.0
C2' A:A6 3.7 5.3 1.0
C4' A:A6 3.9 5.6 1.0
C4' A:C7 4.0 4.9 1.0
HO2' A:A6 4.2 5.1 1.0
H3' A:C7 4.2 5.0 1.0
O4' A:C7 4.2 5.1 1.0
C6 A:C7 4.2 5.6 1.0
C1' A:A6 4.2 4.8 1.0
HO2' A:G5 4.5 6.1 1.0
H5 A:C7 4.5 5.8 1.0
H22 A:G5 4.6 3.8 1.0
H2' A:G5 4.6 5.3 1.0
O4' A:A6 4.6 5.0 1.0
C3' A:C7 4.6 4.9 1.0
H2' A:A6 4.7 5.6 1.0
H4' A:C7 4.8 4.8 1.0
C5 A:C7 4.8 5.7 1.0
H5' A:A6 4.9 6.5 1.0

Phosphorus binding site 7 out of 37 in 1a9l

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Phosphorus binding site 7 out of 37 in the Solution Structure of A Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures


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 Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P8

b:4.6
occ:1.00
P A:U8 0.0 4.6 1.0
OP1 A:U8 1.5 4.4 1.0
OP2 A:U8 1.5 4.7 1.0
O5' A:U8 1.6 4.7 1.0
O3' A:C7 1.6 4.7 1.0
C5' A:U8 2.7 4.7 1.0
C3' A:C7 2.7 4.9 1.0
H3' A:C7 2.7 5.0 1.0
H5' A:U8 2.9 4.8 1.0
H5'' A:U8 3.0 4.6 1.0
HO2' A:C34 3.4 3.4 1.0
H6 A:U8 3.4 5.1 1.0
H2' A:C7 3.7 5.0 1.0
C2' A:C7 3.7 5.0 1.0
H5'' A:C7 3.9 4.9 1.0
C4' A:C7 3.9 4.9 1.0
C4' A:U8 3.9 4.9 1.0
H1' A:C34 4.0 3.3 1.0
O2' A:C34 4.1 3.3 1.0
H4' A:C7 4.1 4.8 1.0
H3' A:U8 4.2 4.6 1.0
O4' A:U8 4.3 5.1 1.0
O2' A:C7 4.3 4.9 1.0
C5' A:C7 4.3 5.0 1.0
C6 A:U8 4.4 5.0 1.0
O2 A:C34 4.6 3.0 1.0
C3' A:U8 4.6 4.7 1.0
H5 A:U8 4.7 5.0 1.0
O5' A:C7 4.7 5.4 1.0
H4' A:U8 4.7 5.0 1.0
HO2' A:C7 4.8 4.9 1.0
C1' A:C7 4.9 5.2 1.0
C1' A:C34 5.0 3.1 1.0
OP2 A:C9 5.0 4.2 1.0
O4' A:C7 5.0 5.1 1.0
C2' A:C34 5.0 3.0 1.0

Phosphorus binding site 8 out of 37 in 1a9l

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Phosphorus binding site 8 out of 37 in the Solution Structure of A Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures


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 Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P9

b:4.3
occ:1.00
P A:C9 0.0 4.3 1.0
OP1 A:C9 1.5 4.3 1.0
OP2 A:C9 1.5 4.2 1.0
O5' A:C9 1.6 4.4 1.0
O3' A:U8 1.6 4.6 1.0
C3' A:U8 2.7 4.7 1.0
C5' A:C9 2.7 4.6 1.0
H3' A:U8 2.7 4.6 1.0
H5'' A:C9 2.9 4.5 1.0
H5' A:C9 3.0 4.9 1.0
H2' A:U8 3.6 4.8 1.0
H6 A:C9 3.6 4.4 1.0
C2' A:U8 3.6 5.0 1.0
C4' A:U8 3.9 4.9 1.0
H3' A:C9 4.0 4.0 1.0
C4' A:C9 4.0 4.5 1.0
H5'' A:U8 4.0 4.6 1.0
H4' A:U8 4.2 5.0 1.0
O2' A:U8 4.2 5.2 1.0
HO2' A:U8 4.3 5.4 1.0
C5' A:U8 4.4 4.7 1.0
C3' A:C9 4.4 4.2 1.0
O4' A:C9 4.4 4.7 1.0
OP2 A:C10 4.5 3.8 1.0
C6 A:C9 4.6 4.3 1.0
O5' A:U8 4.6 4.7 1.0
H4' A:C9 4.8 4.7 1.0
C1' A:U8 4.9 5.2 1.0
O3' A:C9 5.0 4.1 1.0
O4' A:U8 5.0 5.1 1.0

Phosphorus binding site 9 out of 37 in 1a9l

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Phosphorus binding site 9 out of 37 in the Solution Structure of A Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures


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 Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P10

b:3.8
occ:1.00
P A:C10 0.0 3.8 1.0
OP1 A:C10 1.5 3.9 1.0
OP2 A:C10 1.5 3.8 1.0
O5' A:C10 1.6 3.5 1.0
O3' A:C9 1.6 4.1 1.0
C3' A:C9 2.7 4.2 1.0
C5' A:C10 2.7 3.5 1.0
H3' A:C9 2.7 4.0 1.0
H5' A:C10 2.9 3.9 1.0
H5'' A:C10 3.0 3.5 1.0
H2' A:C9 3.5 4.0 1.0
H6 A:C10 3.6 3.4 1.0
C2' A:C9 3.6 4.2 1.0
C4' A:C9 3.9 4.5 1.0
C4' A:C10 4.0 3.3 1.0
H5'' A:C9 4.0 4.5 1.0
H3' A:C10 4.1 2.8 1.0
O2' A:C9 4.2 4.4 1.0
H4' A:C9 4.2 4.7 1.0
O4' A:C10 4.4 3.4 1.0
C5' A:C9 4.4 4.6 1.0
O5' A:C9 4.5 4.4 1.0
C3' A:C10 4.5 2.9 1.0
C6 A:C10 4.6 3.3 1.0
HO2' A:C9 4.7 4.5 1.0
H4' A:C10 4.8 3.3 1.0
C1' A:C9 4.8 4.5 1.0
H5 A:C10 4.9 3.6 1.0
O4' A:C9 5.0 4.7 1.0

Phosphorus binding site 10 out of 37 in 1a9l

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Phosphorus binding site 10 out of 37 in the Solution Structure of A Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures


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 Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P11

b:2.5
occ:1.00
P A:A11 0.0 2.5 1.0
OP1 A:A11 1.5 3.0 1.0
OP2 A:A11 1.5 2.5 1.0
O5' A:A11 1.6 2.0 1.0
O3' A:C10 1.6 2.7 1.0
C3' A:C10 2.6 2.9 1.0
C5' A:A11 2.7 2.3 1.0
H3' A:C10 2.8 2.8 1.0
H5'' A:A11 2.8 2.7 1.0
H5' A:A11 3.1 2.6 1.0
H2' A:C10 3.2 2.5 1.0
C2' A:C10 3.3 2.7 1.0
HO2' A:C10 3.6 2.7 1.0
O2' A:C10 3.8 2.7 1.0
C4' A:A11 3.9 2.0 1.0
C4' A:C10 4.0 3.3 1.0
H4' A:A11 4.1 2.0 1.0
H4' A:C10 4.2 3.3 1.0
O4' A:A11 4.3 2.1 1.0
H5'' A:C10 4.3 3.5 1.0
C5' A:C10 4.6 3.5 1.0
C1' A:C10 4.7 3.1 1.0
H8 A:A11 4.7 2.5 1.0
O5' A:C10 4.8 3.5 1.0
O4' A:C10 4.9 3.4 1.0

Reference:

J.L.Diener, P.B.Moore. Solution Structure of A Substrate For the Archaeal Pre-Trna Splicing Endonucleases: the Bulge-Helix-Bulge Motif. Mol.Cell V. 1 883 1998.
ISSN: ISSN 1097-2765
PubMed: 9660971
DOI: 10.1016/S1097-2765(00)80087-8
Page generated: Fri Sep 25 12:36:41 2020

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