Phosphorus in PDB 17ra: Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, uc(Nmr), 12 Structures

Phosphorus Binding Sites:

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

Binding sites:

The binding sites of Phosphorus atom in the Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, uc(Nmr), 12 Structures (pdb code 17ra). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 20 binding sites of Phosphorus where determined in the Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, uc(Nmr), 12 Structures, PDB code: 17ra:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 20 in 17ra

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Phosphorus binding site 1 out of 20 in the Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, uc(Nmr), 12 Structures


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Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, uc(Nmr), 12 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
O5' A:G2 1.6 0.0 1.0
O3' A:G1 1.6 0.0 1.0
C5' A:G2 2.7 0.0 1.0
C3' A:G1 2.7 0.0 1.0
H3' A:G1 2.8 0.0 1.0
H5' A:G2 2.9 0.0 1.0
H5'' A:G2 3.0 0.0 1.0
C2' A:G1 3.5 0.0 1.0
H2' A:G1 3.5 0.0 1.0
H8 A:G2 3.6 0.0 1.0
O2' A:G1 3.7 0.0 1.0
HO5' A:G1 3.9 0.0 1.0
O5' A:G1 3.9 0.0 1.0
C4' A:G1 3.9 0.0 1.0
C4' A:G2 4.0 0.0 1.0
H4' A:G1 4.2 0.0 1.0
H3' A:G2 4.2 0.0 1.0
O4' A:G2 4.3 0.0 1.0
HO2' A:G1 4.5 0.0 1.0
C5' A:G1 4.5 0.0 1.0
C3' A:G2 4.7 0.0 1.0
C8 A:G2 4.7 0.0 1.0
H4' A:G2 4.8 0.0 1.0
C1' A:G1 4.9 0.0 1.0
H5' A:G1 4.9 0.0 1.0

Phosphorus binding site 2 out of 20 in 17ra

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Phosphorus binding site 2 out of 20 in the Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, uc(Nmr), 12 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 Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P3

b:0.0
occ:1.00
P A:C3 0.0 0.0 1.0
OP1 A:C3 1.5 0.0 1.0
OP2 A:C3 1.5 0.0 1.0
O3' A:G2 1.6 0.0 1.0
O5' A:C3 1.6 0.0 1.0
C5' A:C3 2.7 0.0 1.0
C3' A:G2 2.7 0.0 1.0
H3' A:G2 2.7 0.0 1.0
H5' A:C3 2.8 0.0 1.0
H5'' A:C3 3.0 0.0 1.0
HO2' A:G2 3.5 0.0 1.0
H6 A:C3 3.6 0.0 1.0
H5'' A:G2 3.6 0.0 1.0
C2' A:G2 3.7 0.0 1.0
H2' A:G2 3.7 0.0 1.0
C4' A:G2 3.9 0.0 1.0
C4' A:C3 4.0 0.0 1.0
O2' 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
O4' A:C3 4.3 0.0 1.0
H3' A:C3 4.3 0.0 1.0
C6 A:C3 4.6 0.0 1.0
C3' A:C3 4.7 0.0 1.0
H4' A:C3 4.8 0.0 1.0
O5' A:G2 4.8 0.0 1.0
C1' A:G2 5.0 0.0 1.0
O4' A:G2 5.0 0.0 1.0

Phosphorus binding site 3 out of 20 in 17ra

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Phosphorus binding site 3 out of 20 in the Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, 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 Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P4

b:0.0
occ:1.00
P A:G4 0.0 0.0 1.0
OP2 A:G4 1.5 0.0 1.0
OP1 A:G4 1.5 0.0 1.0
O5' A:G4 1.6 0.0 1.0
O3' A:C3 1.6 0.0 1.0
C5' A:G4 2.7 0.0 1.0
C3' A:C3 2.7 0.0 1.0
H3' A:C3 2.8 0.0 1.0
H5' A:G4 2.8 0.0 1.0
H5'' A:G4 3.0 0.0 1.0
HO2' A:C3 3.4 0.0 1.0
C2' A:C3 3.5 0.0 1.0
H2' A:C3 3.5 0.0 1.0
H8 A:G4 3.7 0.0 1.0
H5'' A:C3 3.8 0.0 1.0
O2' A:C3 3.8 0.0 1.0
C4' A:C3 3.9 0.0 1.0
C4' A:G4 4.0 0.0 1.0
H4' A:C3 4.2 0.0 1.0
O4' A:G4 4.2 0.0 1.0
H3' A:G4 4.4 0.0 1.0
C5' A:C3 4.4 0.0 1.0
H4' A:G4 4.7 0.0 1.0
C8 A:G4 4.8 0.0 1.0
C3' A:G4 4.8 0.0 1.0
C1' A:C3 4.9 0.0 1.0

Phosphorus binding site 4 out of 20 in 17ra

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Phosphorus binding site 4 out of 20 in the Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, 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 Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P5

b:0.0
occ:1.00
P A:U5 0.0 0.0 1.0
OP1 A:U5 1.5 0.0 1.0
OP2 A:U5 1.5 0.0 1.0
O3' A:G4 1.6 0.0 1.0
O5' A:U5 1.6 0.0 1.0
C5' A:U5 2.7 0.0 1.0
C3' A:G4 2.7 0.0 1.0
H3' A:G4 2.8 0.0 1.0
H5'' A:U5 2.8 0.0 1.0
H5' A:U5 3.0 0.0 1.0
H6 A:U5 3.4 0.0 1.0
C2' A:G4 3.5 0.0 1.0
H2' A:G4 3.6 0.0 1.0
H5'' A:G4 3.8 0.0 1.0
O2' A:G4 3.8 0.0 1.0
C4' A:G4 3.9 0.0 1.0
H3' A:U5 3.9 0.0 1.0
C4' A:U5 4.0 0.0 1.0
H4' A:G4 4.2 0.0 1.0
O4' A:U5 4.3 0.0 1.0
C6 A:U5 4.4 0.0 1.0
C5' A:G4 4.4 0.0 1.0
C3' A:U5 4.5 0.0 1.0
HO2' A:G4 4.6 0.0 1.0
H5 A:U5 4.7 0.0 1.0
H4' A:U5 4.8 0.0 1.0
C1' A:G4 4.9 0.0 1.0

Phosphorus binding site 5 out of 20 in 17ra

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Phosphorus binding site 5 out of 20 in the Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, 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 Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P6

b:0.0
occ:1.00
P A:A6 0.0 0.0 1.0
OP2 A:A6 1.5 0.0 1.0
OP1 A:A6 1.5 0.0 1.0
O5' A:A6 1.6 0.0 1.0
O3' A:U5 1.6 0.0 1.0
C5' A:A6 2.7 0.0 1.0
C3' A:U5 2.7 0.0 1.0
H3' A:U5 2.8 0.0 1.0
H5' A:A6 2.9 0.0 1.0
H5'' A:A6 3.0 0.0 1.0
H2' A:U5 3.4 0.0 1.0
C2' A:U5 3.4 0.0 1.0
O2' A:U5 3.6 0.0 1.0
C4' A:U5 4.0 0.0 1.0
C4' A:A6 4.0 0.0 1.0
H5'' A:U5 4.0 0.0 1.0
H8 A:A6 4.1 0.0 1.0
H3' A:A6 4.1 0.0 1.0
H4' A:U5 4.2 0.0 1.0
O4' A:A6 4.3 0.0 1.0
HO2' A:U5 4.3 0.0 1.0
C5' A:U5 4.6 0.0 1.0
C3' A:A6 4.7 0.0 1.0
H4' A:A6 4.8 0.0 1.0
C1' A:U5 4.8 0.0 1.0
O4' A:U5 5.0 0.0 1.0

Phosphorus binding site 6 out of 20 in 17ra

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Phosphorus binding site 6 out of 20 in the Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, 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 Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P7

b:0.0
occ:1.00
P A:A7 0.0 0.0 1.0
OP1 A:A7 1.5 0.0 1.0
OP2 A:A7 1.5 0.0 1.0
O3' A:A6 1.6 0.0 1.0
O5' A:A7 1.6 0.0 1.0
C5' A:A7 2.7 0.0 1.0
C3' A:A6 2.7 0.0 1.0
H5'' A:A7 2.8 0.0 1.0
H3' A:A6 2.8 0.0 1.0
H5' A:A7 3.0 0.0 1.0
O2' A:A6 3.2 0.0 1.0
HO2' A:A6 3.3 0.0 1.0
C2' A:A6 3.4 0.0 1.0
H2' A:A6 3.7 0.0 1.0
C4' A:A6 4.0 0.0 1.0
C4' A:A7 4.0 0.0 1.0
H4' A:A6 4.1 0.0 1.0
H5'' A:A6 4.2 0.0 1.0
H4' A:A7 4.3 0.0 1.0
O4' A:A7 4.3 0.0 1.0
C5' A:A6 4.7 0.0 1.0
C1' A:A6 4.8 0.0 1.0
H8 A:A7 4.8 0.0 1.0
O4' A:A6 5.0 0.0 1.0

Phosphorus binding site 7 out of 20 in 17ra

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Phosphorus binding site 7 out of 20 in the Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, 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 Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P8

b:0.0
occ:1.00
P A:G8 0.0 0.0 1.0
OP2 A:G8 1.5 0.0 1.0
OP1 A:G8 1.5 0.0 1.0
O3' A:A7 1.6 0.0 1.0
O5' A:G8 1.6 0.0 1.0
C5' A:G8 2.7 0.0 1.0
C3' A:A7 2.7 0.0 1.0
H3' A:A7 2.8 0.0 1.0
H5' A:G8 2.8 0.0 1.0
H5'' A:G8 3.0 0.0 1.0
C2' A:A7 3.5 0.0 1.0
H2' A:A7 3.5 0.0 1.0
H8 A:G8 3.7 0.0 1.0
O2' A:A7 3.8 0.0 1.0
C4' A:A7 3.9 0.0 1.0
H5' A:A7 4.0 0.0 1.0
C4' A:G8 4.0 0.0 1.0
H4' A:A7 4.2 0.0 1.0
O4' A:G8 4.2 0.0 1.0
HO2' A:A7 4.2 0.0 1.0
H3' A:G8 4.4 0.0 1.0
C5' A:A7 4.4 0.0 1.0
H5'' A:A7 4.7 0.0 1.0
H4' A:G8 4.7 0.0 1.0
C8 A:G8 4.8 0.0 1.0
C3' A:G8 4.8 0.0 1.0
C1' A:A7 4.9 0.0 1.0

Phosphorus binding site 8 out of 20 in 17ra

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Phosphorus binding site 8 out of 20 in the Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, 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 Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P9

b:0.0
occ:1.00
P A:G9 0.0 0.0 1.0
OP1 A:G9 1.5 0.0 1.0
OP2 A:G9 1.5 0.0 1.0
O5' A:G9 1.6 0.0 1.0
O3' A:G8 1.6 0.0 1.0
C5' A:G9 2.7 0.0 1.0
C3' A:G8 2.7 0.0 1.0
H3' A:G8 2.8 0.0 1.0
H5' A:G9 2.8 0.0 1.0
H5'' A:G9 3.0 0.0 1.0
H2' A:G8 3.5 0.0 1.0
C2' A:G8 3.5 0.0 1.0
H8 A:G9 3.6 0.0 1.0
O2' A:G8 3.8 0.0 1.0
H5'' A:G8 3.9 0.0 1.0
C4' A:G8 4.0 0.0 1.0
C4' A:G9 4.0 0.0 1.0
O4' A:G9 4.2 0.0 1.0
H4' A:G8 4.2 0.0 1.0
H3' A:G9 4.4 0.0 1.0
C5' A:G8 4.5 0.0 1.0
HO2' A:G8 4.5 0.0 1.0
C8 A:G9 4.7 0.0 1.0
H4' A:G9 4.7 0.0 1.0
C3' A:G9 4.8 0.0 1.0
C1' A:G8 4.9 0.0 1.0

Phosphorus binding site 9 out of 20 in 17ra

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Phosphorus binding site 9 out of 20 in the Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, 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 Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, uc(Nmr), 12 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:G9 1.6 0.0 1.0
C5' A:A10 2.7 0.0 1.0
C3' A:G9 2.7 0.0 1.0
H3' A:G9 2.7 0.0 1.0
H5' A:A10 2.7 0.0 1.0
H5'' A:A10 3.2 0.0 1.0
H5'' A:G9 3.4 0.0 1.0
H8 A:A10 3.6 0.0 1.0
C2' A:G9 3.7 0.0 1.0
C4' A:G9 3.8 0.0 1.0
H2' A:G9 3.8 0.0 1.0
C4' A:A10 3.9 0.0 1.0
O4' A:A10 4.0 0.0 1.0
H4' A:G9 4.1 0.0 1.0
C5' A:G9 4.1 0.0 1.0
O2' A:G9 4.2 0.0 1.0
H3' A:A10 4.4 0.0 1.0
C8 A:A10 4.6 0.0 1.0
HO2' A:G9 4.6 0.0 1.0
H4' A:A10 4.6 0.0 1.0
C3' A:A10 4.8 0.0 1.0
O5' A:G9 4.8 0.0 1.0
O4' A:G9 5.0 0.0 1.0
H5' A:G9 5.0 0.0 1.0
C1' A:G9 5.0 0.0 1.0

Phosphorus binding site 10 out of 20 in 17ra

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Phosphorus binding site 10 out of 20 in the Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, 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 Branchpoint Helix From Yeast and Binding Site For Phage Ga/MS2 Coat Proteins, uc(Nmr), 12 Structures within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P11

b:0.0
occ:1.00
P A:U11 0.0 0.0 1.0
OP2 A:U11 1.5 0.0 1.0
OP1 A:U11 1.5 0.0 1.0
O5' A:U11 1.6 0.0 1.0
O3' A:A10 1.6 0.0 1.0
C3' A:A10 2.7 0.0 1.0
C5' A:U11 2.7 0.0 1.0
H5'' A:U11 2.7 0.0 1.0
H3' A:A10 2.8 0.0 1.0
H5' A:U11 3.3 0.0 1.0
H3' A:U11 3.3 0.0 1.0
H2' A:A10 3.4 0.0 1.0
C2' A:A10 3.4 0.0 1.0
H2' A:U11 3.4 0.0 1.0
H6 A:U11 3.5 0.0 1.0
O2' A:A10 3.7 0.0 1.0
C4' A:U11 3.9 0.0 1.0
C3' A:U11 3.9 0.0 1.0
C4' A:A10 4.0 0.0 1.0
H5'' A:A10 4.1 0.0 1.0
HO2' A:A10 4.1 0.0 1.0
C2' A:U11 4.2 0.0 1.0
H4' A:A10 4.2 0.0 1.0
C5' A:A10 4.6 0.0 1.0
C6 A:U11 4.6 0.0 1.0
H4' A:U11 4.6 0.0 1.0
O4' A:U11 4.7 0.0 1.0
C1' A:A10 4.8 0.0 1.0
C1' A:U11 5.0 0.0 1.0

Reference:

J.S.Smith, E.P.Nikonowicz. uc(Nmr) Structure and Dynamics of An Rna Motif Common to the Spliceosome Branch-Point Helix and the Rna-Binding Site For Phage Ga Coat Protein. Biochemistry V. 37 13486 1998.
ISSN: ISSN 0006-2960
PubMed: 9753434
DOI: 10.1021/BI981558A
Page generated: Fri Sep 25 11:45:24 2020

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