Phosphorus in PDB 1ag5: The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure

Phosphorus Binding Sites:

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>>> Page 1 <<< Page 2, Binding sites: 11 - 19;

Binding sites:

The binding sites of Phosphorus atom in the The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure (pdb code 1ag5). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 19 binding sites of Phosphorus where determined in the The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure, PDB code: 1ag5:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 19 in 1ag5

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Phosphorus binding site 1 out of 19 in the The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P2

b:1.4
occ:1.00
P A:DC2 0.0 1.4 1.0
OP2 A:DC2 1.5 1.9 1.0
OP1 A:DC2 1.5 2.0 1.0
O5' A:DC2 1.6 1.2 1.0
O3' A:DC1 1.6 1.4 1.0
C5' A:DC2 2.6 1.1 1.0
C3' A:DC1 2.6 1.3 1.0
H5' A:DC2 2.7 1.2 1.0
H2'' A:DC1 2.8 1.1 1.0
H3' A:DC1 2.9 1.4 1.0
H5'' A:DC2 3.0 1.1 1.0
C2' A:DC1 3.2 1.1 1.0
H2' A:DC1 3.7 1.1 1.0
C4' A:DC2 3.9 0.9 1.0
H3' A:DC2 3.9 0.9 1.0
C4' A:DC1 4.0 1.4 1.0
H6 A:DC2 4.0 0.9 1.0
H4' A:DC1 4.0 1.5 1.0
O4' A:DC2 4.2 0.8 1.0
C3' A:DC2 4.5 0.8 1.0
C1' A:DC1 4.5 1.1 1.0
H5'' A:DC1 4.6 1.8 1.0
H1' A:DC1 4.7 1.1 1.0
H4' A:DC2 4.7 0.9 1.0
O4' A:DC1 4.8 1.3 1.0
C5' A:DC1 4.9 1.5 1.0
C6 A:DC2 4.9 0.8 1.0

Phosphorus binding site 2 out of 19 in 1ag5

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Phosphorus binding site 2 out of 19 in the The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P3

b:1.1
occ:1.00
P A:DA3 0.0 1.1 1.0
OP2 A:DA3 1.5 2.0 1.0
OP1 A:DA3 1.5 1.7 1.0
O3' A:DC2 1.6 0.8 1.0
O5' A:DA3 1.6 0.9 1.0
H2'' A:DC2 2.5 0.6 1.0
C5' A:DA3 2.6 0.8 1.0
C3' A:DC2 2.6 0.8 1.0
H5'' A:DA3 2.7 1.1 1.0
C2' A:DC2 3.0 0.7 1.0
H3' A:DC2 3.0 0.9 1.0
H3' A:DA3 3.1 0.7 1.0
H5' A:DA3 3.2 1.0 1.0
H8 A:DA3 3.4 0.6 1.0
H2' A:DC2 3.5 0.7 1.0
C4' A:DA3 3.8 0.7 1.0
C3' A:DA3 3.9 0.6 1.0
C4' A:DC2 3.9 0.9 1.0
H4' A:DC2 4.0 0.9 1.0
H2' A:DA3 4.1 0.6 1.0
C1' A:DC2 4.3 0.7 1.0
H1' A:DC2 4.4 0.6 1.0
C8 A:DA3 4.4 0.6 1.0
C2' A:DA3 4.5 0.6 1.0
H4' A:DA3 4.6 0.8 1.0
O4' A:DA3 4.6 0.7 1.0
H5'' A:DC2 4.7 1.1 1.0
O4' A:DC2 4.8 0.8 1.0
C5' A:DC2 4.9 1.1 1.0

Phosphorus binding site 3 out of 19 in 1ag5

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Phosphorus binding site 3 out of 19 in the The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 3 of The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P4

b:1.0
occ:1.00
P A:DT4 0.0 1.0 1.0
OP2 A:DT4 1.5 2.1 1.0
OP1 A:DT4 1.5 1.9 1.0
O3' A:DA3 1.6 0.7 1.0
O5' A:DT4 1.6 0.8 1.0
H2'' A:DA3 2.4 0.6 1.0
H3' A:DT4 2.5 0.8 1.0
C5' A:DT4 2.6 0.7 1.0
H5'' A:DT4 2.7 0.8 1.0
C3' A:DA3 2.7 0.6 1.0
C2' A:DA3 3.0 0.6 1.0
H3' A:DA3 3.2 0.7 1.0
C3' A:DT4 3.4 0.7 1.0
H5' A:DT4 3.5 1.0 1.0
C4' A:DT4 3.5 0.7 1.0
H2' A:DT4 3.7 0.6 1.0
H2' A:DA3 3.7 0.6 1.0
C4' A:DA3 3.9 0.7 1.0
H4' A:DA3 3.9 0.8 1.0
H1' A:DA3 4.0 0.6 1.0
C1' A:DA3 4.1 0.6 1.0
C2' A:DT4 4.1 0.6 1.0
O4' A:DT4 4.3 0.6 1.0
H4' A:DT4 4.4 0.7 1.0
O3' A:DT4 4.4 0.7 1.0
O4' A:DA3 4.5 0.7 1.0
C1' A:DT4 4.8 0.6 1.0
H6 A:DT4 5.0 0.5 1.0
H2'' A:DT4 5.0 0.6 1.0

Phosphorus binding site 4 out of 19 in 1ag5

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Phosphorus binding site 4 out of 19 in the The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 4 of The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P5

b:1.1
occ:1.00
P A:DC5 0.0 1.1 1.0
OP2 A:DC5 1.5 2.2 1.0
OP1 A:DC5 1.5 1.4 1.0
O5' A:DC5 1.6 1.0 1.0
O3' A:DT4 1.6 0.7 1.0
H2'' A:DT4 2.5 0.6 1.0
C5' A:DC5 2.6 0.6 1.0
H5'' A:DC5 2.7 0.9 1.0
C3' A:DT4 2.7 0.7 1.0
H3' A:DC5 3.0 0.7 1.0
C2' A:DT4 3.0 0.6 1.0
H1' A:DT4 3.1 0.5 1.0
H4' A:DT4 3.1 0.7 1.0
H5' A:DC5 3.3 0.9 1.0
H6 A:DC5 3.4 0.5 1.0
C4' A:DT4 3.4 0.7 1.0
C1' A:DT4 3.5 0.6 1.0
H3' A:DT4 3.5 0.8 1.0
H6A A:AFN11 3.7 0.5 1.0
C4' A:DC5 3.8 0.6 1.0
C3' A:DC5 3.8 0.6 1.0
H2' A:DC5 3.9 0.5 1.0
H2' A:DT4 4.0 0.6 1.0
O4' A:DT4 4.0 0.6 1.0
C2' A:DC5 4.4 0.5 1.0
C6 A:DC5 4.5 0.5 1.0
O4' A:DC5 4.5 0.5 1.0
C6A A:AFN11 4.6 0.5 1.0
H4' A:DC5 4.6 0.6 1.0
C5' A:DT4 4.8 0.7 1.0
O6A A:AFN11 4.8 0.5 1.0
H5'' A:DT4 4.8 0.8 1.0
N1 A:DT4 4.9 0.5 1.0
C1' A:DC5 5.0 0.5 1.0
OP2 A:DG6 5.0 1.9 1.0
O3' A:DC5 5.0 0.7 1.0

Phosphorus binding site 5 out of 19 in 1ag5

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Phosphorus binding site 5 out of 19 in the The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P6

b:0.8
occ:1.00
P A:DG6 0.0 0.8 1.0
OP1 A:DG6 1.5 1.0 1.0
OP2 A:DG6 1.5 1.9 1.0
O3' A:DC5 1.6 0.7 1.0
O5' A:DG6 1.6 0.9 1.0
C3' A:DC5 2.6 0.6 1.0
C5' A:DG6 2.6 0.5 1.0
H5'' A:DG6 2.8 0.8 1.0
H3' A:DC5 2.8 0.7 1.0
H2'' A:DC5 2.9 0.4 1.0
H5' A:DG6 3.0 1.0 1.0
C2' A:DC5 3.3 0.5 1.0
H3' A:DG6 3.6 0.5 1.0
H2' A:DC5 3.8 0.5 1.0
C4' A:DC5 3.9 0.6 1.0
C4' A:DG6 3.9 0.5 1.0
H4' A:DC5 4.0 0.6 1.0
C3' A:DG6 4.3 0.5 1.0
C1' A:DC5 4.5 0.5 1.0
H8 A:DG6 4.5 0.5 1.0
O4' A:DG6 4.5 0.6 1.0
H1' A:DC5 4.6 0.5 1.0
H5'' A:DC5 4.7 0.9 1.0
H2' A:DG6 4.7 0.5 1.0
H4' A:DG6 4.8 0.5 1.0
O4' A:DC5 4.8 0.5 1.0
C5' A:DC5 4.9 0.6 1.0
H5B A:AFN11 4.9 0.5 1.0
O6A A:AFN11 5.0 0.5 1.0

Phosphorus binding site 6 out of 19 in 1ag5

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Phosphorus binding site 6 out of 19 in the The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 6 of The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P7

b:0.9
occ:1.00
P A:DA7 0.0 0.9 1.0
OP2 A:DA7 1.5 2.1 1.0
OP1 A:DA7 1.5 1.5 1.0
O3' A:DG6 1.6 0.5 1.0
O5' A:DA7 1.6 0.8 1.0
H2'' A:DG6 2.4 0.5 1.0
H3' A:DA7 2.5 0.6 1.0
C5' A:DA7 2.6 0.6 1.0
H5'' A:DA7 2.7 0.7 1.0
C3' A:DG6 2.7 0.5 1.0
C2' A:DG6 3.0 0.5 1.0
H3' A:DG6 3.2 0.5 1.0
C3' A:DA7 3.4 0.5 1.0
H5' A:DA7 3.4 1.0 1.0
C4' A:DA7 3.6 0.5 1.0
H2' A:DG6 3.7 0.5 1.0
H4' A:DG6 3.8 0.5 1.0
H1' A:DG6 3.8 0.6 1.0
C4' A:DG6 3.8 0.5 1.0
C1' A:DG6 4.0 0.5 1.0
H2' A:DA7 4.1 0.4 1.0
H8 A:DA7 4.2 0.4 1.0
O3' A:DA7 4.3 0.6 1.0
O4' A:DA7 4.3 0.5 1.0
C2' A:DA7 4.3 0.5 1.0
H4' A:DA7 4.4 0.6 1.0
O4' A:DG6 4.6 0.6 1.0
H5'' A:DG6 4.9 0.8 1.0
C1' A:DA7 4.9 0.4 1.0
C5' A:DG6 5.0 0.5 1.0

Phosphorus binding site 7 out of 19 in 1ag5

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Phosphorus binding site 7 out of 19 in the The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 7 of The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P8

b:0.6
occ:1.00
P A:DT8 0.0 0.6 1.0
OP2 A:DT8 1.5 1.7 1.0
OP1 A:DT8 1.5 1.3 1.0
O5' A:DT8 1.6 0.7 1.0
O3' A:DA7 1.6 0.6 1.0
H4' A:DA7 2.5 0.6 1.0
C5' A:DT8 2.6 0.7 1.0
C3' A:DA7 2.7 0.5 1.0
H5'' A:DT8 2.7 0.8 1.0
H2'' A:DA7 2.9 0.5 1.0
H5' A:DT8 3.1 0.7 1.0
C4' A:DA7 3.1 0.5 1.0
C2' A:DA7 3.3 0.5 1.0
H3' A:DT8 3.4 0.7 1.0
H3' A:DA7 3.6 0.6 1.0
H1' A:DA7 3.6 0.4 1.0
C1' A:DA7 3.8 0.4 1.0
O4' A:DA7 3.9 0.5 1.0
C4' A:DT8 3.9 0.6 1.0
H5'' A:DA7 4.2 0.7 1.0
C3' A:DT8 4.2 0.6 1.0
H2' A:DA7 4.2 0.4 1.0
C5' A:DA7 4.3 0.6 1.0
O4' A:DT8 4.6 0.5 1.0
H4' A:DT8 4.7 0.6 1.0
H5' A:DA7 4.9 1.0 1.0
H6 A:DT8 4.9 0.4 1.0

Phosphorus binding site 8 out of 19 in 1ag5

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Phosphorus binding site 8 out of 19 in the The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 8 of The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P9

b:1.2
occ:1.00
P A:DC9 0.0 1.2 1.0
OP1 A:DC9 1.5 2.2 1.0
OP2 A:DC9 1.5 2.0 1.0
O5' A:DC9 1.6 1.0 1.0
O3' A:DT8 1.6 0.7 1.0
H2'' A:DT8 2.5 0.5 1.0
C5' A:DC9 2.6 0.9 1.0
C3' A:DT8 2.7 0.6 1.0
H5'' A:DC9 2.8 1.4 1.0
H5' A:DC9 2.9 1.5 1.0
C2' A:DT8 3.0 0.5 1.0
H3' A:DT8 3.1 0.7 1.0
H2' A:DT8 3.6 0.5 1.0
H3' A:DC9 3.6 0.8 1.0
C4' A:DT8 3.9 0.6 1.0
H4' A:DT8 4.0 0.6 1.0
C4' A:DC9 4.0 0.6 1.0
H6 A:DC9 4.1 0.5 1.0
C1' A:DT8 4.3 0.4 1.0
H1' A:DT8 4.3 0.4 1.0
C3' A:DC9 4.4 0.7 1.0
O4' A:DC9 4.5 0.5 1.0
H4' A:DC9 4.8 0.7 1.0
O4' A:DT8 4.8 0.5 1.0
H5'' A:DT8 4.8 0.8 1.0
C5' A:DT8 4.9 0.7 1.0

Phosphorus binding site 9 out of 19 in 1ag5

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Phosphorus binding site 9 out of 19 in the The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 9 of The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P10

b:1.1
occ:1.00
P A:DC10 0.0 1.1 1.0
OP1 A:DC10 1.5 1.9 1.0
OP2 A:DC10 1.5 1.9 1.0
O5' A:DC10 1.6 1.2 1.0
O3' A:DC9 1.6 0.8 1.0
H2'' A:DC9 2.5 0.8 1.0
C5' A:DC10 2.7 1.4 1.0
C3' A:DC9 2.7 0.7 1.0
H5'' A:DC10 2.7 1.4 1.0
C2' A:DC9 3.0 0.7 1.0
H3' A:DC9 3.1 0.8 1.0
H5' A:DC10 3.1 1.7 1.0
H2' A:DC9 3.4 0.8 1.0
C4' A:DC10 3.9 1.3 1.0
C4' A:DC9 3.9 0.6 1.0
H4' A:DC9 4.0 0.7 1.0
O4' A:DC10 4.2 0.9 1.0
H6 A:DC10 4.2 1.0 1.0
H4' A:DC10 4.2 1.4 1.0
C1' A:DC9 4.3 0.5 1.0
H1' A:DC9 4.5 0.6 1.0
H5'' A:DC9 4.8 1.4 1.0
O4' A:DC9 4.8 0.5 1.0
C5' A:DC9 4.9 0.9 1.0

Phosphorus binding site 10 out of 19 in 1ag5

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Phosphorus binding site 10 out of 19 in the The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 10 of The Solution Structure of An Aflatoxin B1 Epoxide Adduct at the N7 Position of Guanine Opposite An Adenine in the Complementary Strand of An Oligodeoxynucleotide Duplex, uc(Nmr), Minimized Average Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P12

b:1.9
occ:1.00
P B:DG12 0.0 1.9 1.0
OP2 B:DG12 1.5 3.0 1.0
OP1 B:DG12 1.5 2.1 1.0
O3' B:DG11 1.6 1.5 1.0
O5' B:DG12 1.6 1.6 1.0
C3' B:DG11 2.6 1.5 1.0
C5' B:DG12 2.6 1.1 1.0
H3' B:DG11 2.7 1.6 1.0
H5' B:DG12 2.9 1.2 1.0
H5'' B:DG12 2.9 1.4 1.0
H4' B:DG11 3.2 1.8 1.0
C4' B:DG11 3.4 1.7 1.0
H5'' B:DG11 3.6 2.1 1.0
H3' B:DG12 3.8 1.0 1.0
C2' B:DG11 3.9 1.4 1.0
H2'' B:DG11 3.9 1.5 1.0
C4' B:DG12 4.0 0.9 1.0
C5' B:DG11 4.1 2.0 1.0
H8 B:DG12 4.2 0.7 1.0
H2' B:DG11 4.4 1.4 1.0
C3' B:DG12 4.4 0.9 1.0
O4' B:DG12 4.4 0.8 1.0
O4' B:DG11 4.7 1.8 1.0
HO5' B:DG11 4.7 2.4 1.0
H4' B:DG12 4.8 0.9 1.0
H5' B:DG11 4.9 2.6 1.0
C1' B:DG11 4.9 1.6 1.0
O5' B:DG11 5.0 2.3 1.0

Reference:

D.S.Johnston, M.P.Stone. Refined Solution Structure of 8,9-Dihydro-8-(N7-Guanyl)-9-Hydroxyaflatoxin B1 Opposite Cpa in the Complementary Strand of An Oligodeoxynucleotide Duplex As Determined By 1H uc(Nmr). Biochemistry V. 34 14037 1995.
ISSN: ISSN 0006-2960
PubMed: 7578001
DOI: 10.1021/BI00043A009
Page generated: Fri Sep 25 12:49:55 2020

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