Phosphorus in PDB 146d: Solution Structure of the Mithramycin Dimer-Dna Complex

Phosphorus Binding Sites:

The binding sites of Phosphorus atom in the Solution Structure of the Mithramycin Dimer-Dna Complex (pdb code 146d). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 10 binding sites of Phosphorus where determined in the Solution Structure of the Mithramycin Dimer-Dna Complex, PDB code: 146d:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 10 in 146d

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Phosphorus binding site 1 out of 10 in the Solution Structure of the Mithramycin Dimer-Dna Complex


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A full contact list of Phosphorus with other atoms in the P binding site number 1 of Solution Structure of the Mithramycin Dimer-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P2

b:0.2
occ:1.00
P A:DC2 0.0 0.2 1.0
OP1 A:DC2 1.5 0.3 1.0
OP2 A:DC2 1.5 0.3 1.0
O5' A:DC2 1.6 0.2 1.0
O3' A:DT1 1.6 0.2 1.0
C3' A:DT1 2.7 0.2 1.0
C5' A:DC2 2.7 0.2 1.0
H3' A:DT1 2.8 0.2 1.0
H5' A:DC2 2.8 0.2 1.0
H5'' A:DC2 3.1 0.3 1.0
H6 A:DC2 3.2 0.3 1.0
H2' A:DT1 3.3 0.3 1.0
C2' A:DT1 3.4 0.2 1.0
H2'' A:DT1 3.7 0.3 1.0
C4' A:DC2 4.0 0.2 1.0
C4' A:DT1 4.0 0.2 1.0
H3' A:DC2 4.0 0.2 1.0
H5'' A:DT1 4.2 0.3 1.0
O4' A:DC2 4.2 0.2 1.0
H4' A:DT1 4.3 0.2 1.0
C6 A:DC2 4.3 0.2 1.0
H5 A:DC2 4.5 0.4 1.0
C5' A:DT1 4.6 0.2 1.0
C3' A:DC2 4.6 0.2 1.0
C1' A:DT1 4.8 0.3 1.0
H4' A:DC2 4.8 0.3 1.0
O5' A:DT1 4.9 0.3 1.0
C5 A:DC2 4.9 0.3 1.0

Phosphorus binding site 2 out of 10 in 146d

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Phosphorus binding site 2 out of 10 in the Solution Structure of the Mithramycin Dimer-Dna Complex


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Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of Solution Structure of the Mithramycin Dimer-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P3

b:0.3
occ:1.00
P A:DG3 0.0 0.3 1.0
OP1 A:DG3 1.5 0.4 1.0
OP2 A:DG3 1.5 0.4 1.0
O5' A:DG3 1.6 0.3 1.0
O3' A:DC2 1.6 0.3 1.0
C5' A:DG3 2.7 0.2 1.0
C3' A:DC2 2.7 0.2 1.0
H3' A:DC2 2.9 0.2 1.0
H5' A:DG3 2.9 0.2 1.0
H5'' A:DG3 3.0 0.3 1.0
H8 A:DG3 3.1 0.2 1.0
H2' A:DC2 3.3 0.2 1.0
C2' A:DC2 3.4 0.2 1.0
H2' A:DG3 3.5 0.2 1.0
H2'' A:DC2 3.8 0.2 1.0
C4' A:DC2 4.0 0.2 1.0
C4' A:DG3 4.0 0.2 1.0
H5'' A:DC2 4.1 0.3 1.0
C8 A:DG3 4.1 0.2 1.0
H4' A:DC2 4.1 0.3 1.0
O4' A:DG3 4.3 0.2 1.0
C2' A:DG3 4.4 0.2 1.0
H3' A:DG3 4.4 0.2 1.0
C5' A:DC2 4.5 0.2 1.0
C3' A:DG3 4.6 0.2 1.0
C1' A:DC2 4.8 0.2 1.0
H4' A:DG3 4.8 0.2 1.0
C1' A:DG3 4.8 0.2 1.0
HO3 A:DDA7 4.8 0.5 1.0
N9 A:DG3 4.8 0.2 1.0
O5' A:DC2 4.9 0.2 1.0

Phosphorus binding site 3 out of 10 in 146d

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Phosphorus binding site 3 out of 10 in the Solution Structure of the Mithramycin Dimer-Dna Complex


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Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 3 of Solution Structure of the Mithramycin Dimer-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P4

b:0.2
occ:1.00
P A:DC4 0.0 0.2 1.0
OP1 A:DC4 1.5 0.2 1.0
OP2 A:DC4 1.5 0.2 1.0
O5' A:DC4 1.6 0.2 1.0
O3' A:DG3 1.6 0.2 1.0
C5' A:DC4 2.6 0.2 1.0
C3' A:DG3 2.7 0.2 1.0
H5' A:DC4 2.8 0.3 1.0
H3' A:DG3 2.8 0.2 1.0
H5'' A:DC4 3.0 0.2 1.0
H2'' A:DG3 3.0 0.2 1.0
H3 A:DDA7 3.2 0.3 1.0
C2' A:DG3 3.3 0.2 1.0
H5 A:DDA7 3.4 0.5 1.0
HO4 A:DDA7 3.5 0.8 1.0
H1 A:DDA7 3.6 0.4 1.0
H1' A:DG3 3.7 0.2 1.0
H6 A:DC4 3.9 0.3 1.0
C4' A:DC4 4.0 0.2 1.0
C4' A:DG3 4.0 0.2 1.0
H4' A:DG3 4.1 0.2 1.0
H3' A:DC4 4.1 0.2 1.0
C1' A:DG3 4.1 0.2 1.0
H22 A:DDA8 4.1 0.4 1.0
C3 A:DDA7 4.2 0.3 1.0
H2' A:DG3 4.2 0.2 1.0
O4 A:DDA7 4.4 0.7 1.0
O4' A:DC4 4.4 0.2 1.0
C5 A:DDA7 4.4 0.4 1.0
C3' A:DC4 4.5 0.2 1.0
C4 A:DDA7 4.6 0.4 1.0
C1 A:DDA7 4.6 0.4 1.0
O4' A:DG3 4.6 0.2 1.0
H152 A:CRH9 4.7 0.3 1.0
HO3 A:DDA7 4.8 0.5 1.0
H4' A:DC4 4.8 0.2 1.0
C2 A:DDA7 4.9 0.4 1.0
H22 A:DDA7 4.9 0.4 1.0
C6 A:DC4 5.0 0.2 1.0

Phosphorus binding site 4 out of 10 in 146d

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Phosphorus binding site 4 out of 10 in the Solution Structure of the Mithramycin Dimer-Dna Complex


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A full contact list of Phosphorus with other atoms in the P binding site number 4 of Solution Structure of the Mithramycin Dimer-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P5

b:0.2
occ:1.00
P A:DG5 0.0 0.2 1.0
OP1 A:DG5 1.5 0.2 1.0
OP2 A:DG5 1.5 0.2 1.0
O5' A:DG5 1.6 0.2 1.0
O3' A:DC4 1.6 0.2 1.0
C5' A:DG5 2.7 0.2 1.0
C3' A:DC4 2.7 0.2 1.0
H3' A:DC4 2.9 0.2 1.0
H5' A:DG5 2.9 0.2 1.0
H5'' A:DG5 2.9 0.2 1.0
H2' A:DC4 3.3 0.2 1.0
C2' A:DC4 3.4 0.2 1.0
H2'' A:DC4 3.5 0.2 1.0
H2' A:DG5 3.6 0.2 1.0
H8 A:DG5 3.6 0.2 1.0
C4' A:DC4 4.0 0.2 1.0
C4' A:DG5 4.0 0.2 1.0
H4' A:DC4 4.1 0.2 1.0
H3' A:DG5 4.1 0.2 1.0
H5'' A:DC4 4.2 0.2 1.0
H4' A:CRH9 4.2 0.6 1.0
H4'1 A:CRH9 4.4 0.8 1.0
C3' A:DG5 4.4 0.2 1.0
C2' A:DG5 4.4 0.2 1.0
O4' A:DG5 4.5 0.2 1.0
C5' A:DC4 4.6 0.2 1.0
C8 A:DG5 4.6 0.2 1.0
H4' A:DG5 4.8 0.2 1.0
C1' A:DC4 4.8 0.2 1.0
H3 A:CRH9 4.9 0.2 1.0
O5' A:DC4 4.9 0.2 1.0
HO4 A:CRH9 4.9 0.9 1.0
C1' A:DG5 5.0 0.2 1.0

Phosphorus binding site 5 out of 10 in 146d

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Phosphorus binding site 5 out of 10 in the Solution Structure of the Mithramycin Dimer-Dna Complex


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Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of Solution Structure of the Mithramycin Dimer-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P6

b:0.3
occ:1.00
P A:DA6 0.0 0.3 1.0
OP1 A:DA6 1.5 0.5 1.0
OP2 A:DA6 1.5 0.4 1.0
O5' A:DA6 1.6 0.3 1.0
O3' A:DG5 1.6 0.3 1.0
C3' A:DG5 2.6 0.2 1.0
C5' A:DA6 2.7 0.3 1.0
H3' A:DG5 2.7 0.2 1.0
H21 A:DDA10 2.8 0.4 1.0
H5' A:DA6 2.9 0.3 1.0
H5'' A:DA6 3.1 0.3 1.0
H2'' A:DG5 3.2 0.3 1.0
C2' A:DG5 3.5 0.2 1.0
HO4 A:CRH9 3.5 0.9 1.0
C2 A:DDA10 3.8 0.3 1.0
H2' A:DA6 3.8 0.2 1.0
H22 A:DDA10 3.9 0.4 1.0
C4' A:DA6 3.9 0.2 1.0
C4' A:DG5 3.9 0.2 1.0
H4' A:DG5 4.0 0.2 1.0
H1' A:DG5 4.0 0.3 1.0
H3' A:DA6 4.0 0.2 1.0
O4' A:CRH9 4.2 0.7 1.0
O1 A:DDL11 4.3 0.3 1.0
C1' A:DG5 4.3 0.2 1.0
H2' A:DG5 4.4 0.2 1.0
C3' A:DA6 4.4 0.2 1.0
O4' A:DA6 4.4 0.3 1.0
O1 A:DDA10 4.4 0.3 1.0
C2' A:DA6 4.6 0.2 1.0
C3 A:DDA10 4.7 0.3 1.0
O4' A:DG5 4.7 0.2 1.0
C1 A:DDA10 4.7 0.2 1.0
H4' A:DA6 4.8 0.2 1.0
H5'' A:DG5 4.8 0.2 1.0
H22 A:DDL11 4.9 0.3 1.0
H21 A:DDL11 4.9 0.2 1.0
C5' A:DG5 5.0 0.2 1.0

Phosphorus binding site 6 out of 10 in 146d

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Phosphorus binding site 6 out of 10 in the Solution Structure of the Mithramycin Dimer-Dna Complex


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Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 6 of Solution Structure of the Mithramycin Dimer-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P8

b:0.2
occ:1.00
P B:DC8 0.0 0.2 1.0
OP1 B:DC8 1.5 0.3 1.0
OP2 B:DC8 1.5 0.3 1.0
O5' B:DC8 1.6 0.3 1.0
O3' B:DT7 1.6 0.2 1.0
C3' B:DT7 2.7 0.2 1.0
C5' B:DC8 2.7 0.3 1.0
H3' B:DT7 2.8 0.2 1.0
H5' B:DC8 2.8 0.3 1.0
H5'' B:DC8 3.1 0.4 1.0
H6 B:DC8 3.2 0.2 1.0
H2' B:DT7 3.3 0.3 1.0
C2' B:DT7 3.4 0.2 1.0
H2'' B:DT7 3.7 0.3 1.0
C4' B:DC8 4.0 0.2 1.0
C4' B:DT7 4.0 0.2 1.0
H3' B:DC8 4.0 0.3 1.0
H5'' B:DT7 4.2 0.4 1.0
O4' B:DC8 4.2 0.2 1.0
H4' B:DT7 4.3 0.3 1.0
C6 B:DC8 4.3 0.2 1.0
H5 B:DC8 4.5 0.4 1.0
C5' B:DT7 4.6 0.3 1.0
C3' B:DC8 4.6 0.2 1.0
C1' B:DT7 4.8 0.3 1.0
H4' B:DC8 4.8 0.3 1.0
O5' B:DT7 4.9 0.4 1.0
C5 B:DC8 4.9 0.3 1.0

Phosphorus binding site 7 out of 10 in 146d

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Phosphorus binding site 7 out of 10 in the Solution Structure of the Mithramycin Dimer-Dna Complex


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Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 7 of Solution Structure of the Mithramycin Dimer-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P9

b:0.3
occ:1.00
P B:DG9 0.0 0.3 1.0
OP1 B:DG9 1.5 0.4 1.0
OP2 B:DG9 1.5 0.4 1.0
O5' B:DG9 1.6 0.3 1.0
O3' B:DC8 1.6 0.3 1.0
C5' B:DG9 2.7 0.2 1.0
C3' B:DC8 2.7 0.2 1.0
H3' B:DC8 2.9 0.3 1.0
H5' B:DG9 2.9 0.2 1.0
H5'' B:DG9 3.0 0.3 1.0
H8 B:DG9 3.1 0.2 1.0
H2' B:DC8 3.3 0.2 1.0
C2' B:DC8 3.4 0.2 1.0
H2' B:DG9 3.5 0.2 1.0
H2'' B:DC8 3.8 0.2 1.0
C4' B:DC8 4.0 0.2 1.0
C4' B:DG9 4.0 0.2 1.0
H5'' B:DC8 4.1 0.4 1.0
C8 B:DG9 4.1 0.2 1.0
H4' B:DC8 4.1 0.3 1.0
O4' B:DG9 4.3 0.2 1.0
C2' B:DG9 4.4 0.1 1.0
H3' B:DG9 4.4 0.2 1.0
C5' B:DC8 4.5 0.3 1.0
C3' B:DG9 4.6 0.1 1.0
C1' B:DC8 4.8 0.2 1.0
H4' B:DG9 4.8 0.2 1.0
C1' B:DG9 4.8 0.2 1.0
HO3 B:DDA1 4.8 0.6 1.0
N9 B:DG9 4.8 0.2 1.0
O5' B:DC8 4.9 0.3 1.0

Phosphorus binding site 8 out of 10 in 146d

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Phosphorus binding site 8 out of 10 in the Solution Structure of the Mithramycin Dimer-Dna Complex


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Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 8 of Solution Structure of the Mithramycin Dimer-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P10

b:0.2
occ:1.00
P B:DC10 0.0 0.2 1.0
OP1 B:DC10 1.5 0.3 1.0
OP2 B:DC10 1.5 0.3 1.0
O5' B:DC10 1.6 0.2 1.0
O3' B:DG9 1.6 0.1 1.0
C5' B:DC10 2.6 0.2 1.0
C3' B:DG9 2.7 0.1 1.0
H5' B:DC10 2.8 0.3 1.0
H3' B:DG9 2.8 0.2 1.0
H5'' B:DC10 3.0 0.2 1.0
H2'' B:DG9 3.0 0.2 1.0
H3 B:DDA1 3.2 0.4 1.0
C2' B:DG9 3.3 0.1 1.0
H5 B:DDA1 3.4 0.6 1.0
HO4 B:DDA1 3.5 0.9 1.0
H1 B:DDA1 3.6 0.4 1.0
H1' B:DG9 3.7 0.2 1.0
H6 B:DC10 3.9 0.2 1.0
C4' B:DC10 4.0 0.2 1.0
C4' B:DG9 4.0 0.2 1.0
H4' B:DG9 4.1 0.2 1.0
H3' B:DC10 4.1 0.2 1.0
C1' B:DG9 4.1 0.2 1.0
H22 B:DDA2 4.1 0.4 1.0
H2' B:DG9 4.2 0.2 1.0
C3 B:DDA1 4.2 0.4 1.0
O4' B:DC10 4.4 0.2 1.0
O4 B:DDA1 4.4 0.7 1.0
C5 B:DDA1 4.4 0.5 1.0
C3' B:DC10 4.5 0.1 1.0
O4' B:DG9 4.6 0.2 1.0
C1 B:DDA1 4.6 0.4 1.0
C4 B:DDA1 4.6 0.5 1.0
H152 B:CRH3 4.7 0.3 1.0
H4' B:DC10 4.8 0.2 1.0
HO3 B:DDA1 4.8 0.6 1.0
C2 B:DDA1 4.9 0.4 1.0
H22 B:DDA1 4.9 0.4 1.0
C6 B:DC10 5.0 0.2 1.0

Phosphorus binding site 9 out of 10 in 146d

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Phosphorus binding site 9 out of 10 in the Solution Structure of the Mithramycin Dimer-Dna Complex


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Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 9 of Solution Structure of the Mithramycin Dimer-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P11

b:0.2
occ:1.00
P B:DG11 0.0 0.2 1.0
OP2 B:DG11 1.5 0.2 1.0
OP1 B:DG11 1.5 0.3 1.0
O5' B:DG11 1.6 0.2 1.0
O3' B:DC10 1.6 0.2 1.0
C5' B:DG11 2.7 0.2 1.0
C3' B:DC10 2.7 0.1 1.0
H3' B:DC10 2.9 0.2 1.0
H5' B:DG11 2.9 0.2 1.0
H5'' B:DG11 2.9 0.2 1.0
H2' B:DC10 3.3 0.2 1.0
C2' B:DC10 3.4 0.2 1.0
H2'' B:DC10 3.5 0.2 1.0
H2' B:DG11 3.6 0.2 1.0
H8 B:DG11 3.6 0.2 1.0
C4' B:DC10 4.0 0.2 1.0
C4' B:DG11 4.0 0.2 1.0
H4' B:DC10 4.1 0.2 1.0
H3' B:DG11 4.1 0.2 1.0
H5'' B:DC10 4.2 0.2 1.0
H4' B:CRH3 4.2 0.6 1.0
H4'1 B:CRH3 4.4 0.8 1.0
C3' B:DG11 4.4 0.2 1.0
C2' B:DG11 4.4 0.2 1.0
O4' B:DG11 4.5 0.2 1.0
C5' B:DC10 4.6 0.2 1.0
C8 B:DG11 4.6 0.2 1.0
H4' B:DG11 4.8 0.2 1.0
C1' B:DC10 4.8 0.2 1.0
H3 B:CRH3 4.9 0.2 1.0
HO4 B:CRH3 4.9 0.9 1.0
O5' B:DC10 4.9 0.2 1.0
C1' B:DG11 5.0 0.2 1.0
C4M B:CRH3 5.0 0.6 1.0

Phosphorus binding site 10 out of 10 in 146d

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Phosphorus binding site 10 out of 10 in the Solution Structure of the Mithramycin Dimer-Dna Complex


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Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 10 of Solution Structure of the Mithramycin Dimer-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P12

b:0.3
occ:1.00
P B:DA12 0.0 0.3 1.0
OP1 B:DA12 1.5 0.5 1.0
OP2 B:DA12 1.5 0.4 1.0
O5' B:DA12 1.6 0.3 1.0
O3' B:DG11 1.6 0.3 1.0
C3' B:DG11 2.6 0.2 1.0
H3' B:DG11 2.7 0.2 1.0
C5' B:DA12 2.7 0.2 1.0
H21 B:DDA4 2.8 0.3 1.0
H5' B:DA12 2.9 0.3 1.0
H5'' B:DA12 3.1 0.3 1.0
H2'' B:DG11 3.2 0.3 1.0
C2' B:DG11 3.5 0.2 1.0
HO4 B:CRH3 3.5 0.9 1.0
C2 B:DDA4 3.8 0.3 1.0
H2' B:DA12 3.8 0.3 1.0
H22 B:DDA4 3.9 0.3 1.0
C4' B:DA12 3.9 0.2 1.0
C4' B:DG11 3.9 0.2 1.0
H1' B:DG11 4.0 0.3 1.0
H4' B:DG11 4.0 0.2 1.0
H3' B:DA12 4.0 0.3 1.0
O4' B:CRH3 4.2 0.6 1.0
O1 B:DDL5 4.3 0.2 1.0
C1' B:DG11 4.3 0.2 1.0
H2' B:DG11 4.4 0.2 1.0
C3' B:DA12 4.4 0.2 1.0
O4' B:DA12 4.4 0.3 1.0
O1 B:DDA4 4.5 0.2 1.0
C2' B:DA12 4.6 0.3 1.0
O4' B:DG11 4.7 0.2 1.0
C3 B:DDA4 4.7 0.2 1.0
C1 B:DDA4 4.8 0.2 1.0
H4' B:DA12 4.8 0.3 1.0
H5'' B:DG11 4.8 0.2 1.0
H21 B:DDL5 4.9 0.2 1.0
H22 B:DDL5 4.9 0.2 1.0
C5' B:DG11 5.0 0.2 1.0

Reference:

M.Sastry, D.J.Patel. Solution Structure of the Mithramycin Dimer-Dna Complex. Biochemistry V. 32 6588 1993.
ISSN: ISSN 0006-2960
PubMed: 8329387
DOI: 10.1021/BI00077A012
Page generated: Fri Sep 25 11:29:24 2020

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