Phosphorus in PDB 193d: Solution Structure of A Quinomycin Bisintercalator-Dna Complex

Phosphorus Binding Sites:

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>>> Page 1 <<< Page 2, Binding sites: 11 - 14;

Binding sites:

The binding sites of Phosphorus atom in the Solution Structure of A Quinomycin Bisintercalator-Dna Complex (pdb code 193d). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 14 binding sites of Phosphorus where determined in the Solution Structure of A Quinomycin Bisintercalator-Dna Complex, PDB code: 193d:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 14 in 193d

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Phosphorus binding site 1 out of 14 in the Solution Structure of A Quinomycin Bisintercalator-Dna Complex


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Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of Solution Structure of A Quinomycin Bisintercalator-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 0.2 1.0
OP2 A:DC2 1.5 0.2 1.0
O5' A:DC2 1.6 0.2 1.0
O3' A:DA1 1.6 0.2 1.0
C3' A:DA1 2.7 0.2 1.0
C5' A:DC2 2.7 0.2 1.0
H5'' A:DC2 2.8 0.3 1.0
H3' A:DA1 2.8 0.2 1.0
H2'' A:DA1 3.0 0.2 1.0
H5' A:DC2 3.0 0.3 1.0
C2' A:DA1 3.3 0.2 1.0
H3' A:DC2 3.8 0.4 1.0
C4' A:DA1 4.0 0.2 1.0
C4' A:DC2 4.0 0.2 1.0
H4' A:DA1 4.0 0.3 1.0
H2' A:DA1 4.1 0.2 1.0
H1' A:DA1 4.2 0.3 1.0
C1' A:DA1 4.3 0.2 1.0
C3' A:DC2 4.5 0.3 1.0
H4' A:DC2 4.7 0.3 1.0
O4' A:DA1 4.7 0.2 1.0
O4' A:DC2 4.7 0.3 1.0
H6 A:DC2 5.0 0.3 1.0

Phosphorus binding site 2 out of 14 in 193d

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Phosphorus binding site 2 out of 14 in the Solution Structure of A Quinomycin Bisintercalator-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 A Quinomycin Bisintercalator-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P3

b:0.2
occ:1.00
 P A:DA3 0.0 0.2 1.0
OP2 A:DA3 1.5 0.4 1.0
OP1 A:DA3 1.5 0.3 1.0
O5' A:DA3 1.6 0.3 1.0
O3' A:DC2 1.6 0.3 1.0
C5' A:DA3 2.6 0.2 1.0
H4' A:DC2 2.7 0.3 1.0
C3' A:DC2 2.7 0.3 1.0
H5' A:DA3 2.8 0.2 1.0
H2'' A:DC2 2.8 0.2 1.0
H5'' A:DA3 2.9 0.3 1.0
C2' A:DC2 3.2 0.2 1.0
H1' A:DC2 3.4 0.3 1.0
C4' A:DC2 3.4 0.2 1.0
H3' A:DC2 3.6 0.4 1.0
C1' A:DC2 3.7 0.2 1.0
C4' A:DA3 4.0 0.2 1.0
H3' A:DA3 4.0 0.2 1.0
O4' A:DC2 4.1 0.3 1.0
H2' A:DC2 4.2 0.3 1.0
O4' A:DA3 4.5 0.3 1.0
C5' A:DC2 4.6 0.2 1.0
C3' A:DA3 4.6 0.2 1.0
H5'' A:DC2 4.7 0.3 1.0
H4' A:DA3 4.7 0.3 1.0

Phosphorus binding site 3 out of 14 in 193d

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Phosphorus binding site 3 out of 14 in the Solution Structure of A Quinomycin Bisintercalator-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 A Quinomycin Bisintercalator-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 0.3 1.0
OP2 A:DC4 1.5 0.2 1.0
O3' A:DA3 1.6 0.2 1.0
O5' A:DC4 1.6 0.2 1.0
C3' A:DA3 2.7 0.2 1.0
C5' A:DC4 2.7 0.2 1.0
H5'' A:DC4 2.8 0.3 1.0
H3' A:DA3 2.9 0.2 1.0
H2'' A:DA3 3.0 0.3 1.0
H5' A:DC4 3.1 0.3 1.0
C2' A:DA3 3.3 0.3 1.0
H2' A:DA3 3.7 0.3 1.0
H3' A:DC4 3.7 0.2 1.0
C4' A:DA3 4.0 0.2 1.0
C4' A:DC4 4.0 0.1 1.0
H4' A:DA3 4.0 0.3 1.0
C3' A:DC4 4.3 0.1 1.0
H5'' A:DA3 4.3 0.3 1.0
O4' A:DC4 4.6 0.2 1.0
C1' A:DA3 4.7 0.3 1.0
C5' A:DA3 4.7 0.2 1.0
H4' A:DC4 4.7 0.3 1.0
OP1 A:DG5 4.8 0.3 1.0
O3' A:DC4 4.8 0.2 1.0
O4' A:DA3 5.0 0.3 1.0

Phosphorus binding site 4 out of 14 in 193d

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Phosphorus binding site 4 out of 14 in the Solution Structure of A Quinomycin Bisintercalator-Dna Complex


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Stereo pair view

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

b:0.3
occ:1.00
 P A:DG5 0.0 0.3 1.0
OP1 A:DG5 1.5 0.3 1.0
OP2 A:DG5 1.5 0.3 1.0
O3' A:DC4 1.6 0.2 1.0
O5' A:DG5 1.6 0.4 1.0
C3' A:DC4 2.7 0.1 1.0
C5' A:DG5 2.7 0.3 1.0
H3' A:DC4 2.9 0.2 1.0
H5' A:DG5 2.9 0.4 1.0
O4' A:DG5 3.1 0.2 1.0
H2'' A:DC4 3.3 0.2 1.0
C4' A:DG5 3.4 0.2 1.0
C2' A:DC4 3.4 0.2 1.0
H2' A:DG5 3.5 0.3 1.0
H2' A:DC4 3.5 0.2 1.0
H5'' A:DG5 3.6 0.5 1.0
C4' A:DC4 4.0 0.1 1.0
H3' A:DG5 4.0 0.2 1.0
C2' A:DG5 4.1 0.2 1.0
C1' A:DG5 4.1 0.2 1.0
C3' A:DG5 4.1 0.1 1.0
H4' A:DC4 4.1 0.3 1.0
H5'' A:DC4 4.1 0.3 1.0
HB3 C:ALA6 4.2 0.3 1.0
N9 A:DG5 4.3 0.1 1.0
H8 A:DG5 4.3 0.2 1.0
H4' A:DG5 4.4 0.2 1.0
C8 A:DG5 4.5 0.2 1.0
C5' A:DC4 4.5 0.2 1.0
HB1 C:ALA6 4.8 0.3 1.0
O5' A:DC4 4.8 0.2 1.0
C1' A:DC4 4.8 0.2 1.0
H6 A:DC4 4.9 0.2 1.0
CB C:ALA6 4.9 0.2 1.0

Phosphorus binding site 5 out of 14 in 193d

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Phosphorus binding site 5 out of 14 in the Solution Structure of A Quinomycin Bisintercalator-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 A Quinomycin Bisintercalator-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P6

b:0.2
occ:1.00
 P A:DT6 0.0 0.2 1.0
OP2 A:DT6 1.5 0.2 1.0
OP1 A:DT6 1.5 0.3 1.0
O3' A:DG5 1.6 0.2 1.0
O5' A:DT6 1.6 0.2 1.0
C3' A:DG5 2.7 0.1 1.0
C5' A:DT6 2.7 0.2 1.0
H3' A:DG5 2.7 0.2 1.0
H5' A:DT6 3.0 0.3 1.0
O4' A:DT6 3.1 0.2 1.0
H3' A:DT6 3.2 0.3 1.0
H6 A:DT6 3.2 0.2 1.0
C4' A:DT6 3.3 0.2 1.0
H2'' A:DG5 3.4 0.2 1.0
H5'' A:DT6 3.6 0.3 1.0
C2' A:DG5 3.6 0.2 1.0
C3' A:DT6 3.8 0.2 1.0
H4' A:DG5 3.8 0.2 1.0
H2' A:DT6 3.9 0.3 1.0
C4' A:DG5 3.9 0.2 1.0
C6 A:DT6 4.1 0.2 1.0
C1' A:DT6 4.2 0.2 1.0
C2' A:DT6 4.2 0.2 1.0
H5'' A:DG5 4.3 0.5 1.0
H4' A:DT6 4.3 0.2 1.0
H1' A:DG5 4.4 0.2 1.0
H2' A:DG5 4.4 0.3 1.0
H72 A:DT6 4.5 0.3 1.0
N1 A:DT6 4.5 0.2 1.0
C1' A:DG5 4.6 0.2 1.0
C5' A:DG5 4.7 0.3 1.0
O4' A:DG5 4.9 0.2 1.0
HA C:DSN5 5.0 0.3 1.0

Phosphorus binding site 6 out of 14 in 193d

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Phosphorus binding site 6 out of 14 in the Solution Structure of A Quinomycin Bisintercalator-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 A Quinomycin Bisintercalator-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P7

b:0.4
occ:1.00
 P A:DG7 0.0 0.4 1.0
OP1 A:DG7 1.5 0.5 1.0
OP2 A:DG7 1.5 0.6 1.0
O5' A:DG7 1.6 0.2 1.0
O3' A:DT6 1.6 0.3 1.0
C5' A:DG7 2.7 0.2 1.0
H4' A:DT6 2.7 0.2 1.0
C3' A:DT6 2.7 0.2 1.0
H5'' A:DG7 2.8 0.2 1.0
H5' A:DG7 3.1 0.2 1.0
H2'' A:DT6 3.2 0.2 1.0
C4' A:DT6 3.3 0.2 1.0
C2' A:DT6 3.4 0.2 1.0
H1' A:DT6 3.6 0.2 1.0
H3' A:DT6 3.6 0.3 1.0
H3' A:DG7 3.6 0.2 1.0
C4' A:DG7 4.0 0.2 1.0
C1' A:DT6 4.0 0.2 1.0
H5'' A:DT6 4.0 0.3 1.0
O4' A:DT6 4.3 0.2 1.0
H2' A:DG7 4.3 0.2 1.0
C3' A:DG7 4.3 0.2 1.0
C5' A:DT6 4.3 0.2 1.0
H2' A:DT6 4.4 0.3 1.0
O4' A:DG7 4.6 0.2 1.0
H4' A:DG7 4.7 0.3 1.0
C2' A:DG7 4.8 0.1 1.0
H5' A:DT6 5.0 0.3 1.0

Phosphorus binding site 7 out of 14 in 193d

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Phosphorus binding site 7 out of 14 in the Solution Structure of A Quinomycin Bisintercalator-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 A Quinomycin Bisintercalator-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P8

b:0.2
occ:1.00
 P A:DT8 0.0 0.2 1.0
OP1 A:DT8 1.5 0.2 1.0
OP2 A:DT8 1.5 0.3 1.0
O3' A:DG7 1.6 0.2 1.0
O5' A:DT8 1.6 0.2 1.0
C3' A:DG7 2.7 0.2 1.0
C5' A:DT8 2.7 0.3 1.0
H3' A:DG7 2.9 0.2 1.0
H4' A:DT8 3.0 0.3 1.0
H5' A:DT8 3.0 0.4 1.0
H2'' A:DG7 3.0 0.2 1.0
C4' A:DT8 3.2 0.3 1.0
C2' A:DG7 3.3 0.1 1.0
H5'' A:DT8 3.6 0.4 1.0
O4' A:DT8 3.8 0.2 1.0
C4' A:DG7 4.0 0.2 1.0
H1' A:DG7 4.0 0.2 1.0
H4' A:DG7 4.0 0.3 1.0
H2' A:DG7 4.1 0.2 1.0
C1' A:DG7 4.3 0.1 1.0
H6 A:DT8 4.5 0.2 1.0
C3' A:DT8 4.6 0.4 1.0
H5'' A:DG7 4.8 0.2 1.0
H3' A:DT8 4.8 0.5 1.0
O4' A:DG7 4.8 0.2 1.0
HO3' A:DT8 4.9 0.5 1.0
C5' A:DG7 5.0 0.2 1.0

Phosphorus binding site 8 out of 14 in 193d

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Phosphorus binding site 8 out of 14 in the Solution Structure of A Quinomycin Bisintercalator-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 A Quinomycin Bisintercalator-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P2

b:0.1
occ:1.00
 P B:DC2 0.0 0.1 1.0
OP1 B:DC2 1.5 0.3 1.0
OP2 B:DC2 1.5 0.2 1.0
O5' B:DC2 1.6 0.2 1.0
O3' B:DA1 1.6 0.2 1.0
C5' B:DC2 2.7 0.1 1.0
C3' B:DA1 2.7 0.1 1.0
H5'' B:DC2 2.8 0.2 1.0
H3' B:DA1 2.9 0.1 1.0
H2'' B:DA1 3.0 0.2 1.0
H5' B:DC2 3.0 0.2 1.0
C2' B:DA1 3.3 0.2 1.0
H3' B:DC2 3.8 0.3 1.0
C4' B:DA1 4.0 0.2 1.0
C4' B:DC2 4.0 0.2 1.0
H4' B:DA1 4.0 0.3 1.0
H2' B:DA1 4.1 0.3 1.0
H1' B:DA1 4.2 0.2 1.0
C1' B:DA1 4.3 0.2 1.0
C3' B:DC2 4.5 0.2 1.0
H4' B:DC2 4.7 0.3 1.0
O4' B:DA1 4.7 0.3 1.0
O4' B:DC2 4.7 0.3 1.0
H6 B:DC2 5.0 0.3 1.0

Phosphorus binding site 9 out of 14 in 193d

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Phosphorus binding site 9 out of 14 in the Solution Structure of A Quinomycin Bisintercalator-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 A Quinomycin Bisintercalator-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P3

b:0.2
occ:1.00
 P B:DA3 0.0 0.2 1.0
OP2 B:DA3 1.5 0.3 1.0
OP1 B:DA3 1.5 0.4 1.0
O3' B:DC2 1.6 0.2 1.0
O5' B:DA3 1.6 0.2 1.0
C5' B:DA3 2.7 0.2 1.0
H4' B:DC2 2.7 0.3 1.0
C3' B:DC2 2.7 0.2 1.0
H5'' B:DA3 2.8 0.3 1.0
H2'' B:DC2 2.9 0.3 1.0
H5' B:DA3 3.0 0.4 1.0
C2' B:DC2 3.3 0.2 1.0
C4' B:DC2 3.4 0.2 1.0
H1' B:DC2 3.4 0.3 1.0
H3' B:DC2 3.6 0.3 1.0
C1' B:DC2 3.8 0.3 1.0
H3' B:DA3 3.8 0.2 1.0
C4' B:DA3 4.0 0.2 1.0
O4' B:DC2 4.1 0.3 1.0
H2' B:DC2 4.3 0.2 1.0
C3' B:DA3 4.5 0.2 1.0
C5' B:DC2 4.6 0.1 1.0
H5'' B:DC2 4.6 0.2 1.0
O4' B:DA3 4.7 0.2 1.0
H4' B:DA3 4.7 0.3 1.0

Phosphorus binding site 10 out of 14 in 193d

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Phosphorus binding site 10 out of 14 in the Solution Structure of A Quinomycin Bisintercalator-Dna Complex


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 Quinomycin Bisintercalator-Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P4

b:0.2
occ:1.00
 P B:DC4 0.0 0.2 1.0
OP2 B:DC4 1.5 0.2 1.0
OP1 B:DC4 1.5 0.4 1.0
O3' B:DA3 1.6 0.2 1.0
O5' B:DC4 1.6 0.5 1.0
C5' B:DC4 2.7 0.3 1.0
C3' B:DA3 2.7 0.2 1.0
H5' B:DC4 2.8 0.4 1.0
H3' B:DA3 2.9 0.2 1.0
H5'' B:DC4 3.0 0.4 1.0
H2'' B:DA3 3.1 0.3 1.0
C2' B:DA3 3.4 0.2 1.0
H4' B:DA3 3.9 0.3 1.0
C4' B:DA3 3.9 0.2 1.0
C4' B:DC4 4.0 0.2 1.0
H2' B:DA3 4.0 0.2 1.0
H4' B:DC4 4.1 0.2 1.0
H5'' B:DA3 4.4 0.3 1.0
O4' B:DC4 4.6 0.2 1.0
C1' B:DA3 4.6 0.2 1.0
HG23 C:CPC4 4.7 0.7 1.0
H1' B:DA3 4.7 0.3 1.0
C5' B:DA3 4.7 0.2 1.0
O4' B:DA3 4.9 0.2 1.0

Reference:

H.Chen, D.J.Patel. Solution Structure of A Quinomycin Bisintercalator-Dna Complex. J.Mol.Biol. V. 246 164 1995.
ISSN: ISSN 0022-2836
PubMed: 7853395
DOI: 10.1006/JMBI.1994.0074
Page generated: Fri Sep 25 11:50:45 2020

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