Phosphorus in PDB 151d: Diversity of Water Ring Size at Dna Interfaces: Hydration and Dynamics of Dna-Anthracycline Complexes

Protein crystallography data

The structure of Diversity of Water Ring Size at Dna Interfaces: Hydration and Dynamics of Dna-Anthracycline Complexes, PDB code: 151d was solved by L.A.Lipscomb, M.E.Peek, F.X.Zhou, J.A.Bertrand, D.Vanderveer, L.D.Williams, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) N/A / 1.40
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 27.920, 27.920, 52.390, 90.00, 90.00, 90.00
R / Rfree (%) n/a / n/a

Phosphorus Binding Sites:

The binding sites of Phosphorus atom in the Diversity of Water Ring Size at Dna Interfaces: Hydration and Dynamics of Dna-Anthracycline Complexes (pdb code 151d). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 5 binding sites of Phosphorus where determined in the Diversity of Water Ring Size at Dna Interfaces: Hydration and Dynamics of Dna-Anthracycline Complexes, PDB code: 151d:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5;

Phosphorus binding site 1 out of 5 in 151d

Go back to Phosphorus Binding Sites List in 151d
Phosphorus binding site 1 out of 5 in the Diversity of Water Ring Size at Dna Interfaces: Hydration and Dynamics of Dna-Anthracycline Complexes


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of Diversity of Water Ring Size at Dna Interfaces: Hydration and Dynamics of Dna-Anthracycline Complexes within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P2

b:8.0
occ:1.00
P A:DG2 0.0 8.0 1.0
OP2 A:DG2 1.4 7.3 1.0
OP1 A:DG2 1.5 8.1 1.0
O3' A:DC1 1.6 6.3 1.0
O5' A:DG2 1.7 7.3 1.0
C5' A:DG2 2.6 7.5 1.0
C3' A:DC1 2.6 6.5 1.0
O A:HOH35 3.6 22.8 1.0
O A:HOH23 3.6 26.6 1.0
O A:HOH48 3.7 63.2 1.0
O A:HOH19 3.7 26.6 1.0
C4' A:DC1 3.7 6.0 1.0
C2' A:DC1 3.8 6.3 1.0
C4' A:DG2 3.9 7.9 1.0
O4' A:DG2 4.3 7.4 1.0
C3' A:DG2 4.4 8.6 1.0
C1' A:DC1 4.5 5.9 1.0
O4' A:DC1 4.6 6.1 1.0
C5' A:DC1 4.7 6.2 1.0
C2' A:DG2 4.8 7.9 1.0

Phosphorus binding site 2 out of 5 in 151d

Go back to Phosphorus Binding Sites List in 151d
Phosphorus binding site 2 out of 5 in the Diversity of Water Ring Size at Dna Interfaces: Hydration and Dynamics of Dna-Anthracycline Complexes


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of Diversity of Water Ring Size at Dna Interfaces: Hydration and Dynamics of Dna-Anthracycline Complexes within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P3

b:12.2
occ:1.00
P A:DA3 0.0 12.2 1.0
OP1 A:DA3 1.4 11.8 1.0
OP2 A:DA3 1.5 12.6 1.0
O3' A:DG2 1.6 10.9 1.0
O5' A:DA3 1.6 10.2 1.0
C5' A:DA3 2.5 8.8 1.0
C3' A:DG2 2.7 8.6 1.0
O A:HOH14 3.4 20.1 1.0
C2' A:DG2 3.6 7.9 1.0
O A:HOH42 3.6 30.0 1.0
C4' A:DA3 3.7 8.0 1.0
O A:HOH41 3.8 23.3 1.0
O A:HOH22 3.8 38.3 1.0
C4' A:DG2 3.8 7.9 1.0
O4' A:DA3 3.9 7.2 1.0
O A:HOH20 3.9 42.5 1.0
C8 A:DA3 4.2 5.3 1.0
C3' A:DA3 4.4 8.3 1.0
C1' A:DG2 4.4 7.2 1.0
C2' A:DA3 4.7 7.6 1.0
O4' A:DG2 4.8 7.4 1.0
C1' A:DA3 4.8 6.8 1.0
C5' A:DG2 4.9 7.5 1.0
N9 A:DA3 4.9 5.8 1.0

Phosphorus binding site 3 out of 5 in 151d

Go back to Phosphorus Binding Sites List in 151d
Phosphorus binding site 3 out of 5 in the Diversity of Water Ring Size at Dna Interfaces: Hydration and Dynamics of Dna-Anthracycline Complexes


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 3 of Diversity of Water Ring Size at Dna Interfaces: Hydration and Dynamics of Dna-Anthracycline Complexes within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P4

b:9.5
occ:1.00
P A:DT4 0.0 9.5 1.0
OP1 A:DT4 1.4 9.4 1.0
OP2 A:DT4 1.4 10.3 1.0
O3' A:DA3 1.6 8.5 1.0
O5' A:DT4 1.7 8.2 1.0
C5' A:DT4 2.6 7.7 1.0
C3' A:DA3 2.7 8.3 1.0
C2' A:DA3 3.3 7.6 1.0
O A:HOH49 3.7 18.6 1.0
O A:HOH24 3.8 12.9 1.0
C4' A:DT4 3.9 7.5 1.0
C4' A:DA3 3.9 8.0 1.0
O A:HOH36 4.0 21.3 1.0
C1' A:DA3 4.3 6.8 1.0
O4' A:DT4 4.3 8.2 1.0
C3' A:DT4 4.4 7.5 1.0
O4' A:DA3 4.7 7.2 1.0
O A:HOH27 4.7 27.7 1.0
O A:HOH65 5.0 10.2 1.0
C2' A:DT4 5.0 6.8 1.0

Phosphorus binding site 4 out of 5 in 151d

Go back to Phosphorus Binding Sites List in 151d
Phosphorus binding site 4 out of 5 in the Diversity of Water Ring Size at Dna Interfaces: Hydration and Dynamics of Dna-Anthracycline Complexes


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 4 of Diversity of Water Ring Size at Dna Interfaces: Hydration and Dynamics of Dna-Anthracycline Complexes within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P5

b:9.6
occ:1.00
P A:DC5 0.0 9.6 1.0
OP2 A:DC5 1.4 10.3 1.0
OP1 A:DC5 1.4 11.1 1.0
O3' A:DT4 1.6 8.7 1.0
O5' A:DC5 1.7 9.1 1.0
C5' A:DC5 2.6 8.4 1.0
C3' A:DT4 2.6 7.5 1.0
C2' A:DT4 3.3 6.8 1.0
O A:HOH39 3.7 28.9 1.0
O A:HOH37 3.7 21.4 1.0
C4' A:DT4 3.8 7.5 1.0
C4' A:DC5 3.8 9.2 1.0
O A:HOH28 4.2 23.3 1.0
O4' A:DC5 4.3 8.4 1.0
C3' A:DC5 4.3 9.3 1.0
C1' A:DT4 4.4 6.9 1.0
C2' A:DC5 4.6 9.0 1.0
O4' A:DT4 4.8 8.2 1.0
C5' A:DT4 4.8 7.7 1.0

Phosphorus binding site 5 out of 5 in 151d

Go back to Phosphorus Binding Sites List in 151d
Phosphorus binding site 5 out of 5 in the Diversity of Water Ring Size at Dna Interfaces: Hydration and Dynamics of Dna-Anthracycline Complexes


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of Diversity of Water Ring Size at Dna Interfaces: Hydration and Dynamics of Dna-Anthracycline Complexes within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P6

b:10.9
occ:1.00
P A:DG6 0.0 10.9 1.0
OP1 A:DG6 1.4 10.2 1.0
OP2 A:DG6 1.5 10.0 1.0
O5' A:DG6 1.6 8.8 1.0
O3' A:DC5 1.6 10.7 1.0
C3' A:DC5 2.7 9.3 1.0
C5' A:DG6 2.7 8.2 1.0
C4' A:DC5 3.5 9.2 1.0
O A:HOH30 3.8 46.8 1.0
O A:HOH18 3.8 29.1 1.0
C2' A:DC5 3.8 9.0 1.0
C4' A:DG6 3.9 8.2 1.0
O A:HOH43 3.9 19.9 1.0
C8 A:DG6 4.2 6.1 1.0
O A:HOH32 4.3 42.4 1.0
C3' A:DG6 4.4 7.2 1.0
O4' A:DG6 4.4 7.7 1.0
C2' A:DG6 4.5 7.1 1.0
C5' A:DC5 4.5 8.4 1.0
O A:HOH67 4.5 28.8 1.0
C1' A:DC5 4.5 8.2 1.0
O4' A:DC5 4.6 8.4 1.0
N9 A:DG6 4.8 6.4 1.0
O5' A:DC5 4.9 9.1 1.0
C1' A:DG6 4.9 6.6 1.0
N7 A:DG6 5.0 6.6 1.0

Reference:

L.A.Lipscomb, M.E.Peek, F.X.Zhou, J.A.Bertrand, D.Vanderveer, L.D.Williams. Water Ring Structure at Dna Interfaces: Hydration and Dynamics of Dna-Anthracycline Complexes. Biochemistry V. 33 3649 1994.
ISSN: ISSN 0006-2960
PubMed: 8142363
DOI: 10.1021/BI00178A023
Page generated: Fri Sep 25 11:31:38 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy