Phosphorus in PDB 189d: Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition

The structure of Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition, PDB code: 189d was solved by M.Eisenstein, Z.Shakked, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	8.00 / 2.10
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	42.040, 42.040, 25.090, 90.00, 90.00, 90.00
R / Rfree (%)	n/a / n/a

The binding sites of Phosphorus atom in the Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition (pdb code 189d). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 7 binding sites of Phosphorus where determined in the Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition, PDB code: 189d:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7;

Phosphorus binding site 1 out of 7 in the Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition within 5.0Å range: probe atom residue distance (Å) B Occ A:P2 b:32.7 occ:1.00 P A:DG2 0.0 32.7 1.0 OP1 A:DG2 1.5 34.1 1.0 OP2 A:DG2 1.5 33.9 1.0 O5' A:DG2 1.6 28.2 1.0 O3' A:DG1 1.6 32.2 1.0 C5' A:DG2 2.6 27.3 1.0 C3' A:DG1 2.7 27.6 1.0 O A:HOH18 3.0 40.4 1.0 C2' A:DG1 3.6 25.3 1.0 C4' A:DG2 3.8 26.6 1.0 C4' A:DG1 3.9 27.9 1.0 O A:HOH19 4.0 49.3 1.0 O4' A:DG2 4.1 25.9 1.0 O A:HOH27 4.3 42.4 1.0 O A:HOH44 4.4 67.5 1.0 C8 A:DG2 4.4 21.8 1.0 C3' A:DG2 4.4 26.6 1.0 C5' A:DG1 4.5 30.3 1.0 O5' A:DG1 4.7 33.7 1.0 O A:HOH15 4.8 55.2 1.0 C1' A:DG1 4.9 22.7 1.0

Phosphorus binding site 2 out of 7 in the Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition within 5.0Å range: probe atom residue distance (Å) B Occ A:P3 b:31.6 occ:1.00 P A:DC3 0.0 31.6 1.0 OP2 A:DC3 1.5 30.5 1.0 OP1 A:DC3 1.5 33.6 1.0 O5' A:DC3 1.6 29.3 1.0 O3' A:DG2 1.6 29.5 1.0 C3' A:DG2 2.6 26.6 1.0 C5' A:DC3 2.7 28.1 1.0 C2' A:DG2 3.4 26.8 1.0 C4' A:DC3 3.9 25.7 1.0 C4' A:DG2 3.9 26.6 1.0 O A:HOH32 4.1 43.5 1.0 O4' A:DC3 4.1 25.2 1.0 O A:HOH44 4.2 67.5 1.0 C6 A:DC3 4.3 20.8 1.0 C3' A:DC3 4.5 26.3 1.0 C5' A:DG2 4.5 27.3 1.0 O5' A:DG2 4.8 28.2 1.0 C1' A:DG2 4.8 24.1 1.0 C5 A:DC3 5.0 19.8 1.0 O4' A:DG2 5.0 25.9 1.0

Phosphorus binding site 3 out of 7 in the Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 3 of Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition within 5.0Å range: probe atom residue distance (Å) B Occ A:P4 b:31.1 occ:1.00 P A:DC4 0.0 31.1 1.0 OP2 A:DC4 1.5 30.7 1.0 OP1 A:DC4 1.5 34.0 1.0 O5' A:DC4 1.6 26.8 1.0 O3' A:DC3 1.6 28.0 1.0 C5' A:DC4 2.6 25.1 1.0 C3' A:DC3 2.6 26.3 1.0 C2' A:DC3 3.2 25.2 1.0 O A:HOH26 3.5 49.7 1.0 C4' A:DC4 3.9 23.7 1.0 C4' A:DC3 3.9 25.7 1.0 O A:HOH48 4.0 66.7 1.0 O A:HOH32 4.3 43.5 1.0 C3' A:DC4 4.3 24.7 1.0 O A:HOH31 4.4 87.6 1.0 O4' A:DC4 4.4 24.8 1.0 C6 A:DC4 4.5 16.6 1.0 C5' A:DC3 4.7 28.1 1.0 C1' A:DC3 4.7 23.3 1.0 O4' A:DC3 4.9 25.2 1.0 O3' A:DC4 4.9 26.3 1.0

Phosphorus binding site 4 out of 7 in the Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 4 of Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition within 5.0Å range: probe atom residue distance (Å) B Occ A:P5 b:26.2 occ:1.00 P A:DG5 0.0 26.2 1.0 OP2 A:DG5 1.5 26.1 1.0 OP1 A:DG5 1.5 28.9 1.0 O3' A:DC4 1.6 26.3 1.0 O5' A:DG5 1.6 24.6 1.0 C5' A:DG5 2.6 20.6 1.0 C3' A:DC4 2.6 24.7 1.0 C2' A:DC4 3.4 22.4 1.0 C4' A:DG5 3.9 19.8 1.0 C4' A:DC4 3.9 23.7 1.0 O A:HOH20 4.1 66.5 1.0 O A:HOH47 4.1 83.2 1.0 O4' A:DG5 4.1 18.2 1.0 O A:HOH38 4.2 50.0 1.0 C5' A:DC4 4.6 25.1 1.0 O5' A:DC4 4.7 26.8 1.0 C1' A:DC4 4.7 20.3 1.0 O A:HOH34 4.8 50.4 1.0 O4' A:DC4 5.0 24.8 1.0

Phosphorus binding site 5 out of 7 in the Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition within 5.0Å range: probe atom residue distance (Å) B Occ A:P6 b:20.9 occ:1.00 P A:DG6 0.0 20.9 1.0 OP2 A:DG6 1.4 20.9 1.0 OP1 A:DG6 1.5 25.9 1.0 O5' A:DG6 1.6 21.9 1.0 O3' A:DG5 1.6 22.2 1.0 C3' A:DG5 2.6 20.6 1.0 C5' A:DG6 2.6 21.7 1.0 C2' A:DG5 3.5 17.7 1.0 O A:HOH23 3.7 45.2 1.0 C4' A:DG6 3.9 21.8 1.0 C4' A:DG5 3.9 19.8 1.0 O A:HOH30 3.9 43.5 1.0 C8 A:DG6 4.3 15.3 1.0 C3' A:DG6 4.3 21.6 1.0 O4' A:DG6 4.3 21.8 1.0 C5' A:DG5 4.5 20.6 1.0 OP2 A:DC7 4.8 24.6 1.0 C1' A:DG5 4.8 16.0 1.0 O A:HOH34 4.9 50.4 1.0 O3' A:DG6 4.9 24.0 1.0 O4' A:DG5 5.0 18.2 1.0

Phosphorus binding site 6 out of 7 in the Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 6 of Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition within 5.0Å range: probe atom residue distance (Å) B Occ A:P7 b:24.3 occ:1.00 P A:DC7 0.0 24.3 1.0 OP1 A:DC7 1.5 23.5 1.0 OP2 A:DC7 1.5 24.6 1.0 O3' A:DG6 1.6 24.0 1.0 O5' A:DC7 1.6 23.5 1.0 C5' A:DC7 2.7 20.2 1.0 C3' A:DG6 2.7 21.6 1.0 C2' A:DG6 3.6 19.9 1.0 O A:HOH23 3.9 45.2 1.0 C4' A:DC7 3.9 18.3 1.0 C4' A:DG6 3.9 21.8 1.0 O4' A:DC7 4.2 17.5 1.0 C6 A:DC7 4.4 13.7 1.0 C5' A:DG6 4.5 21.7 1.0 O5' A:DG6 4.5 21.9 1.0 C3' A:DC7 4.5 17.4 1.0 C1' A:DG6 4.8 18.2 1.0

Phosphorus binding site 7 out of 7 in the Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 7 of Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition within 5.0Å range: probe atom residue distance (Å) B Occ A:P8 b:23.6 occ:1.00 P A:DC8 0.0 23.6 1.0 OP1 A:DC8 1.5 24.1 1.0 OP2 A:DC8 1.5 25.2 1.0 O5' A:DC8 1.6 24.4 1.0 O3' A:DC7 1.6 20.7 1.0 C3' A:DC7 2.6 17.4 1.0 C5' A:DC8 2.7 26.4 1.0 C2' A:DC7 3.2 16.5 1.0 C4' A:DC8 3.8 27.9 1.0 C4' A:DC7 3.9 18.3 1.0 C3' A:DC8 4.1 29.3 1.0 O A:HOH39 4.2 39.2 1.0 O4' A:DC8 4.3 26.7 1.0 C6 A:DC8 4.5 21.9 1.0 C1' A:DC7 4.6 14.9 1.0 C5' A:DC7 4.6 20.2 1.0 O4' A:DC7 4.9 17.5 1.0 O5' A:DC7 4.9 23.5 1.0 C2' A:DC8 5.0 27.6 1.0

M.Eisenstein, Z.Shakked. Hydration Patterns and Intermolecular Interactions in A-Dna Crystal Structures. Implications For Dna Recognition. J.Mol.Biol. V. 248 662 1995.
ISSN: ISSN 0022-2836
PubMed: 7752232
DOI: 10.1006/JMBI.1995.0250