Phosphorus in PDB 188d: 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: 188d 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 / 2.20
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	42.740, 42.740, 24.570, 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 188d). 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: 188d:
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:18.7 occ:1.00 P A:DG2 0.0 18.7 1.0 OP2 A:DG2 1.5 17.4 1.0 OP1 A:DG2 1.5 19.0 1.0 O5' A:DG2 1.6 15.8 1.0 O3' A:DG1 1.6 17.7 1.0 C3' A:DG1 2.6 14.7 1.0 C5' A:DG2 2.6 16.1 1.0 C2' A:DG1 3.7 14.3 1.0 O A:HOH11 3.8 23.5 1.0 C4' A:DG1 3.8 12.9 1.0 C4' A:DG2 3.8 16.1 1.0 O A:HOH31 4.0 32.5 1.0 O4' A:DG2 4.1 16.8 1.0 C5' A:DG1 4.2 12.8 1.0 C8 A:DG2 4.4 10.8 1.0 O A:HOH27 4.4 50.1 1.0 C3' A:DG2 4.4 16.5 1.0 O5' A:DG1 4.6 13.9 1.0 O A:HOH15 4.6 59.9 1.0 C1' A:DG1 4.8 10.6 1.0 O4' A:DG1 4.9 12.4 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:22.6 occ:1.00 P A:DG3 0.0 22.6 1.0 OP1 A:DG3 1.5 23.4 1.0 OP2 A:DG3 1.5 22.9 1.0 O3' A:DG2 1.6 19.9 1.0 O5' A:DG3 1.6 21.7 1.0 C5' A:DG3 2.6 23.2 1.0 C3' A:DG2 2.7 16.5 1.0 C2' A:DG2 3.4 14.8 1.0 C4' A:DG3 3.9 22.7 1.0 C4' A:DG2 4.0 16.1 1.0 O4' A:DG3 4.1 22.1 1.0 O A:HOH31 4.5 32.5 1.0 C8 A:DG3 4.5 17.8 1.0 O A:HOH15 4.6 59.9 1.0 O A:HOH22 4.7 46.8 1.0 C5' A:DG2 4.7 16.1 1.0 C3' A:DG3 4.7 23.5 1.0 C1' A:DG2 4.8 13.9 1.0 O5' A:DG2 4.9 15.8 1.0 O4' A:DG2 5.0 16.8 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:24.8 occ:1.00 P A:DC4 0.0 24.8 1.0 OP2 A:DC4 1.5 23.7 1.0 OP1 A:DC4 1.5 27.2 1.0 O5' A:DC4 1.6 21.5 1.0 O3' A:DG3 1.6 24.4 1.0 C3' A:DG3 2.6 23.5 1.0 C5' A:DC4 2.6 20.2 1.0 C2' A:DG3 3.5 23.0 1.0 O A:HOH48 3.7 41.7 1.0 C4' A:DC4 3.9 19.7 1.0 C4' A:DG3 3.9 22.7 1.0 O A:HOH12 4.0 25.5 1.0 C3' A:DC4 4.2 19.2 1.0 C6 A:DC4 4.3 11.9 1.0 O4' A:DC4 4.3 18.5 1.0 C5' A:DG3 4.4 23.2 1.0 O A:HOH21 4.6 54.3 1.0 C1' A:DG3 4.8 21.2 1.0 O4' A:DG3 4.9 22.1 1.0 C5 A:DC4 5.0 12.3 1.0 O3' A:DC4 5.0 19.3 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:19.2 occ:1.00 P A:DG5 0.0 19.2 1.0 OP1 A:DG5 1.5 21.1 1.0 OP2 A:DG5 1.5 19.7 1.0 O3' A:DC4 1.6 19.3 1.0 O5' A:DG5 1.6 18.1 1.0 C5' A:DG5 2.6 16.3 1.0 C3' A:DC4 2.6 19.2 1.0 C2' A:DC4 3.2 18.5 1.0 O A:HOH41 3.7 51.8 1.0 C4' A:DG5 3.8 15.8 1.0 C4' A:DC4 3.9 19.7 1.0 O4' A:DG5 4.1 14.8 1.0 O A:HOH38 4.3 31.5 1.0 C1' A:DC4 4.6 15.0 1.0 C5' A:DC4 4.7 20.2 1.0 O5' A:DC4 4.7 21.5 1.0 O4' A:DC4 4.9 18.5 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:21.6 occ:1.00 P A:DC6 0.0 21.6 1.0 OP2 A:DC6 1.5 21.2 1.0 OP1 A:DC6 1.5 21.4 1.0 O3' A:DG5 1.6 19.4 1.0 O5' A:DC6 1.6 20.7 1.0 C5' A:DC6 2.6 19.7 1.0 C3' A:DG5 2.8 16.9 1.0 O A:HOH45 3.6 22.0 1.0 O A:HOH23 3.6 26.5 1.0 C2' A:DG5 3.7 14.6 1.0 C4' A:DC6 3.9 18.2 1.0 C4' A:DG5 3.9 15.8 1.0 O A:HOH44 4.2 35.8 1.0 C6 A:DC6 4.3 15.6 1.0 O4' A:DC6 4.3 17.9 1.0 C3' A:DC6 4.3 18.0 1.0 C5' A:DG5 4.4 16.3 1.0 OP2 A:DC7 4.8 19.2 1.0 C5 A:DC6 4.9 15.5 1.0 O3' A:DC6 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:17.5 occ:1.00 P A:DC7 0.0 17.5 1.0 OP2 A:DC7 1.5 19.2 1.0 OP1 A:DC7 1.5 17.9 1.0 O5' A:DC7 1.6 14.8 1.0 O3' A:DC6 1.6 18.2 1.0 C5' A:DC7 2.7 12.6 1.0 C3' A:DC6 2.7 18.0 1.0 C2' A:DC6 3.5 16.9 1.0 O A:HOH23 3.8 26.5 1.0 C4' A:DC7 3.9 10.2 1.0 C4' A:DC6 4.0 18.2 1.0 O4' A:DC7 4.2 9.5 1.0 O A:HOH44 4.2 35.8 1.0 O A:HOH17 4.2 29.0 1.0 O5' A:DC6 4.3 20.7 1.0 C6 A:DC7 4.4 11.7 1.0 C3' A:DC7 4.5 11.3 1.0 C5' A:DC6 4.6 19.7 1.0 C1' A:DC6 4.8 15.3 1.0 C5 A:DC7 5.0 11.2 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:15.4 occ:1.00 P A:DC8 0.0 15.4 1.0 OP2 A:DC8 1.5 18.1 1.0 OP1 A:DC8 1.5 16.2 1.0 O3' A:DC7 1.6 14.8 1.0 O5' A:DC8 1.6 16.7 1.0 C3' A:DC7 2.6 11.3 1.0 C5' A:DC8 2.7 18.0 1.0 C2' A:DC7 3.4 9.7 1.0 C4' A:DC7 3.9 10.2 1.0 C4' A:DC8 3.9 18.3 1.0 O4' A:DC8 4.2 16.3 1.0 C5' A:DC7 4.5 12.6 1.0 C3' A:DC8 4.6 19.8 1.0 C6 A:DC8 4.6 13.3 1.0 C1' A:DC7 4.8 9.4 1.0 O5' A:DC7 4.8 14.8 1.0 O4' A:DC7 4.9 9.5 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