Phosphorus in PDB 103d: The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs

Phosphorus Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 22;

Binding sites:

The binding sites of Phosphorus atom in the The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs (pdb code 103d). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 22 binding sites of Phosphorus where determined in the The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs, PDB code: 103d:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 22 in 103d

Go back to Phosphorus Binding Sites List in 103d
Phosphorus binding site 1 out of 22 in the The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P2

b:0.0
occ:1.00
P A:DT2 0.0 0.0 1.0
OP1 A:DT2 1.5 0.0 1.0
OP2 A:DT2 1.5 0.0 1.0
O5' A:DT2 1.6 0.0 1.0
O3' A:DG1 1.6 0.0 1.0
C5' A:DT2 2.6 0.0 1.0
C3' A:DG1 2.7 0.0 1.0
H5' A:DT2 2.9 0.0 1.0
H3' A:DG1 2.9 0.0 1.0
H5'' A:DT2 2.9 0.0 1.0
H2'' A:DG1 2.9 0.0 1.0
C2' A:DG1 3.3 0.0 1.0
H1' A:DG1 3.9 0.0 1.0
C4' A:DG1 4.0 0.0 1.0
C4' A:DT2 4.0 0.0 1.0
H4' A:DG1 4.0 0.0 1.0
H2' A:DT2 4.1 0.0 1.0
H2' A:DG1 4.1 0.0 1.0
H6 A:DT2 4.1 0.0 1.0
H3' A:DT2 4.1 0.0 1.0
C1' A:DG1 4.2 0.0 1.0
O4' A:DT2 4.3 0.0 1.0
C3' A:DT2 4.5 0.0 1.0
O4' A:DG1 4.7 0.0 1.0
H4' A:DT2 4.8 0.0 1.0
C2' A:DT2 4.8 0.0 1.0

Phosphorus binding site 2 out of 22 in 103d

Go back to Phosphorus Binding Sites List in 103d
Phosphorus binding site 2 out of 22 in the The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P3

b:0.0
occ:1.00
P A:DG3 0.0 0.0 1.0
OP2 A:DG3 1.5 0.0 1.0
OP1 A:DG3 1.5 0.0 1.0
O5' A:DG3 1.6 0.0 1.0
O3' A:DT2 1.6 0.0 1.0
C5' A:DG3 2.6 0.0 1.0
C3' A:DT2 2.7 0.0 1.0
H5' A:DG3 2.9 0.0 1.0
H2'' A:DT2 2.9 0.0 1.0
H3' A:DT2 2.9 0.0 1.0
H5'' A:DG3 2.9 0.0 1.0
C2' A:DT2 3.3 0.0 1.0
H1' A:DT2 3.7 0.0 1.0
H2' A:DG3 3.9 0.0 1.0
C4' A:DG3 4.0 0.0 1.0
C4' A:DT2 4.0 0.0 1.0
H4' A:DT2 4.0 0.0 1.0
C1' A:DT2 4.1 0.0 1.0
H3' A:DG3 4.1 0.0 1.0
H2' A:DT2 4.1 0.0 1.0
O4' A:DG3 4.3 0.0 1.0
C3' A:DG3 4.5 0.0 1.0
H8 A:DG3 4.6 0.0 1.0
O4' A:DT2 4.7 0.0 1.0
C2' A:DG3 4.7 0.0 1.0
H4' A:DG3 4.8 0.0 1.0
H5'' A:DT2 5.0 0.0 1.0

Phosphorus binding site 3 out of 22 in 103d

Go back to Phosphorus Binding Sites List in 103d
Phosphorus binding site 3 out of 22 in the The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 3 of The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P4

b:0.0
occ:1.00
P A:DG4 0.0 0.0 1.0
OP2 A:DG4 1.5 0.0 1.0
OP1 A:DG4 1.5 0.0 1.0
O5' A:DG4 1.6 0.0 1.0
O3' A:DG3 1.6 0.0 1.0
C5' A:DG4 2.6 0.0 1.0
C3' A:DG3 2.7 0.0 1.0
H5' A:DG4 2.8 0.0 1.0
H3' A:DG3 2.9 0.0 1.0
H5'' A:DG4 3.1 0.0 1.0
H2'' A:DG3 3.1 0.0 1.0
H8 A:DG4 3.4 0.0 1.0
C2' A:DG3 3.4 0.0 1.0
H1' A:DG3 3.9 0.0 1.0
C4' A:DG4 3.9 0.0 1.0
C4' A:DG3 3.9 0.0 1.0
H4' A:DG3 3.9 0.0 1.0
H3' A:DG4 4.0 0.0 1.0
C1' A:DG3 4.2 0.0 1.0
H2' A:DG3 4.2 0.0 1.0
O4' A:DG4 4.2 0.0 1.0
C8 A:DG4 4.4 0.0 1.0
C3' A:DG4 4.5 0.0 1.0
O4' A:DG3 4.7 0.0 1.0
H4' A:DG4 4.8 0.0 1.0
H5'' A:DG3 4.9 0.0 1.0
H21 B:DG21 5.0 0.0 1.0
N1 B:DA22 5.0 0.0 1.0

Phosphorus binding site 4 out of 22 in 103d

Go back to Phosphorus Binding Sites List in 103d
Phosphorus binding site 4 out of 22 in the The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 4 of The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P5

b:0.0
occ:1.00
P A:DA5 0.0 0.0 1.0
OP1 A:DA5 1.5 0.0 1.0
OP2 A:DA5 1.5 0.0 1.0
O5' A:DA5 1.6 0.0 1.0
O3' A:DG4 1.6 0.0 1.0
C5' A:DA5 2.6 0.0 1.0
C3' A:DG4 2.7 0.0 1.0
H5'' A:DA5 2.8 0.0 1.0
H3' A:DG4 2.9 0.0 1.0
H5' A:DA5 3.1 0.0 1.0
H22 B:DG21 3.2 0.0 1.0
C2' A:DG4 3.4 0.0 1.0
H2' A:DG4 3.4 0.0 1.0
H2' A:DA5 3.4 0.0 1.0
H2'' A:DG4 3.4 0.0 1.0
H8 A:DA5 3.5 0.0 1.0
C4' A:DA5 3.9 0.0 1.0
C4' A:DG4 4.0 0.0 1.0
H3' A:DA5 4.1 0.0 1.0
H4' A:DG4 4.1 0.0 1.0
N2 B:DG21 4.2 0.0 1.0
H5'' A:DG4 4.2 0.0 1.0
C2' A:DA5 4.3 0.0 1.0
O4' A:DA5 4.3 0.0 1.0
N3 B:DG21 4.3 0.0 1.0
C3' A:DA5 4.4 0.0 1.0
C8 A:DA5 4.4 0.0 1.0
H1' B:DG21 4.4 0.0 1.0
C5' A:DG4 4.6 0.0 1.0
C1' A:DA5 4.7 0.0 1.0
C2 B:DG21 4.7 0.0 1.0
H4' A:DA5 4.8 0.0 1.0
C1' A:DG4 4.8 0.0 1.0
H21 B:DG21 4.8 0.0 1.0
O5' A:DG4 4.9 0.0 1.0
H2'' B:DG21 4.9 0.0 1.0
N9 A:DA5 5.0 0.0 1.0
O4' A:DG4 5.0 0.0 1.0

Phosphorus binding site 5 out of 22 in 103d

Go back to Phosphorus Binding Sites List in 103d
Phosphorus binding site 5 out of 22 in the The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P6

b:0.0
occ:1.00
P A:DA6 0.0 0.0 1.0
OP2 A:DA6 1.5 0.0 1.0
OP1 A:DA6 1.5 0.0 1.0
O5' A:DA6 1.6 0.0 1.0
O3' A:DA5 1.6 0.0 1.0
C5' A:DA6 2.6 0.0 1.0
C3' A:DA5 2.7 0.0 1.0
H5' A:DA6 2.8 0.0 1.0
H2'' A:DA5 2.9 0.0 1.0
H3' A:DA5 2.9 0.0 1.0
H5'' A:DA6 3.0 0.0 1.0
C2' A:DA5 3.3 0.0 1.0
H1' A:DA5 3.6 0.0 1.0
C4' A:DA6 4.0 0.0 1.0
C4' A:DA5 4.0 0.0 1.0
C1' A:DA5 4.0 0.0 1.0
H4' A:DA5 4.1 0.0 1.0
H2' A:DA5 4.1 0.0 1.0
H3' A:DA6 4.2 0.0 1.0
O4' A:DA6 4.2 0.0 1.0
H2' A:DA6 4.3 0.0 1.0
H8 A:DA6 4.4 0.0 1.0
O4' A:DA5 4.6 0.0 1.0
C3' A:DA6 4.6 0.0 1.0
H4' A:DA6 4.8 0.0 1.0
C2' A:DA6 4.9 0.0 1.0

Phosphorus binding site 6 out of 22 in 103d

Go back to Phosphorus Binding Sites List in 103d
Phosphorus binding site 6 out of 22 in the The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 6 of The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P7

b:0.0
occ:1.00
P A:DT7 0.0 0.0 1.0
OP2 A:DT7 1.5 0.0 1.0
OP1 A:DT7 1.5 0.0 1.0
O5' A:DT7 1.6 0.0 1.0
O3' A:DA6 1.6 0.0 1.0
C5' A:DT7 2.6 0.0 1.0
C3' A:DA6 2.7 0.0 1.0
H5' A:DT7 2.8 0.0 1.0
H3' A:DA6 2.9 0.0 1.0
H2'' A:DA6 2.9 0.0 1.0
H5'' A:DT7 3.0 0.0 1.0
C2' A:DA6 3.3 0.0 1.0
C4' A:DT7 4.0 0.0 1.0
H1' A:DA6 4.0 0.0 1.0
C4' A:DA6 4.0 0.0 1.0
H4' A:DA6 4.0 0.0 1.0
H6 A:DT7 4.0 0.0 1.0
H2' A:DA6 4.1 0.0 1.0
H2' A:DT7 4.2 0.0 1.0
O4' A:DT7 4.2 0.0 1.0
C1' A:DA6 4.2 0.0 1.0
H3' A:DT7 4.4 0.0 1.0
C3' A:DT7 4.6 0.0 1.0
H4' A:DT7 4.7 0.0 1.0
O4' A:DA6 4.8 0.0 1.0
C2' A:DT7 4.9 0.0 1.0
H5'' A:DA6 4.9 0.0 1.0
C6 A:DT7 5.0 0.0 1.0

Phosphorus binding site 7 out of 22 in 103d

Go back to Phosphorus Binding Sites List in 103d
Phosphorus binding site 7 out of 22 in the The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 7 of The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P8

b:0.0
occ:1.00
P A:DG8 0.0 0.0 1.0
OP1 A:DG8 1.5 0.0 1.0
OP2 A:DG8 1.5 0.0 1.0
O5' A:DG8 1.6 0.0 1.0
O3' A:DT7 1.6 0.0 1.0
C5' A:DG8 2.6 0.0 1.0
C3' A:DT7 2.7 0.0 1.0
H5' A:DG8 2.9 0.0 1.0
H3' A:DT7 2.9 0.0 1.0
H5'' A:DG8 2.9 0.0 1.0
H2'' A:DT7 2.9 0.0 1.0
C2' A:DT7 3.3 0.0 1.0
H1' A:DT7 3.7 0.0 1.0
H2' A:DG8 3.9 0.0 1.0
C4' A:DT7 4.0 0.0 1.0
C4' A:DG8 4.0 0.0 1.0
H4' A:DT7 4.0 0.0 1.0
H3' A:DG8 4.1 0.0 1.0
C1' A:DT7 4.1 0.0 1.0
H2' A:DT7 4.1 0.0 1.0
O4' A:DG8 4.3 0.0 1.0
C3' A:DG8 4.5 0.0 1.0
H8 A:DG8 4.6 0.0 1.0
C2' A:DG8 4.6 0.0 1.0
O4' A:DT7 4.7 0.0 1.0
H4' A:DG8 4.8 0.0 1.0
H5'' A:DT7 4.9 0.0 1.0

Phosphorus binding site 8 out of 22 in 103d

Go back to Phosphorus Binding Sites List in 103d
Phosphorus binding site 8 out of 22 in the The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 8 of The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P9

b:0.0
occ:1.00
P A:DG9 0.0 0.0 1.0
OP1 A:DG9 1.5 0.0 1.0
OP2 A:DG9 1.5 0.0 1.0
O5' A:DG9 1.6 0.0 1.0
O3' A:DG8 1.6 0.0 1.0
C5' A:DG9 2.6 0.0 1.0
C3' A:DG8 2.7 0.0 1.0
H5' A:DG9 2.8 0.0 1.0
H3' A:DG8 2.8 0.0 1.0
H5'' A:DG9 3.0 0.0 1.0
H2'' A:DG8 3.1 0.0 1.0
H8 A:DG9 3.4 0.0 1.0
C2' A:DG8 3.4 0.0 1.0
H1' A:DG8 3.8 0.0 1.0
H3' A:DG9 3.9 0.0 1.0
C4' A:DG9 3.9 0.0 1.0
C4' A:DG8 3.9 0.0 1.0
H4' A:DG8 3.9 0.0 1.0
C1' A:DG8 4.2 0.0 1.0
H2' A:DG8 4.2 0.0 1.0
O4' A:DG9 4.3 0.0 1.0
C8 A:DG9 4.4 0.0 1.0
C3' A:DG9 4.5 0.0 1.0
O4' A:DG8 4.7 0.0 1.0
H4' A:DG9 4.8 0.0 1.0
H5'' A:DG8 4.9 0.0 1.0
H21 B:DG16 4.9 0.0 1.0

Phosphorus binding site 9 out of 22 in 103d

Go back to Phosphorus Binding Sites List in 103d
Phosphorus binding site 9 out of 22 in the The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 9 of The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P10

b:0.0
occ:1.00
P A:DA10 0.0 0.0 1.0
OP1 A:DA10 1.5 0.0 1.0
OP2 A:DA10 1.5 0.0 1.0
O5' A:DA10 1.6 0.0 1.0
O3' A:DG9 1.6 0.0 1.0
C5' A:DA10 2.6 0.0 1.0
C3' A:DG9 2.7 0.0 1.0
H5'' A:DA10 2.8 0.0 1.0
H3' A:DG9 2.9 0.0 1.0
H5' A:DA10 3.0 0.0 1.0
H22 B:DG16 3.2 0.0 1.0
C2' A:DG9 3.4 0.0 1.0
H2' A:DG9 3.4 0.0 1.0
H8 A:DA10 3.4 0.0 1.0
H2'' A:DG9 3.4 0.0 1.0
H2' A:DA10 3.5 0.0 1.0
C4' A:DA10 3.9 0.0 1.0
C4' A:DG9 4.0 0.0 1.0
H4' A:DG9 4.1 0.0 1.0
N2 B:DG16 4.2 0.0 1.0
H3' A:DA10 4.2 0.0 1.0
H5'' A:DG9 4.2 0.0 1.0
O4' A:DA10 4.3 0.0 1.0
C8 A:DA10 4.3 0.0 1.0
C2' A:DA10 4.4 0.0 1.0
N3 B:DG16 4.4 0.0 1.0
C3' A:DA10 4.4 0.0 1.0
H1' B:DG16 4.5 0.0 1.0
C5' A:DG9 4.6 0.0 1.0
H4' A:DA10 4.8 0.0 1.0
C1' A:DA10 4.8 0.0 1.0
C2 B:DG16 4.8 0.0 1.0
C1' A:DG9 4.8 0.0 1.0
H21 B:DG16 4.8 0.0 1.0
O5' A:DG9 4.9 0.0 1.0
N9 A:DA10 4.9 0.0 1.0
H2'' B:DG16 5.0 0.0 1.0
O4' A:DG9 5.0 0.0 1.0

Phosphorus binding site 10 out of 22 in 103d

Go back to Phosphorus Binding Sites List in 103d
Phosphorus binding site 10 out of 22 in the The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 10 of The Unusual Structure of the Human Centromere (Gga)2 Motif: Unpaired Guanosine Residues Stacked Between Sheared G(Dot) A Pairs within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P11

b:0.0
occ:1.00
P A:DA11 0.0 0.0 1.0
OP1 A:DA11 1.5 0.0 1.0
OP2 A:DA11 1.5 0.0 1.0
O5' A:DA11 1.6 0.0 1.0
O3' A:DA10 1.6 0.0 1.0
C5' A:DA11 2.6 0.0 1.0
C3' A:DA10 2.7 0.0 1.0
H5' A:DA11 2.8 0.0 1.0
H2'' A:DA10 2.9 0.0 1.0
H3' A:DA10 2.9 0.0 1.0
H5'' A:DA11 3.0 0.0 1.0
C2' A:DA10 3.3 0.0 1.0
H1' A:DA10 3.6 0.0 1.0
C4' A:DA11 3.9 0.0 1.0
C4' A:DA10 4.0 0.0 1.0
C1' A:DA10 4.0 0.0 1.0
H4' A:DA10 4.0 0.0 1.0
H3' A:DA11 4.1 0.0 1.0
H2' A:DA10 4.1 0.0 1.0
H2' A:DA11 4.2 0.0 1.0
O4' A:DA11 4.3 0.0 1.0
H8 A:DA11 4.5 0.0 1.0
C3' A:DA11 4.5 0.0 1.0
O4' A:DA10 4.5 0.0 1.0
H4' A:DA11 4.8 0.0 1.0
C2' A:DA11 4.9 0.0 1.0

Reference:

S.H.Chou, L.Zhu, B.R.Reid. The Unusual Structure of the Human Centromere (Gga)2 Motif. Unpaired Guanosine Residues Stacked Between Sheared G.A Pairs. J.Mol.Biol. V. 244 259 1994.
ISSN: ISSN 0022-2836
PubMed: 7966337
DOI: 10.1006/JMBI.1994.1727
Page generated: Fri Sep 25 11:03:23 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