Phosphorus in PDB 106d: Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons

Phosphorus Binding Sites:

The binding sites of Phosphorus atom in the Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons (pdb code 106d). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 8 binding sites of Phosphorus where determined in the Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons, PDB code: 106d:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Phosphorus binding site 1 out of 8 in 106d

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Phosphorus binding site 1 out of 8 in the Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P2

b:0.0
occ:1.00
P A:DC2 0.0 0.0 1.0
OP1 A:DC2 1.5 0.0 1.0
OP2 A:DC2 1.5 0.0 1.0
O5' A:DC2 1.6 0.0 1.0
O3' A:MCY1 1.6 0.0 1.0
C5' A:DC2 2.6 0.0 1.0
C3' A:MCY1 2.7 0.0 1.0
H5'' A:DC2 2.8 0.0 1.0
H3' A:MCY1 2.9 0.0 1.0
H5' A:DC2 2.9 0.0 1.0
H2'' A:MCY1 3.0 0.0 1.0
C2' A:MCY1 3.2 0.0 1.0
HO5' A:MCY1 3.3 0.0 1.0
H2' A:MCY1 3.5 0.0 1.0
H3' A:DC2 3.6 0.0 1.0
C4' A:DC2 4.0 0.0 1.0
C4' A:MCY1 4.0 0.0 1.0
H4' A:MCY1 4.1 0.0 1.0
O5' A:MCY1 4.2 0.0 1.0
C3' A:DC2 4.3 0.0 1.0
O4' A:DC2 4.5 0.0 1.0
C1' A:MCY1 4.7 0.0 1.0
H6 A:DC2 4.7 0.0 1.0
C5' A:MCY1 4.7 0.0 1.0
H4' A:DC2 4.8 0.0 1.0
O4' A:MCY1 5.0 0.0 1.0

Phosphorus binding site 2 out of 8 in 106d

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Phosphorus binding site 2 out of 8 in the Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons within 5.0Å range:
probe atom residue distance (Å) B Occ
A:P3

b:0.0
occ:1.00
P A:DT3 0.0 0.0 1.0
OP1 A:DT3 1.5 0.0 1.0
OP2 A:DT3 1.5 0.0 1.0
O3' A:DC2 1.6 0.0 1.0
O5' A:DT3 1.6 0.0 1.0
C3' A:DC2 2.6 0.0 1.0
C5' A:DT3 2.7 0.0 1.0
H3' A:DC2 2.9 0.0 1.0
H5' A:DT3 2.9 0.0 1.0
H5'' A:DT3 2.9 0.0 1.0
H2'' A:DC2 3.0 0.0 1.0
C2' A:DC2 3.2 0.0 1.0
H2' A:DC2 3.4 0.0 1.0
C4' A:DC2 4.0 0.0 1.0
C4' A:DT3 4.0 0.0 1.0
H4' A:DT3 4.0 0.0 1.0
H4' A:DC2 4.1 0.0 1.0
H5'' A:DC2 4.5 0.0 1.0
C1' A:DC2 4.6 0.0 1.0
C5' A:DC2 4.7 0.0 1.0
H3' A:DT3 4.8 0.0 1.0
O4' A:DT3 4.9 0.0 1.0
H1' D:MCY10 4.9 0.0 1.0
O4' A:DC2 4.9 0.0 1.0
C3' A:DT3 4.9 0.0 1.0
H6 A:DC2 5.0 0.0 1.0
H4' D:MCY10 5.0 0.0 1.0
H1' A:DC2 5.0 0.0 1.0

Phosphorus binding site 3 out of 8 in 106d

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Phosphorus binding site 3 out of 8 in the Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 3 of Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P5

b:0.0
occ:1.00
P B:DC5 0.0 0.0 1.0
OP2 B:DC5 1.5 0.0 1.0
OP1 B:DC5 1.5 0.0 1.0
O5' B:DC5 1.6 0.0 1.0
O3' B:MCY4 1.6 0.0 1.0
C5' B:DC5 2.6 0.0 1.0
C3' B:MCY4 2.7 0.0 1.0
H3' B:MCY4 2.8 0.0 1.0
H5' B:DC5 2.8 0.0 1.0
H5'' B:DC5 3.0 0.0 1.0
H2'' B:MCY4 3.1 0.0 1.0
C2' B:MCY4 3.3 0.0 1.0
H2' B:MCY4 3.7 0.0 1.0
C4' B:MCY4 3.9 0.0 1.0
C4' B:DC5 4.0 0.0 1.0
H4' B:MCY4 4.0 0.0 1.0
H4' B:DC5 4.0 0.0 1.0
H5'' B:MCY4 4.4 0.0 1.0
C1' B:MCY4 4.7 0.0 1.0
O4' B:DC5 4.7 0.0 1.0
C5' B:MCY4 4.8 0.0 1.0
H3' B:DC5 4.9 0.0 1.0
O4' B:MCY4 4.9 0.0 1.0

Phosphorus binding site 4 out of 8 in 106d

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Phosphorus binding site 4 out of 8 in the Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 4 of Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons within 5.0Å range:
probe atom residue distance (Å) B Occ
B:P6

b:0.0
occ:1.00
P B:DT6 0.0 0.0 1.0
OP1 B:DT6 1.5 0.0 1.0
OP2 B:DT6 1.5 0.0 1.0
O3' B:DC5 1.6 0.0 1.0
O5' B:DT6 1.6 0.0 1.0
C3' B:DC5 2.6 0.0 1.0
C5' B:DT6 2.6 0.0 1.0
H3' B:DC5 2.8 0.0 1.0
H5'' B:DT6 2.8 0.0 1.0
H5' B:DT6 2.9 0.0 1.0
H2'' B:DC5 3.0 0.0 1.0
C2' B:DC5 3.3 0.0 1.0
H2' B:DC5 3.5 0.0 1.0
C4' B:DC5 4.0 0.0 1.0
C4' B:DT6 4.0 0.0 1.0
H4' B:DC5 4.0 0.0 1.0
H4' B:DT6 4.0 0.0 1.0
H5' B:DC5 4.4 0.0 1.0
C1' B:DC5 4.7 0.0 1.0
C5' B:DC5 4.8 0.0 1.0
H3' B:DT6 4.8 0.0 1.0
O4' B:DT6 4.9 0.0 1.0
H6 B:DC5 4.9 0.0 1.0
O4' B:DC5 4.9 0.0 1.0
C3' B:DT6 5.0 0.0 1.0

Phosphorus binding site 5 out of 8 in 106d

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Phosphorus binding site 5 out of 8 in the Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P8

b:0.0
occ:1.00
P C:DC8 0.0 0.0 1.0
OP1 C:DC8 1.5 0.0 1.0
OP2 C:DC8 1.5 0.0 1.0
O5' C:DC8 1.6 0.0 1.0
O3' C:MCY7 1.6 0.0 1.0
C5' C:DC8 2.6 0.0 1.0
C3' C:MCY7 2.7 0.0 1.0
H2'' C:MCY7 2.8 0.0 1.0
H5' C:DC8 2.8 0.0 1.0
H3' C:MCY7 2.9 0.0 1.0
H5'' C:DC8 3.0 0.0 1.0
C2' C:MCY7 3.2 0.0 1.0
H2' C:MCY7 3.6 0.0 1.0
C4' C:DC8 4.0 0.0 1.0
C4' C:MCY7 4.0 0.0 1.0
H4' C:DC8 4.0 0.0 1.0
H4' C:MCY7 4.0 0.0 1.0
C1' C:MCY7 4.5 0.0 1.0
H3' C:DC8 4.7 0.0 1.0
H1' C:MCY7 4.8 0.0 1.0
H5'' C:MCY7 4.8 0.0 1.0
O4' C:MCY7 4.8 0.0 1.0
O4' C:DC8 4.9 0.0 1.0
C5' C:MCY7 4.9 0.0 1.0
C3' C:DC8 4.9 0.0 1.0

Phosphorus binding site 6 out of 8 in 106d

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Phosphorus binding site 6 out of 8 in the Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 6 of Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons within 5.0Å range:
probe atom residue distance (Å) B Occ
C:P9

b:0.0
occ:1.00
P C:DT9 0.0 0.0 1.0
OP1 C:DT9 1.5 0.0 1.0
OP2 C:DT9 1.5 0.0 1.0
O3' C:DC8 1.6 0.0 1.0
O5' C:DT9 1.6 0.0 1.0
C3' C:DC8 2.6 0.0 1.0
C5' C:DT9 2.6 0.0 1.0
H3' C:DC8 2.8 0.0 1.0
H5'' C:DT9 2.9 0.0 1.0
H5' C:DT9 2.9 0.0 1.0
H2'' C:DC8 3.1 0.0 1.0
C2' C:DC8 3.3 0.0 1.0
H2' C:DC8 3.6 0.0 1.0
C4' C:DC8 3.9 0.0 1.0
C4' C:DT9 4.0 0.0 1.0
H4' C:DC8 4.0 0.0 1.0
H4' C:DT9 4.0 0.0 1.0
H5' C:DC8 4.3 0.0 1.0
C1' C:DC8 4.7 0.0 1.0
C5' C:DC8 4.7 0.0 1.0
H3' C:DT9 4.8 0.0 1.0
O4' C:DT9 4.9 0.0 1.0
O4' C:DC8 4.9 0.0 1.0
C3' C:DT9 4.9 0.0 1.0

Phosphorus binding site 7 out of 8 in 106d

Go back to Phosphorus Binding Sites List in 106d
Phosphorus binding site 7 out of 8 in the Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 7 of Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons within 5.0Å range:
probe atom residue distance (Å) B Occ
D:P11

b:0.0
occ:1.00
P D:DC11 0.0 0.0 1.0
OP1 D:DC11 1.5 0.0 1.0
OP2 D:DC11 1.5 0.0 1.0
O5' D:DC11 1.6 0.0 1.0
O3' D:MCY10 1.6 0.0 1.0
C5' D:DC11 2.6 0.0 1.0
C3' D:MCY10 2.7 0.0 1.0
H5' D:DC11 2.7 0.0 1.0
H2'' D:MCY10 2.7 0.0 1.0
H3' D:MCY10 2.9 0.0 1.0
H5'' D:DC11 3.1 0.0 1.0
C2' D:MCY10 3.1 0.0 1.0
H2' D:MCY10 3.5 0.0 1.0
H4' D:DC11 3.9 0.0 1.0
C4' D:DC11 3.9 0.0 1.0
C4' D:MCY10 4.0 0.0 1.0
H4' D:MCY10 4.0 0.0 1.0
H4' A:DC2 4.2 0.0 1.0
C1' D:MCY10 4.5 0.0 1.0
H5'' D:MCY10 4.6 0.0 1.0
H1' A:DC2 4.7 0.0 1.0
H3' D:DC11 4.7 0.0 1.0
H1' D:MCY10 4.8 0.0 1.0
O4' D:MCY10 4.8 0.0 1.0
C3' D:DC11 4.9 0.0 1.0
O4' D:DC11 4.9 0.0 1.0
C5' D:MCY10 4.9 0.0 1.0

Phosphorus binding site 8 out of 8 in 106d

Go back to Phosphorus Binding Sites List in 106d
Phosphorus binding site 8 out of 8 in the Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 8 of Solution Structures of the I-Motif Tetramers of D(Tcc), D(5MCCT) and D(T5MCC). Novel Noe Connections Between Amino Protons and Sugar Protons within 5.0Å range:
probe atom residue distance (Å) B Occ
D:P12

b:0.0
occ:1.00
P D:DT12 0.0 0.0 1.0
OP1 D:DT12 1.5 0.0 1.0
OP2 D:DT12 1.5 0.0 1.0
O5' D:DT12 1.6 0.0 1.0
O3' D:DC11 1.6 0.0 1.0
C3' D:DC11 2.6 0.0 1.0
C5' D:DT12 2.7 0.0 1.0
H5' D:DT12 2.7 0.0 1.0
H3' D:DC11 2.8 0.0 1.0
H2'' D:DC11 3.0 0.0 1.0
H4' D:DT12 3.2 0.0 1.0
C2' D:DC11 3.2 0.0 1.0
H5'' D:DT12 3.5 0.0 1.0
C4' D:DT12 3.5 0.0 1.0
H2' D:DC11 3.5 0.0 1.0
C4' D:DC11 4.0 0.0 1.0
H4' D:DC11 4.1 0.0 1.0
H5' D:DC11 4.3 0.0 1.0
O4' D:DT12 4.4 0.0 1.0
H1' A:MCY1 4.6 0.0 1.0
C1' D:DC11 4.6 0.0 1.0
C3' D:DT12 4.7 0.0 1.0
C5' D:DC11 4.8 0.0 1.0
O3' D:DT12 4.9 0.0 1.0
H3' D:DT12 4.9 0.0 1.0
O4' D:DC11 4.9 0.0 1.0

Reference:

J.L.Leroy, M.Gueron. Solution Structures of the I-Motif Tetramers of D(Tcc), D(5METHYLCCT) and D(T5METHYLCC): Novel Noe Connections Between Amino Protons and Sugar Protons. Structure V. 3 101 1995.
ISSN: ISSN 0969-2126
PubMed: 7743125
DOI: 10.1016/S0969-2126(01)00138-1
Page generated: Fri Sep 25 11:04:51 2020

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