Phosphorus in PDB 1a4d: Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure

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>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40;

Binding sites:

The binding sites of Phosphorus atom in the Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure (pdb code 1a4d). This binding sites where shown within 5.0 Angstroms radius around Phosphorus atom.
In total 40 binding sites of Phosphorus where determined in the Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure, PDB code: 1a4d:
Jump to Phosphorus binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Phosphorus binding site 1 out of 40 in the Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 1 of Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:P69 b:3.0 occ:1.00 P A:G69 0.0 3.0 1.0 OP1 A:G69 1.5 3.0 1.0 OP2 A:G69 1.5 3.0 1.0 O5' A:G69 1.6 2.7 1.0 O3' A:G68 1.6 3.3 1.0 C3' A:G68 2.6 3.4 1.0 C5' A:G69 2.6 2.7 1.0 H3' A:G68 2.7 3.2 1.0 H5'' A:G69 2.7 2.8 1.0 H5' A:G69 3.1 2.8 1.0 HO2' A:G68 3.2 3.5 1.0 H2' A:G68 3.4 3.1 1.0 C2' A:G68 3.4 3.4 1.0 H3' A:G69 3.6 2.3 1.0 OP2 A:C70 3.6 2.2 1.0 O2' A:G68 3.7 3.6 1.0 H8 A:G69 3.8 2.5 1.0 C4' A:G69 3.9 2.6 1.0 C4' A:G68 3.9 3.8 1.0 H5'' A:G68 4.0 4.0 1.0 H4' A:G68 4.1 3.9 1.0 C3' A:G69 4.2 2.4 1.0 C5' A:G68 4.5 3.9 1.0 O3' A:G69 4.5 2.4 1.0 H4' A:G69 4.6 2.8 1.0 O4' A:G69 4.6 2.6 1.0 HO5' A:G68 4.7 3.6 1.0 P A:C70 4.7 2.3 1.0 C1' A:G68 4.8 3.6 1.0 C8 A:G69 4.9 2.4 1.0 O4' A:G68 5.0 3.8 1.0

Phosphorus binding site 2 out of 40 in the Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 2 of Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:P70 b:2.3 occ:1.00 P A:C70 0.0 2.3 1.0 OP1 A:C70 1.5 2.4 1.0 OP2 A:C70 1.5 2.2 1.0 O5' A:C70 1.6 2.1 1.0 O3' A:G69 1.6 2.4 1.0 H3' A:G69 2.6 2.3 1.0 C3' A:G69 2.6 2.4 1.0 C5' A:C70 2.6 2.2 1.0 H5' A:C70 2.7 2.3 1.0 H6 A:C70 3.0 2.0 1.0 H5'' A:C70 3.1 2.1 1.0 HO2' A:G69 3.5 2.6 1.0 C2' A:G69 3.6 2.3 1.0 H2' A:G69 3.6 2.1 1.0 C4' A:G69 3.8 2.6 1.0 C4' A:C70 3.9 2.0 1.0 O4' A:C70 4.0 2.1 1.0 H4' A:G69 4.1 2.8 1.0 C6 A:C70 4.1 1.9 1.0 O5' A:G69 4.1 2.7 1.0 O2' A:G69 4.1 2.5 1.0 H5'' A:G69 4.2 2.8 1.0 C5' A:G69 4.3 2.7 1.0 H5 A:C70 4.3 1.9 1.0 H3' A:C70 4.4 1.7 1.0 OP1 A:G69 4.6 3.0 1.0 H4' A:C70 4.6 2.1 1.0 C5 A:C70 4.6 1.8 1.0 P A:G69 4.7 3.0 1.0 C3' A:C70 4.7 1.8 1.0 OP2 A:G69 4.8 3.0 1.0 C1' A:G69 4.9 2.4 1.0 O4' A:G69 4.9 2.6 1.0

Phosphorus binding site 3 out of 40 in the Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 3 of Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:P71 b:1.5 occ:1.00 P A:C71 0.0 1.5 1.0 OP1 A:C71 1.5 1.5 1.0 OP2 A:C71 1.5 1.5 1.0 O5' A:C71 1.6 1.3 1.0 O3' A:C70 1.6 1.8 1.0 C3' A:C70 2.6 1.8 1.0 C5' A:C71 2.6 1.3 1.0 H3' A:C70 2.7 1.7 1.0 H5'' A:C71 2.8 1.3 1.0 H5' A:C71 3.0 1.5 1.0 H6 A:C71 3.2 1.2 1.0 H2' A:C70 3.4 1.6 1.0 HO2' A:C70 3.4 1.9 1.0 C2' A:C70 3.4 1.7 1.0 H3' A:C71 3.7 1.0 1.0 O2' A:C70 3.9 1.8 1.0 C4' A:C70 3.9 2.0 1.0 C4' A:C71 3.9 1.2 1.0 H5'' A:C70 4.0 2.1 1.0 H4' A:C70 4.1 2.1 1.0 OP2 A:G72 4.2 1.0 1.0 C6 A:C71 4.2 1.1 1.0 C3' A:C71 4.3 1.0 1.0 H5 A:C71 4.4 1.2 1.0 O4' A:C71 4.4 1.2 1.0 C5' A:C70 4.5 2.2 1.0 N7 A:G72 4.7 0.8 1.0 H4' A:C71 4.7 1.2 1.0 C1' A:C70 4.8 1.9 1.0 C5 A:C71 4.8 1.1 1.0 O4' A:C70 5.0 2.1 1.0

Phosphorus binding site 4 out of 40 in the Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 4 of Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:P72 b:0.9 occ:1.00 P A:G72 0.0 0.9 1.0 OP1 A:G72 1.5 0.9 1.0 OP2 A:G72 1.5 1.0 1.0 O5' A:G72 1.6 0.8 1.0 O3' A:C71 1.6 0.9 1.0 H3' A:C71 2.6 1.0 1.0 C3' A:C71 2.6 1.0 1.0 C5' A:G72 2.6 0.8 1.0 H5' A:G72 2.8 0.9 1.0 H8 A:G72 2.9 0.7 1.0 H5'' A:G72 3.1 0.9 1.0 HO2' A:C71 3.4 1.0 1.0 C2' A:C71 3.6 0.9 1.0 H2' A:C71 3.7 0.8 1.0 C4' A:C71 3.8 1.2 1.0 H5'' A:C71 3.9 1.3 1.0 C4' A:G72 3.9 0.7 1.0 H4' A:C71 4.0 1.2 1.0 C8 A:G72 4.0 0.7 1.0 O2' A:C71 4.0 0.9 1.0 O4' A:G72 4.1 0.6 1.0 H3' A:G72 4.1 0.7 1.0 C5' A:C71 4.2 1.3 1.0 O5' A:C71 4.4 1.3 1.0 C3' A:G72 4.6 0.6 1.0 H4' A:G72 4.7 0.7 1.0 N7 A:G72 4.8 0.8 1.0 C1' A:C71 4.9 1.0 1.0 O4' A:C71 5.0 1.2 1.0 OP1 A:C71 5.0 1.5 1.0 N9 A:G72 5.0 0.6 1.0 OP1 B:A101 5.0 1.7 1.0

Phosphorus binding site 5 out of 40 in the Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 5 of Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:P73 b:0.7 occ:1.00 P A:A73 0.0 0.7 1.0 OP1 A:A73 1.5 0.9 1.0 OP2 A:A73 1.5 1.1 1.0 O5' A:A73 1.6 0.8 1.0 O3' A:G72 1.6 0.7 1.0 C3' A:G72 2.6 0.6 1.0 C5' A:A73 2.6 1.0 1.0 H5' A:A73 2.7 1.1 1.0 H3' A:G72 2.8 0.7 1.0 HO2' A:G72 2.9 0.6 1.0 H2' A:G72 3.1 0.5 1.0 C2' A:G72 3.2 0.5 1.0 H5'' A:A73 3.4 1.1 1.0 O2' A:G72 3.5 0.5 1.0 C4' A:A73 3.6 0.9 1.0 H4' A:A73 3.7 1.0 1.0 O4' A:A73 3.8 0.7 1.0 OP2 B:A101 3.9 1.7 1.0 C4' A:G72 4.0 0.7 1.0 H4' A:G72 4.1 0.7 1.0 H8 A:A73 4.2 0.7 1.0 H62 B:A101 4.4 1.2 1.0 H5'' A:G72 4.4 0.9 1.0 H5'' B:G100 4.6 2.3 1.0 C1' A:G72 4.6 0.5 1.0 N7 B:A101 4.7 1.2 1.0 C5' A:G72 4.7 0.8 1.0 O6 B:G102 4.8 1.0 1.0 N7 B:G102 4.9 1.0 1.0 O4' A:G72 4.9 0.6 1.0

Phosphorus binding site 6 out of 40 in the Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 6 of Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:P74 b:1.2 occ:1.00 P A:U74 0.0 1.2 1.0 OP1 A:U74 1.5 1.4 1.0 OP2 A:U74 1.5 1.2 1.0 O5' A:U74 1.6 1.2 1.0 O3' A:A73 1.6 1.1 1.0 H3' A:A73 2.5 1.0 1.0 C3' A:A73 2.6 1.0 1.0 C5' A:U74 2.6 1.2 1.0 H5'' A:U74 2.9 1.4 1.0 H5' A:U74 2.9 1.2 1.0 C4' A:A73 3.7 0.9 1.0 HO2' A:A73 3.7 1.0 1.0 H5'' A:A73 3.7 1.1 1.0 C2' A:A73 3.8 0.9 1.0 H3' A:U74 3.8 1.2 1.0 H4' A:A73 3.8 1.0 1.0 H5' A:A73 3.9 1.1 1.0 H2' A:A73 3.9 0.9 1.0 C4' A:U74 3.9 1.2 1.0 H6 A:U74 4.0 1.1 1.0 C5' A:A73 4.0 1.0 1.0 OP2 A:G75 4.2 1.5 1.0 O2' A:A73 4.3 1.0 1.0 C3' A:U74 4.3 1.2 1.0 O4' A:U74 4.5 1.1 1.0 H4' A:U74 4.7 1.2 1.0 O3' A:U74 4.8 1.3 1.0 O4' A:A73 4.9 0.7 1.0 C1' A:A73 4.9 0.8 1.0 C6 A:U74 5.0 1.0 1.0

Phosphorus binding site 7 out of 40 in the Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 7 of Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:P75 b:1.4 occ:1.00 P A:G75 0.0 1.4 1.0 OP1 A:G75 1.5 1.5 1.0 OP2 A:G75 1.5 1.5 1.0 O5' A:G75 1.6 1.4 1.0 O3' A:U74 1.6 1.3 1.0 H3' A:U74 2.6 1.2 1.0 C3' A:U74 2.6 1.2 1.0 C5' A:G75 2.6 1.4 1.0 H5' A:G75 2.8 1.5 1.0 H5'' A:G75 3.1 1.5 1.0 HO2' A:U74 3.4 1.5 1.0 H8 A:G75 3.5 1.3 1.0 C2' A:U74 3.5 1.2 1.0 H2' A:U74 3.6 1.2 1.0 C4' A:U74 3.9 1.2 1.0 C4' A:G75 3.9 1.4 1.0 O2' A:U74 4.0 1.2 1.0 O4' A:G75 4.1 1.4 1.0 H4' A:U74 4.1 1.2 1.0 H5'' A:U74 4.2 1.4 1.0 O5' A:U74 4.2 1.2 1.0 H3' A:G75 4.3 1.4 1.0 C5' A:U74 4.3 1.2 1.0 C8 A:G75 4.5 1.3 1.0 H4' A:G75 4.7 1.5 1.0 C3' A:G75 4.7 1.4 1.0 C1' A:U74 4.8 1.1 1.0 OP2 A:G76 4.9 1.5 1.0 O4' A:U74 4.9 1.1 1.0

Phosphorus binding site 8 out of 40 in the Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 8 of Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:P76 b:1.5 occ:1.00 P A:G76 0.0 1.5 1.0 OP1 A:G76 1.5 1.6 1.0 OP2 A:G76 1.5 1.5 1.0 O5' A:G76 1.6 1.5 1.0 O3' A:G75 1.6 1.5 1.0 H3' A:G75 2.6 1.4 1.0 C3' A:G75 2.6 1.4 1.0 C5' A:G76 2.6 1.5 1.0 H5' A:G76 2.7 1.6 1.0 H5'' A:G76 3.2 1.6 1.0 H5'' A:G75 3.5 1.5 1.0 HO2' A:G75 3.6 1.5 1.0 H8 A:G76 3.6 1.4 1.0 C2' A:G75 3.7 1.4 1.0 C4' A:G75 3.8 1.4 1.0 H2' A:G75 3.8 1.4 1.0 O4' A:G76 3.8 1.4 1.0 C4' A:G76 3.8 1.5 1.0 H4' A:G75 4.0 1.5 1.0 C5' A:G75 4.1 1.4 1.0 O2' A:G75 4.1 1.5 1.0 H4' A:G76 4.4 1.5 1.0 C8 A:G76 4.6 1.4 1.0 O5' A:G75 4.6 1.4 1.0 H3' A:G76 4.8 1.5 1.0 O4' A:G75 4.9 1.4 1.0 C1' A:G75 4.9 1.4 1.0 C3' A:G76 5.0 1.5 1.0

Phosphorus binding site 9 out of 40 in the Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 9 of Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:P77 b:1.5 occ:1.00 P A:U77 0.0 1.5 1.0 OP1 A:U77 1.5 1.6 1.0 OP2 A:U77 1.5 1.5 1.0 O5' A:U77 1.6 1.5 1.0 O3' A:G76 1.6 1.6 1.0 C3' A:G76 2.6 1.5 1.0 C5' A:U77 2.6 1.5 1.0 H3' A:G76 2.7 1.5 1.0 H5'' A:U77 2.8 1.6 1.0 H5' A:U77 3.0 1.5 1.0 H6 A:U77 3.2 1.4 1.0 HO2' A:G76 3.3 1.5 1.0 H2' A:G76 3.4 1.5 1.0 C2' A:G76 3.4 1.4 1.0 O2' A:G76 3.8 1.4 1.0 H3' A:U77 3.9 1.6 1.0 C4' A:U77 3.9 1.5 1.0 C4' A:G76 3.9 1.5 1.0 H5'' A:G76 3.9 1.6 1.0 H4' A:G76 4.1 1.5 1.0 C6 A:U77 4.2 1.4 1.0 O4' A:U77 4.3 1.4 1.0 H5 A:U77 4.3 1.4 1.0 C3' A:U77 4.4 1.5 1.0 H21 B:G98 4.4 1.5 1.0 C5' A:G76 4.5 1.5 1.0 C5 A:U77 4.7 1.4 1.0 H4' A:U77 4.7 1.5 1.0 C1' A:G76 4.8 1.4 1.0 H1 B:G98 4.8 1.4 1.0 OP2 A:A78 4.9 1.7 1.0 O4' A:G76 5.0 1.4 1.0

Phosphorus binding site 10 out of 40 in the Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure


Mono view


Stereo pair view

A full contact list of Phosphorus with other atoms in the P binding site number 10 of Loop D/Loop E Arm of Escherichia Coli 5S Rrna, uc(Nmr), Minimized Average Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:P78 b:1.7 occ:1.00 P A:A78 0.0 1.7 1.0 OP1 A:A78 1.5 1.7 1.0 OP2 A:A78 1.5 1.7 1.0 O5' A:A78 1.6 1.7 1.0 O3' A:U77 1.6 1.6 1.0 H3' A:U77 2.6 1.6 1.0 C3' A:U77 2.6 1.5 1.0 C5' A:A78 2.6 1.7 1.0 H5' A:A78 2.7 1.7 1.0 H5'' A:A78 3.1 1.8 1.0 HO2' A:U77 3.3 1.6 1.0 H2' A:U77 3.5 1.5 1.0 C2' A:U77 3.5 1.5 1.0 O2' A:U77 3.9 1.5 1.0 C4' A:U77 3.9 1.5 1.0 C4' A:A78 3.9 1.7 1.0 H8 A:A78 3.9 1.6 1.0 H5'' A:U77 4.0 1.6 1.0 O4' A:A78 4.0 1.6 1.0 H4' A:U77 4.1 1.5 1.0 C5' A:U77 4.5 1.5 1.0 H4' A:A78 4.6 1.7 1.0 H3' A:A78 4.6 1.7 1.0 C1' A:U77 4.8 1.4 1.0 C3' A:A78 4.9 1.7 1.0 C8 A:A78 4.9 1.6 1.0 O5' A:U77 4.9 1.5 1.0 O4' A:U77 5.0 1.4 1.0

A.Dallas, P.B.Moore. The Loop E-Loop D Region of Escherichia Coli 5S Rrna: the Solution Structure Reveals An Unusual Loop That May Be Important For Binding Ribosomal Proteins. Structure V. 5 1639 1997.
ISSN: ISSN 0969-2126
PubMed: 9438864
DOI: 10.1016/S0969-2126(97)00311-0