Fluorine in PDB 8val: Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation

Enzymatic activity of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation

All present enzymatic activity of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation:
2.7.7.7;

Other elements in 8val:

The structure of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation also contains other interesting chemical elements:

Zinc (Zn) 4 atoms
Magnesium (Mg) 3 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation (pdb code 8val). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 9 binding sites of Fluorine where determined in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation, PDB code: 8val:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Fluorine binding site 1 out of 9 in 8val

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Fluorine binding site 1 out of 9 in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F403

b:72.3
occ:1.00
 F1 B:BEF403 0.0 72.3 1.0
MG B:MG404 1.5 72.3 1.0
BE B:BEF403 1.5 72.3 1.0
O1B B:ADP402 2.3 72.3 1.0
F2 B:BEF403 2.6 72.3 1.0
F3 B:BEF403 2.6 72.3 1.0
OG1 B:THR52 3.1 52.0 1.0
NH2 C:ARG169 3.2 43.9 1.0
PB B:ADP402 3.6 72.3 1.0
OE1 C:GLU144 3.6 51.1 1.0
OE2 B:GLU127 3.7 46.0 1.0
O3B B:ADP402 3.8 72.3 1.0
CB B:THR52 4.0 52.0 1.0
O2A B:ADP402 4.3 72.3 1.0
CZ C:ARG169 4.4 43.9 1.0
CD C:GLU144 4.5 51.1 1.0
NZ B:LYS51 4.6 51.3 1.0
O2B B:ADP402 4.6 72.3 1.0
OE2 C:GLU144 4.6 51.1 1.0
NH2 B:ARG215 4.7 48.6 1.0
O3A B:ADP402 4.7 72.3 1.0
NH1 C:ARG169 4.7 43.9 1.0
CD B:GLU127 4.8 46.0 1.0
CG2 B:THR52 4.8 52.0 1.0
CD C:LYS141 4.8 46.2 1.0

Fluorine binding site 2 out of 9 in 8val

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Fluorine binding site 2 out of 9 in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F403

b:72.3
occ:1.00
 F2 B:BEF403 0.0 72.3 1.0
BE B:BEF403 1.5 72.3 1.0
O3B B:ADP402 2.2 72.3 1.0
NH2 C:ARG169 2.5 43.9 1.0
NH1 C:ARG169 2.6 43.9 1.0
F3 B:BEF403 2.6 72.3 1.0
F1 B:BEF403 2.6 72.3 1.0
CZ C:ARG169 2.9 43.9 1.0
O1B B:ADP402 3.0 72.3 1.0
NH2 B:ARG215 3.1 48.6 1.0
PB B:ADP402 3.2 72.3 1.0
MG B:MG404 3.7 72.3 1.0
OG1 C:THR165 3.8 39.6 1.0
O3A B:ADP402 4.1 72.3 1.0
CZ B:ARG215 4.1 48.6 1.0
NE C:ARG169 4.2 43.9 1.0
OE2 B:GLU127 4.3 46.0 1.0
O2B B:ADP402 4.3 72.3 1.0
OE1 C:GLU144 4.4 51.1 1.0
NZ B:LYS51 4.5 51.3 1.0
NE B:ARG215 4.6 48.6 1.0
N B:GLY48 4.7 52.4 1.0
O2A B:ADP402 4.7 72.3 1.0

Fluorine binding site 3 out of 9 in 8val

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Fluorine binding site 3 out of 9 in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F403

b:72.3
occ:1.00
 F3 B:BEF403 0.0 72.3 1.0
BE B:BEF403 1.6 72.3 1.0
OE2 B:GLU127 2.2 46.0 1.0
F2 B:BEF403 2.6 72.3 1.0
F1 B:BEF403 2.6 72.3 1.0
CD B:GLU127 3.4 46.0 1.0
OG1 B:THR157 3.4 50.9 1.0
MG B:MG404 3.5 72.3 1.0
NZ B:LYS51 3.6 51.3 1.0
O3B B:ADP402 3.7 72.3 1.0
O1B B:ADP402 3.7 72.3 1.0
OE1 B:GLU127 4.0 46.0 1.0
NH2 C:ARG169 4.1 43.9 1.0
CE B:LYS51 4.2 51.3 1.0
PB B:ADP402 4.3 72.3 1.0
CG B:GLU127 4.5 46.0 1.0
NH1 C:ARG169 4.6 43.9 1.0
O2B B:ADP402 4.7 72.3 1.0
OG1 C:THR165 4.8 39.6 1.0
CZ C:ARG169 4.8 43.9 1.0
CB B:THR157 4.8 50.9 1.0

Fluorine binding site 4 out of 9 in 8val

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Fluorine binding site 4 out of 9 in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F403

b:72.3
occ:1.00
 F1 C:BEF403 0.0 72.3 1.0
BE C:BEF403 1.6 72.3 1.0
MG C:MG404 2.1 72.3 1.0
O1B C:ADP402 2.2 72.3 1.0
F3 C:BEF403 2.6 72.3 1.0
F2 C:BEF403 2.7 72.3 1.0
OG1 C:THR52 3.1 45.3 1.0
PB C:ADP402 3.3 72.3 1.0
OE2 C:GLU127 3.6 45.1 1.0
OE2 D:GLU144 3.6 42.0 1.0
O3B C:ADP402 3.6 72.3 1.0
OD2 C:ASP126 3.7 46.5 1.0
NZ C:LYS51 3.7 45.0 1.0
OD1 C:ASP126 3.7 46.5 1.0
O2B C:ADP402 4.0 72.3 1.0
CE C:LYS51 4.0 45.0 1.0
NH2 D:ARG169 4.1 39.1 1.0
CG C:ASP126 4.2 46.5 1.0
CB C:THR52 4.2 45.3 1.0
O2A C:ADP402 4.5 72.3 1.0
NH2 C:ARG215 4.6 43.3 1.0
CD D:GLU144 4.6 42.0 1.0
O3A C:ADP402 4.7 72.3 1.0
CD C:GLU127 4.8 45.1 1.0
N C:THR52 4.8 45.3 1.0
OE1 D:GLU144 4.8 42.0 1.0

Fluorine binding site 5 out of 9 in 8val

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Fluorine binding site 5 out of 9 in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F403

b:72.3
occ:1.00
 F2 C:BEF403 0.0 72.3 1.0
BE C:BEF403 1.6 72.3 1.0
O3B C:ADP402 2.3 72.3 1.0
F3 C:BEF403 2.5 72.3 1.0
F1 C:BEF403 2.7 72.3 1.0
NH2 D:ARG169 2.8 39.1 1.0
O1B C:ADP402 2.9 72.3 1.0
NH1 D:ARG169 3.0 39.1 1.0
NH2 C:ARG215 3.0 43.3 1.0
OE2 D:GLU144 3.0 42.0 1.0
PB C:ADP402 3.2 72.3 1.0
CZ D:ARG169 3.3 39.1 1.0
CZ C:ARG215 4.1 43.3 1.0
NZ C:LYS51 4.1 45.0 1.0
MG C:MG404 4.2 72.3 1.0
CD D:GLU144 4.3 42.0 1.0
O2B C:ADP402 4.3 72.3 1.0
O3A C:ADP402 4.3 72.3 1.0
N C:GLY48 4.5 39.4 1.0
NE C:ARG215 4.5 43.3 1.0
OE2 C:GLU127 4.6 45.1 1.0
NE D:ARG169 4.6 39.1 1.0
O2A C:ADP402 4.6 72.3 1.0

Fluorine binding site 6 out of 9 in 8val

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Fluorine binding site 6 out of 9 in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F403

b:72.3
occ:1.00
 F3 C:BEF403 0.0 72.3 1.0
BE C:BEF403 1.5 72.3 1.0
NZ C:LYS51 2.3 45.0 1.0
F2 C:BEF403 2.5 72.3 1.0
F1 C:BEF403 2.6 72.3 1.0
O3B C:ADP402 3.1 72.3 1.0
CE C:LYS51 3.1 45.0 1.0
O1B C:ADP402 3.6 72.3 1.0
PB C:ADP402 3.7 72.3 1.0
OG1 C:THR157 3.7 44.6 1.0
OE2 C:GLU127 3.7 45.1 1.0
O2B C:ADP402 3.8 72.3 1.0
CD C:LYS51 4.5 45.0 1.0
MG C:MG404 4.6 72.3 1.0
NH2 D:ARG169 4.7 39.1 1.0
CD C:GLU127 4.7 45.1 1.0
CG2 D:THR165 4.8 39.2 1.0
CA C:ARG47 4.8 41.2 1.0
CB C:THR157 4.9 44.6 1.0
O C:THR156 4.9 45.1 1.0
N C:GLY48 4.9 39.4 1.0
OE1 C:GLU127 4.9 45.1 1.0

Fluorine binding site 7 out of 9 in 8val

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Fluorine binding site 7 out of 9 in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 7 of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
D:F403

b:72.3
occ:1.00
 F1 D:BEF403 0.0 72.3 1.0
BE D:BEF403 1.6 72.3 1.0
MG D:MG404 2.5 72.3 1.0
F3 D:BEF403 2.6 72.3 1.0
F2 D:BEF403 2.7 72.3 1.0
O1B D:ADP402 3.0 72.3 1.0
OG1 D:THR52 3.3 48.1 1.0
OE2 D:GLU127 3.7 46.8 1.0
PB D:ADP402 3.8 72.3 1.0
CG D:LYS51 4.0 48.9 1.0
NH2 E:ARG158 4.0 53.4 1.0
O3B D:ADP402 4.1 72.3 1.0
O2B D:ADP402 4.1 72.3 1.0
CD D:LYS51 4.3 48.9 1.0
NZ D:LYS51 4.4 48.9 1.0
CB D:THR52 4.5 48.1 1.0
O D:ALA155 4.7 42.3 1.0
CD D:GLU127 4.7 46.8 1.0
N D:THR52 4.8 48.1 1.0

Fluorine binding site 8 out of 9 in 8val

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Fluorine binding site 8 out of 9 in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 8 of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
D:F403

b:72.3
occ:1.00
 F2 D:BEF403 0.0 72.3 1.0
BE D:BEF403 1.6 72.3 1.0
F3 D:BEF403 2.6 72.3 1.0
O3B D:ADP402 2.6 72.3 1.0
F1 D:BEF403 2.7 72.3 1.0
NH2 E:ARG158 3.1 53.4 1.0
O1B D:ADP402 3.2 72.3 1.0
PB D:ADP402 3.5 72.3 1.0
NH1 E:ARG158 3.7 53.4 1.0
CZ E:ARG158 3.8 53.4 1.0
NZ D:LYS51 4.0 48.9 1.0
OE2 D:GLU127 4.1 46.8 1.0
O2B D:ADP402 4.1 72.3 1.0
CG2 E:THR154 4.2 51.8 1.0
N D:GLY48 4.2 50.2 1.0
CA D:ARG47 4.2 53.9 1.0
MG D:MG404 4.3 72.3 1.0
CB D:ARG47 4.4 53.9 1.0
NH2 D:ARG215 4.5 58.3 1.0
CB D:THR157 4.7 48.6 1.0
O3A D:ADP402 4.7 72.3 1.0
C D:ARG47 4.8 53.9 1.0

Fluorine binding site 9 out of 9 in 8val

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Fluorine binding site 9 out of 9 in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 9 of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in A Open-Dnap/T Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
D:F403

b:72.3
occ:1.00
 F3 D:BEF403 0.0 72.3 1.0
BE D:BEF403 1.6 72.3 1.0
NZ D:LYS51 2.2 48.9 1.0
F1 D:BEF403 2.6 72.3 1.0
F2 D:BEF403 2.6 72.3 1.0
CD D:LYS51 3.0 48.9 1.0
CE D:LYS51 3.1 48.9 1.0
CB D:THR157 3.4 48.6 1.0
CG D:LYS51 3.5 48.9 1.0
O3B D:ADP402 3.7 72.3 1.0
CA D:THR157 3.8 48.6 1.0
N D:THR157 3.9 48.6 1.0
O2B D:ADP402 3.9 72.3 1.0
OG1 D:THR157 4.1 48.6 1.0
C D:THR156 4.2 44.5 1.0
PB D:ADP402 4.2 72.3 1.0
O D:THR156 4.2 44.5 1.0
O1B D:ADP402 4.2 72.3 1.0
CG2 D:THR157 4.4 48.6 1.0
O D:GLY45 4.4 47.4 1.0
OE2 D:GLU127 4.6 46.8 1.0
CA D:ARG47 4.7 53.9 1.0
O D:THR46 4.7 49.2 1.0
MG D:MG404 5.0 72.3 1.0
CB D:LYS51 5.0 48.9 1.0

Reference:

J.T.Landeck, J.Pajak, E.K.Norman, E.L.Sedivy, B.A.Kelch. Differences Between Bacteria and Eukaryotes in Clamp Loader Mechanism, A Conserved Process Underlying Dna Replication. J.Biol.Chem. 07166 2024.
ISSN: ESSN 1083-351X
PubMed: 38490435
DOI: 10.1016/J.JBC.2024.107166
Page generated: Sat Aug 3 01:24:49 2024

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