Fluorine in PDB 8vas: Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation

Enzymatic activity of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation

All present enzymatic activity of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation:
2.7.7.7;

Other elements in 8vas:

The structure of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation also contains other interesting chemical elements:

Magnesium (Mg) 3 atoms
Zinc (Zn) 4 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 An Altered-Collar Conformation (pdb code 8vas). 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 An Altered-Collar Conformation, PDB code: 8vas:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Fluorine binding site 1 out of 9 in 8vas

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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 An Altered-Collar 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 An Altered-Collar Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F403

b:59.7
occ:1.00
 F1 B:BEF403 0.0 59.7 1.0
BE B:BEF403 1.6 59.7 1.0
MG B:MG404 2.1 59.7 1.0
O1B B:ADP402 2.4 59.7 1.0
O3B B:ADP402 2.4 59.7 1.0
F2 B:BEF403 2.6 59.7 1.0
F3 B:BEF403 2.6 59.7 1.0
NH2 C:ARG169 2.9 22.4 1.0
PB B:ADP402 2.9 59.7 1.0
NH2 B:ARG215 3.2 23.1 1.0
CZ C:ARG169 3.7 22.4 1.0
NH1 C:ARG169 3.8 22.4 1.0
O3A B:ADP402 3.8 59.7 1.0
NZ B:LYS51 4.0 29.3 1.0
O2A B:ADP402 4.0 59.7 1.0
O2B B:ADP402 4.2 59.7 1.0
OG1 C:THR165 4.4 22.1 1.0
N B:GLY48 4.4 28.6 1.0
CZ B:ARG215 4.5 23.1 1.0
CE B:LYS51 4.6 29.3 1.0
OG1 B:THR52 4.6 26.9 1.0
PA B:ADP402 4.6 59.7 1.0
OE2 B:GLU127 4.7 22.6 1.0
NE C:ARG169 4.8 22.4 1.0

Fluorine binding site 2 out of 9 in 8vas

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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 An Altered-Collar 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 An Altered-Collar Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F403

b:59.7
occ:1.00
 F2 B:BEF403 0.0 59.7 1.0
BE B:BEF403 1.5 59.7 1.0
O3B B:ADP402 2.5 59.7 1.0
F3 B:BEF403 2.6 59.7 1.0
F1 B:BEF403 2.6 59.7 1.0
N B:GLY48 2.9 28.6 1.0
CA B:ARG47 3.0 28.7 1.0
OG1 C:THR165 3.3 22.1 1.0
C B:ARG47 3.4 28.7 1.0
NH1 C:ARG169 3.5 22.4 1.0
NH2 B:ARG215 3.7 23.1 1.0
CB B:ARG47 3.8 28.7 1.0
NH2 C:ARG169 3.9 22.4 1.0
CB C:THR165 3.9 22.1 1.0
O B:THR46 3.9 28.4 1.0
PB B:ADP402 4.0 59.7 1.0
CA B:GLY48 4.0 28.6 1.0
N B:ARG47 4.1 28.7 1.0
CZ C:ARG169 4.2 22.4 1.0
O1B B:ADP402 4.4 59.7 1.0
C B:THR46 4.4 28.4 1.0
NZ B:LYS51 4.4 29.3 1.0
MG B:MG404 4.6 59.7 1.0
O3A B:ADP402 4.6 59.7 1.0
O B:ARG47 4.7 28.7 1.0
CA C:THR165 4.7 22.1 1.0
OG1 B:THR157 4.7 32.5 1.0
CZ B:ARG215 4.8 23.1 1.0
O2B B:ADP402 4.8 59.7 1.0
NE B:ARG215 4.9 23.1 1.0

Fluorine binding site 3 out of 9 in 8vas

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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 An Altered-Collar 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 An Altered-Collar Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F403

b:59.7
occ:1.00
 F3 B:BEF403 0.0 59.7 1.0
BE B:BEF403 1.6 59.7 1.0
F2 B:BEF403 2.6 59.7 1.0
F1 B:BEF403 2.6 59.7 1.0
O3B B:ADP402 2.6 59.7 1.0
OG1 B:THR157 2.8 32.5 1.0
CE B:LYS51 3.0 29.3 1.0
NZ B:LYS51 3.0 29.3 1.0
MG B:MG404 3.6 59.7 1.0
PB B:ADP402 3.6 59.7 1.0
O1B B:ADP402 3.6 59.7 1.0
O B:THR46 3.7 28.4 1.0
O2B B:ADP402 4.0 59.7 1.0
CB B:THR157 4.0 32.5 1.0
CG2 B:THR157 4.2 32.5 1.0
O B:THR156 4.3 25.7 1.0
C B:THR46 4.4 28.4 1.0
CD B:LYS51 4.5 29.3 1.0
CA B:ARG47 4.5 28.7 1.0
N B:GLY48 4.5 28.6 1.0
CA B:THR157 4.8 32.5 1.0
N B:ARG47 4.8 28.7 1.0
NH2 C:ARG169 4.8 22.4 1.0
C B:THR156 4.9 25.7 1.0
OG1 C:THR165 5.0 22.1 1.0
C B:ARG47 5.0 28.7 1.0
O3A B:ADP402 5.0 59.7 1.0

Fluorine binding site 4 out of 9 in 8vas

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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 An Altered-Collar 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 An Altered-Collar Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F403

b:59.7
occ:1.00
 F1 C:BEF403 0.0 59.7 1.0
BE C:BEF403 1.6 59.7 1.0
MG C:MG404 2.1 59.7 1.0
O1B C:ADP402 2.3 59.7 1.0
O3B C:ADP402 2.5 59.7 1.0
F3 C:BEF403 2.6 59.7 1.0
F2 C:BEF403 2.7 59.7 1.0
NH2 D:ARG169 2.8 20.3 1.0
PB C:ADP402 2.9 59.7 1.0
NZ C:LYS51 3.4 21.8 1.0
OG1 C:THR52 3.4 23.8 1.0
O2B C:ADP402 3.7 59.7 1.0
NH2 C:ARG215 4.0 19.9 1.0
CZ D:ARG169 4.1 20.3 1.0
O3A C:ADP402 4.2 59.7 1.0
CE C:LYS51 4.4 21.8 1.0
O2A C:ADP402 4.4 59.7 1.0
OE2 C:GLU127 4.6 28.8 1.0
CB C:THR52 4.6 23.8 1.0
NE D:ARG169 4.9 20.3 1.0
OD2 C:ASP126 4.9 25.2 1.0
NH1 D:ARG169 4.9 20.3 1.0
OD1 C:ASP126 5.0 25.2 1.0

Fluorine binding site 5 out of 9 in 8vas

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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 An Altered-Collar 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 An Altered-Collar Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F403

b:59.7
occ:1.00
 F2 C:BEF403 0.0 59.7 1.0
BE C:BEF403 1.6 59.7 1.0
NH2 D:ARG169 2.2 20.3 1.0
NH2 C:ARG215 2.3 19.9 1.0
F3 C:BEF403 2.5 59.7 1.0
O3B C:ADP402 2.5 59.7 1.0
NH1 C:ARG215 2.6 19.9 1.0
F1 C:BEF403 2.7 59.7 1.0
CZ C:ARG215 2.8 19.9 1.0
NE D:ARG169 2.9 20.3 1.0
CZ D:ARG169 3.0 20.3 1.0
PB C:ADP402 3.6 59.7 1.0
O1B C:ADP402 3.6 59.7 1.0
MG C:MG404 3.8 59.7 1.0
N C:GLY48 3.9 20.0 1.0
NE C:ARG215 4.1 19.9 1.0
O3A C:ADP402 4.1 59.7 1.0
NH1 D:ARG169 4.2 20.3 1.0
CD D:ARG169 4.3 20.3 1.0
O2A C:ADP402 4.4 59.7 1.0
CA C:GLY48 4.4 20.0 1.0
OE2 D:GLU144 4.6 24.6 1.0
CB C:ARG47 4.7 22.1 1.0
CG D:ARG169 4.7 20.3 1.0
NZ C:LYS51 4.7 21.8 1.0
CA C:ARG47 4.8 22.1 1.0
C C:ARG47 4.8 22.1 1.0
OG D:SER168 4.8 21.8 1.0
O2B C:ADP402 4.8 59.7 1.0
O D:THR165 4.9 27.5 1.0
PA C:ADP402 5.0 59.7 1.0
CB D:THR165 5.0 27.5 1.0

Fluorine binding site 6 out of 9 in 8vas

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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 An Altered-Collar 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 An Altered-Collar Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F403

b:59.7
occ:1.00
 F3 C:BEF403 0.0 59.7 1.0
BE C:BEF403 1.6 59.7 1.0
F2 C:BEF403 2.5 59.7 1.0
F1 C:BEF403 2.6 59.7 1.0
O3B C:ADP402 2.6 59.7 1.0
NZ C:LYS51 3.1 21.8 1.0
CA C:ARG47 3.6 22.1 1.0
NH2 D:ARG169 3.7 20.3 1.0
N C:GLY48 3.8 20.0 1.0
CB C:ARG47 3.8 22.1 1.0
OG1 C:THR157 3.9 22.4 1.0
CG2 D:THR165 4.0 27.5 1.0
PB C:ADP402 4.0 59.7 1.0
CE C:LYS51 4.2 21.8 1.0
C C:ARG47 4.2 22.1 1.0
CB D:THR165 4.3 27.5 1.0
O1B C:ADP402 4.3 59.7 1.0
NH2 C:ARG215 4.4 19.9 1.0
NH1 C:ARG215 4.5 19.9 1.0
MG C:MG404 4.6 59.7 1.0
O2B C:ADP402 4.6 59.7 1.0
N C:ARG47 4.6 22.1 1.0
CZ D:ARG169 4.6 20.3 1.0
CG2 C:THR157 4.9 22.4 1.0
CA D:THR165 4.9 27.5 1.0
NE D:ARG169 4.9 20.3 1.0
CA C:GLY48 5.0 20.0 1.0
O C:THR46 5.0 20.4 1.0

Fluorine binding site 7 out of 9 in 8vas

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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 An Altered-Collar 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 An Altered-Collar Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
D:F403

b:59.7
occ:1.00
 F1 D:BEF403 0.0 59.7 1.0
BE D:BEF403 1.6 59.7 1.0
MG D:MG404 2.1 59.7 1.0
O1B D:ADP402 2.4 59.7 1.0
F3 D:BEF403 2.6 59.7 1.0
O3B D:ADP402 2.6 59.7 1.0
F2 D:BEF403 2.7 59.7 1.0
PB D:ADP402 2.9 59.7 1.0
NZ D:LYS51 3.0 26.1 1.0
NH2 E:ARG158 3.5 30.6 1.0
OE2 D:GLU127 3.6 22.6 1.0
O2B D:ADP402 3.7 59.7 1.0
NH2 D:ARG215 3.9 30.8 1.0
OG1 D:THR52 4.0 23.4 1.0
O3A D:ADP402 4.3 59.7 1.0
CE D:LYS51 4.4 26.1 1.0
OD1 D:ASP126 4.6 23.1 1.0
CG D:LYS51 4.6 26.1 1.0
CD D:LYS51 4.7 26.1 1.0
O2A D:ADP402 4.7 59.7 1.0
CZ E:ARG158 4.8 30.6 1.0
CD D:GLU127 4.9 22.6 1.0
OE1 E:GLU133 4.9 35.3 1.0

Fluorine binding site 8 out of 9 in 8vas

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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 An Altered-Collar 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 An Altered-Collar Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
D:F403

b:59.7
occ:1.00
 F2 D:BEF403 0.0 59.7 1.0
BE D:BEF403 1.6 59.7 1.0
O3B D:ADP402 2.4 59.7 1.0
NH2 E:ARG158 2.5 30.6 1.0
F3 D:BEF403 2.6 59.7 1.0
F1 D:BEF403 2.7 59.7 1.0
NH2 D:ARG215 3.0 30.8 1.0
NE D:ARG215 3.2 30.8 1.0
N D:GLY48 3.5 28.4 1.0
CZ D:ARG215 3.5 30.8 1.0
PB D:ADP402 3.7 59.7 1.0
CZ E:ARG158 3.7 30.6 1.0
O1B D:ADP402 3.8 59.7 1.0
CB D:ARG47 3.9 30.9 1.0
MG D:MG404 4.0 59.7 1.0
CA D:ARG47 4.1 30.9 1.0
NZ D:LYS51 4.2 26.1 1.0
NE E:ARG158 4.2 30.6 1.0
C D:ARG47 4.2 30.9 1.0
CA D:GLY48 4.3 28.4 1.0
O3A D:ADP402 4.3 59.7 1.0
CD D:ARG215 4.4 30.8 1.0
O2B D:ADP402 4.7 59.7 1.0
NH1 E:ARG158 4.7 30.6 1.0
NH1 D:ARG215 4.7 30.8 1.0
CG D:ARG47 4.9 30.9 1.0
OE1 E:GLU133 5.0 35.3 1.0

Fluorine binding site 9 out of 9 in 8vas

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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 An Altered-Collar 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 An Altered-Collar Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
D:F403

b:59.7
occ:1.00
 F3 D:BEF403 0.0 59.7 1.0
BE D:BEF403 1.6 59.7 1.0
NZ D:LYS51 2.2 26.1 1.0
O3B D:ADP402 2.5 59.7 1.0
F1 D:BEF403 2.6 59.7 1.0
F2 D:BEF403 2.6 59.7 1.0
CA D:ARG47 3.1 30.9 1.0
CB D:ARG47 3.4 30.9 1.0
CE D:LYS51 3.5 26.1 1.0
N D:GLY48 3.6 28.4 1.0
PB D:ADP402 3.8 59.7 1.0
C D:ARG47 3.9 30.9 1.0
N D:ARG47 4.0 30.9 1.0
O2B D:ADP402 4.1 59.7 1.0
OG1 D:THR157 4.1 26.0 1.0
O D:THR46 4.1 28.2 1.0
O1B D:ADP402 4.2 59.7 1.0
C D:THR46 4.3 28.2 1.0
CD D:LYS51 4.5 26.1 1.0
NH2 E:ARG158 4.5 30.6 1.0
MG D:MG404 4.7 59.7 1.0
OE2 D:GLU127 4.7 22.6 1.0
O D:GLY45 4.8 27.5 1.0
CG2 D:THR157 4.8 26.0 1.0
CB D:THR157 4.9 26.0 1.0
CA D:GLY48 4.9 28.4 1.0
CG D:ARG47 4.9 30.9 1.0
CG2 E:THR154 4.9 34.0 1.0
CA D:THR157 5.0 26.0 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 01:32:51 2024

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