Fluorine in PDB 8p4o: Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx

Enzymatic activity of Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx

All present enzymatic activity of Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx:
2.5.1.6; 5.6.1.7;

Other elements in 8p4o:

The structure of Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx also contains other interesting chemical elements:

Potassium (K) 7 atoms
Magnesium (Mg) 7 atoms

Fluorine Binding Sites:

Pages:

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

Binding sites:

The binding sites of Fluorine atom in the Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx (pdb code 8p4o). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 21 binding sites of Fluorine where determined in the Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx, PDB code: 8p4o:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Fluorine binding site 1 out of 21 in 8p4o

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Fluorine binding site 1 out of 21 in the Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1602

b:30.4
occ:1.00
 F1 A:BEF1602 0.0 30.4 1.0
BE A:BEF1602 1.5 30.4 1.0
MG A:MG1601 2.1 26.2 1.0
O3B A:ADP1600 2.1 21.7 1.0
O2B A:ADP1600 2.3 21.7 1.0
F3 A:BEF1602 2.5 30.4 1.0
F2 A:BEF1602 2.5 30.4 1.0
OD2 A:ASP87 2.5 29.0 1.0
PB A:ADP1600 2.5 21.7 1.0
O A:HOH1703 2.8 24.7 1.0
O3A A:ADP1600 3.1 21.7 1.0
O2A A:ADP1600 3.3 21.7 1.0
OD2 A:ASP398 3.6 34.5 1.0
CG A:ASP87 3.8 29.0 1.0
N A:GLY88 3.8 26.8 1.0
PA A:ADP1600 3.9 21.7 1.0
O A:HOH1701 3.9 26.0 1.0
O1B A:ADP1600 4.0 21.7 1.0
K A:K1603 4.1 29.4 1.0
CG A:ASP398 4.5 34.5 1.0
OD1 A:ASP87 4.5 29.0 1.0
CA A:GLY88 4.5 26.8 1.0
CA A:ASP87 4.6 29.0 1.0
C A:ASP87 4.7 29.0 1.0
CB A:ASP87 4.7 29.0 1.0
N A:THR89 4.8 25.4 1.0
O5' A:ADP1600 4.9 21.7 1.0
OG1 A:THR89 5.0 25.4 1.0
O1A A:ADP1600 5.0 21.7 1.0

Fluorine binding site 2 out of 21 in 8p4o

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Fluorine binding site 2 out of 21 in the Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1602

b:30.4
occ:1.00
 F2 A:BEF1602 0.0 30.4 1.0
BE A:BEF1602 1.5 30.4 1.0
F3 A:BEF1602 2.5 30.4 1.0
F1 A:BEF1602 2.5 30.4 1.0
O3B A:ADP1600 2.9 21.7 1.0
OG1 A:THR89 3.3 25.4 1.0
OD2 A:ASP398 3.4 34.5 1.0
CG A:ASP52 3.9 29.2 1.0
N A:GLY53 3.9 25.9 1.0
OD1 A:ASP52 4.0 29.2 1.0
CA A:ASP52 4.1 29.2 1.0
OD2 A:ASP52 4.1 29.2 1.0
OD2 A:ASP87 4.2 29.0 1.0
PB A:ADP1600 4.2 21.7 1.0
CB A:ASP52 4.3 29.2 1.0
CG A:ASP398 4.4 34.5 1.0
MG A:MG1601 4.4 26.2 1.0
N A:THR89 4.4 25.4 1.0
CB A:THR89 4.4 25.4 1.0
O A:HOH1703 4.5 24.7 1.0
K A:K1603 4.5 29.4 1.0
CG2 A:THR89 4.5 25.4 1.0
N A:GLY88 4.5 26.8 1.0
C A:ASP52 4.5 29.2 1.0
O2B A:ADP1600 4.6 21.7 1.0
OD1 A:ASP398 4.6 34.5 1.0
O3A A:ADP1600 4.7 21.7 1.0
CA A:ASP87 4.9 29.0 1.0
CA A:GLY53 4.9 25.9 1.0

Fluorine binding site 3 out of 21 in 8p4o

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Fluorine binding site 3 out of 21 in the Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1602

b:30.4
occ:1.00
 F3 A:BEF1602 0.0 30.4 1.0
O3B A:ADP1600 1.5 21.7 1.0
BE A:BEF1602 1.5 30.4 1.0
F1 A:BEF1602 2.5 30.4 1.0
F2 A:BEF1602 2.5 30.4 1.0
O3A A:ADP1600 2.5 21.7 1.0
PB A:ADP1600 2.5 21.7 1.0
K A:K1603 2.9 29.4 1.0
OG1 A:THR90 3.1 22.7 1.0
OG1 A:THR89 3.5 25.4 1.0
O2B A:ADP1600 3.5 21.7 1.0
O1B A:ADP1600 3.6 21.7 1.0
N A:THR90 3.7 22.7 1.0
CB A:THR90 3.7 22.7 1.0
N A:GLY53 3.8 25.9 1.0
PA A:ADP1600 3.9 21.7 1.0
N A:THR89 4.1 25.4 1.0
O2A A:ADP1600 4.3 21.7 1.0
CA A:THR90 4.4 22.7 1.0
MG A:MG1601 4.4 26.2 1.0
O1A A:ADP1600 4.5 21.7 1.0
CA A:GLY53 4.5 25.9 1.0
CB A:THR89 4.6 25.4 1.0
C A:THR89 4.6 25.4 1.0
CA A:THR89 4.7 25.4 1.0
O A:LYS51 4.7 24.2 1.0
N A:GLY88 4.7 26.8 1.0
OD2 A:ASP87 4.7 29.0 1.0
O A:HOH1703 4.7 24.7 1.0
CA A:ASP52 4.8 29.2 1.0
C A:ASP52 4.8 29.2 1.0
CA A:GLY88 4.9 26.8 1.0
C A:GLY88 4.9 26.8 1.0

Fluorine binding site 4 out of 21 in 8p4o

Go back to Fluorine Binding Sites List in 8p4o
Fluorine binding site 4 out of 21 in the Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F1602

b:29.9
occ:1.00
 F1 B:BEF1602 0.0 29.9 1.0
BE B:BEF1602 1.5 29.9 1.0
O3B B:ADP1600 1.9 23.0 1.0
MG B:MG1601 2.0 30.2 1.0
O2B B:ADP1600 2.5 23.0 1.0
PB B:ADP1600 2.5 23.0 1.0
F3 B:BEF1602 2.5 29.9 1.0
F2 B:BEF1602 2.5 29.9 1.0
O B:HOH1702 2.8 31.5 1.0
OD1 B:ASP87 2.9 29.6 1.0
O3A B:ADP1600 3.0 23.0 1.0
O2A B:ADP1600 3.3 23.0 1.0
O B:HOH1701 3.7 25.4 1.0
PA B:ADP1600 3.8 23.0 1.0
OD2 B:ASP398 3.8 35.0 1.0
K B:K1603 3.9 36.5 1.0
O1B B:ADP1600 3.9 23.0 1.0
CG B:ASP87 4.1 29.6 1.0
N B:GLY88 4.1 26.7 1.0
OD2 B:ASP87 4.8 29.6 1.0
O1A B:ADP1600 4.8 23.0 1.0
CG B:ASP398 4.8 35.0 1.0
OG1 B:THR89 4.8 25.3 1.0
CA B:GLY88 4.8 26.7 1.0
N B:THR89 4.9 25.3 1.0
O5' B:ADP1600 4.9 23.0 1.0
CA B:ASP87 5.0 29.6 1.0

Fluorine binding site 5 out of 21 in 8p4o

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Fluorine binding site 5 out of 21 in the Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F1602

b:29.9
occ:1.00
 F2 B:BEF1602 0.0 29.9 1.0
BE B:BEF1602 1.5 29.9 1.0
F3 B:BEF1602 2.5 29.9 1.0
F1 B:BEF1602 2.5 29.9 1.0
O3B B:ADP1600 2.9 23.0 1.0
OG1 B:THR89 3.3 25.3 1.0
OD2 B:ASP398 3.6 35.0 1.0
OD1 B:ASP87 3.8 29.6 1.0
N B:GLY88 4.2 26.7 1.0
PB B:ADP1600 4.2 23.0 1.0
O B:HOH1702 4.3 31.5 1.0
OD1 B:ASP52 4.3 30.9 1.0
N B:THR89 4.4 25.3 1.0
MG B:MG1601 4.4 30.2 1.0
CG B:ASP398 4.4 35.0 1.0
N B:GLY53 4.4 27.2 1.0
CB B:THR89 4.4 25.3 1.0
CA B:ASP87 4.4 29.6 1.0
CG2 B:THR89 4.5 25.3 1.0
CB B:ASP52 4.6 30.9 1.0
O2B B:ADP1600 4.6 23.0 1.0
CA B:ASP52 4.7 30.9 1.0
CG B:ASP52 4.7 30.9 1.0
OD1 B:ASP398 4.7 35.0 1.0
C B:ASP87 4.8 29.6 1.0
O B:GLY86 4.8 30.4 1.0
CG B:ASP87 4.9 29.6 1.0
O3A B:ADP1600 5.0 23.0 1.0

Fluorine binding site 6 out of 21 in 8p4o

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Fluorine binding site 6 out of 21 in the Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F1602

b:29.9
occ:1.00
 F3 B:BEF1602 0.0 29.9 1.0
BE B:BEF1602 1.5 29.9 1.0
O3B B:ADP1600 2.1 23.0 1.0
F2 B:BEF1602 2.5 29.9 1.0
F1 B:BEF1602 2.5 29.9 1.0
K B:K1603 2.8 36.5 1.0
N B:GLY53 3.1 27.2 1.0
OG1 B:THR90 3.2 23.5 1.0
OG1 B:THR89 3.3 25.3 1.0
PB B:ADP1600 3.3 23.0 1.0
O3A B:ADP1600 3.3 23.0 1.0
CA B:GLY53 3.9 27.2 1.0
CA B:ASP52 4.0 30.9 1.0
C B:ASP52 4.0 30.9 1.0
N B:THR90 4.0 23.5 1.0
CB B:THR90 4.2 23.5 1.0
O2B B:ADP1600 4.3 23.0 1.0
O B:LYS51 4.3 23.2 1.0
O1B B:ADP1600 4.3 23.0 1.0
MG B:MG1601 4.3 30.2 1.0
N B:THR89 4.5 25.3 1.0
PA B:ADP1600 4.6 23.0 1.0
CB B:THR89 4.6 25.3 1.0
CB B:ASP52 4.7 30.9 1.0
CA B:THR90 4.8 23.5 1.0
OD1 B:ASP52 4.8 30.9 1.0
O2A B:ADP1600 4.8 23.0 1.0
CA B:THR89 4.9 25.3 1.0
C B:THR89 4.9 25.3 1.0
N B:VAL54 5.0 28.0 1.0

Fluorine binding site 7 out of 21 in 8p4o

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Fluorine binding site 7 out of 21 in the Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 7 of Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F1602

b:38.4
occ:1.00
 F1 C:BEF1602 0.0 38.4 1.0
BE C:BEF1602 1.5 38.4 1.0
O3B C:ADP1600 1.7 51.5 1.0
F3 C:BEF1602 2.5 38.4 1.0
F2 C:BEF1602 2.5 38.4 1.0
PB C:ADP1600 2.6 51.5 1.0
MG C:MG1601 2.6 34.6 1.0
O2B C:ADP1600 2.6 51.5 1.0
O C:HOH1701 3.0 31.6 1.0
O3A C:ADP1600 3.3 51.5 1.0
OD1 C:ASP87 3.4 32.3 1.0
O2A C:ADP1600 3.5 51.5 1.0
OD2 C:ASP398 3.6 34.6 1.0
O1B C:ADP1600 3.9 51.5 1.0
O C:HOH1702 4.0 34.4 1.0
PA C:ADP1600 4.0 51.5 1.0
CG C:ASP87 4.2 32.3 1.0
N C:GLY88 4.2 31.1 1.0
K C:K1603 4.4 33.6 1.0
OG1 C:THR89 4.4 29.1 1.0
CA C:ASP87 4.4 32.3 1.0
CB C:ASP87 4.5 32.3 1.0
CG C:ASP398 4.6 34.6 1.0
C C:ASP87 4.8 32.3 1.0
N C:THR89 4.9 29.1 1.0
O1A C:ADP1600 5.0 51.5 1.0

Fluorine binding site 8 out of 21 in 8p4o

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Fluorine binding site 8 out of 21 in the Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 8 of Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F1602

b:38.4
occ:1.00
 F2 C:BEF1602 0.0 38.4 1.0
BE C:BEF1602 1.5 38.4 1.0
F3 C:BEF1602 2.5 38.4 1.0
F1 C:BEF1602 2.5 38.4 1.0
O3B C:ADP1600 2.9 51.5 1.0
OG1 C:THR89 2.9 29.1 1.0
OD2 C:ASP398 3.6 34.6 1.0
OD1 C:ASP87 3.9 32.3 1.0
CB C:THR89 4.1 29.1 1.0
CG2 C:THR89 4.1 29.1 1.0
O C:GLY86 4.1 31.9 1.0
OD2 C:ASP52 4.2 29.2 1.0
CG C:ASP52 4.2 29.2 1.0
CA C:ASP87 4.2 32.3 1.0
PB C:ADP1600 4.3 51.5 1.0
N C:THR89 4.4 29.1 1.0
CG C:ASP398 4.4 34.6 1.0
OD1 C:ASP52 4.4 29.2 1.0
N C:GLY53 4.5 27.8 1.0
OD1 C:ASP398 4.5 34.6 1.0
MG C:MG1601 4.5 34.6 1.0
N C:GLY88 4.6 31.1 1.0
C C:ASP87 4.7 32.3 1.0
CB C:ASP52 4.7 29.2 1.0
CA C:ASP52 4.8 29.2 1.0
O2B C:ADP1600 4.8 51.5 1.0
CA C:THR89 4.9 29.1 1.0
CG C:ASP87 4.9 32.3 1.0
CG1 C:VAL54 4.9 28.8 1.0
C C:GLY86 4.9 31.9 1.0

Fluorine binding site 9 out of 21 in 8p4o

Go back to Fluorine Binding Sites List in 8p4o
Fluorine binding site 9 out of 21 in the Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 9 of Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F1602

b:38.4
occ:1.00
 F3 C:BEF1602 0.0 38.4 1.0
BE C:BEF1602 1.5 38.4 1.0
O3B C:ADP1600 2.0 51.5 1.0
F2 C:BEF1602 2.5 38.4 1.0
F1 C:BEF1602 2.5 38.4 1.0
K C:K1603 2.8 33.6 1.0
OG1 C:THR89 3.1 29.1 1.0
N C:GLY53 3.2 27.8 1.0
OG1 C:THR90 3.3 27.5 1.0
PB C:ADP1600 3.3 51.5 1.0
O3A C:ADP1600 3.5 51.5 1.0
CA C:ASP52 3.9 29.2 1.0
C C:ASP52 4.0 29.2 1.0
CA C:GLY53 4.0 27.8 1.0
N C:THR90 4.2 27.5 1.0
O1B C:ADP1600 4.3 51.5 1.0
CB C:THR90 4.3 27.5 1.0
O C:LYS51 4.3 25.9 1.0
O2B C:ADP1600 4.3 51.5 1.0
CB C:THR89 4.5 29.1 1.0
OD1 C:ASP52 4.6 29.2 1.0
PA C:ADP1600 4.6 51.5 1.0
CB C:ASP52 4.6 29.2 1.0
CG C:ASP52 4.7 29.2 1.0
N C:THR89 4.7 29.1 1.0
O2A C:ADP1600 4.8 51.5 1.0
OD2 C:ASP398 4.8 34.6 1.0
CA C:THR90 4.9 27.5 1.0
N C:VAL54 5.0 28.8 1.0
N C:ASP52 5.0 29.2 1.0
CA C:THR89 5.0 29.1 1.0

Fluorine binding site 10 out of 21 in 8p4o

Go back to Fluorine Binding Sites List in 8p4o
Fluorine binding site 10 out of 21 in the Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 10 of Cryoem Structure of A GROEL7-GROES7 Cage with Encapsulated Ordered Substrate Metk in the Presence of Adp-Befx within 5.0Å range:
probe atom residue distance (Å) B Occ
D:F1602

b:41.0
occ:1.00
 F1 D:BEF1602 0.0 41.0 1.0
BE D:BEF1602 1.5 41.0 1.0
MG D:MG1601 2.0 39.1 1.0
O3B D:ADP1600 2.0 51.5 1.0
O2B D:ADP1600 2.4 51.5 1.0
F2 D:BEF1602 2.5 41.0 1.0
F3 D:BEF1602 2.5 41.0 1.0
PB D:ADP1600 2.5 51.5 1.0
O D:HOH1701 2.8 41.8 1.0
OD1 D:ASP87 2.9 36.1 1.0
O3A D:ADP1600 3.0 51.5 1.0
O2A D:ADP1600 3.2 51.5 1.0
PA D:ADP1600 3.7 51.5 1.0
O D:HOH1702 3.8 37.1 1.0
CG D:ASP87 3.9 36.1 1.0
O1B D:ADP1600 4.0 51.5 1.0
K D:K1603 4.1 37.0 1.0
N D:GLY88 4.1 33.6 1.0
OD1 D:ASP398 4.2 38.6 1.0
OD2 D:ASP87 4.3 36.1 1.0
OD1 D:ASP52 4.5 33.5 1.0
CG D:ASP398 4.6 38.6 1.0
O1A D:ADP1600 4.8 51.5 1.0
CA D:ASP87 4.8 36.1 1.0
O5' D:ADP1600 4.8 51.5 1.0
CA D:GLY88 4.8 33.6 1.0
OD2 D:ASP398 4.9 38.6 1.0
CB D:ASP87 4.9 36.1 1.0
N D:THR89 5.0 29.0 1.0
C D:ASP87 5.0 36.1 1.0

Reference:

J.Wagner, A.I.Caravajal, F.Beck, A.Bracher, W.Wan, S.Bohn, R.Koerner, W.Baumeister, R.Fernandez-Busnadiego, F.U.Hartl. Visualizing Chaperonin Function in Situ By Cryo-Electron Tomography Nature 2024.
ISSN: ESSN 1476-4687
Page generated: Fri Aug 2 21:45:53 2024

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