Fluorine in PDB 8p4o: 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;

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

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 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 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 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 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 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 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 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 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 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 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

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