Fluorine in PDB 8yas: Structure of the Seca-Secy Complex with the Substrate Hmbri-7TM

All present enzymatic activity of Structure of the Seca-Secy Complex with the Substrate Hmbri-7TM:
7.4.2.8;

The structure of Structure of the Seca-Secy Complex with the Substrate Hmbri-7TM also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Fluorine atom in the Structure of the Seca-Secy Complex with the Substrate Hmbri-7TM (pdb code 8yas). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the Structure of the Seca-Secy Complex with the Substrate Hmbri-7TM, PDB code: 8yas:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in the Structure of the Seca-Secy Complex with the Substrate Hmbri-7TM


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 Seca-Secy Complex with the Substrate Hmbri-7TM within 5.0Å range: probe atom residue distance (Å) B Occ A:F1002 b:98.7 occ:1.00 F1 A:BEF1002 0.0 98.7 1.0 BE A:BEF1002 1.8 98.7 1.0 O3B A:ADP1003 1.8 102.4 1.0 NH1 A:ARG525 2.5 88.7 1.0 NH2 A:ARG528 2.5 101.6 1.0 F2 A:BEF1002 3.0 98.7 1.0 F3 A:BEF1002 3.0 98.7 1.0 PB A:ADP1003 3.2 102.4 1.0 N A:GLY103 3.6 108.7 1.0 O3A A:ADP1003 3.7 102.4 1.0 CZ A:ARG528 3.7 101.6 1.0 CZ A:ARG525 3.8 88.7 1.0 CB A:THR102 3.8 107.3 1.0 CG2 A:THR102 3.8 107.3 1.0 CA A:THR102 3.9 107.3 1.0 O1B A:ADP1003 3.9 102.4 1.0 C A:THR102 4.1 107.3 1.0 O2B A:ADP1003 4.3 102.4 1.0 NH1 A:ARG528 4.4 101.6 1.0 CA A:GLY103 4.5 108.7 1.0 NH2 A:ARG525 4.5 88.7 1.0 O A:ARG489 4.6 84.5 1.0 NE A:ARG525 4.6 88.7 1.0 OE1 A:GLN521 4.6 93.3 1.0 NE A:ARG528 4.6 101.6 1.0 NZ A:LYS106 4.7 93.9 1.0 CA A:GLY490 4.7 88.3 1.0 MG A:MG1001 4.9 77.3 1.0 O A:GLY490 4.9 88.3 1.0 C A:GLY490 4.9 88.3 1.0

Fluorine binding site 2 out of 3 in the Structure of the Seca-Secy Complex with the Substrate Hmbri-7TM


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 Seca-Secy Complex with the Substrate Hmbri-7TM within 5.0Å range: probe atom residue distance (Å) B Occ A:F1002 b:98.7 occ:1.00 F2 A:BEF1002 0.0 98.7 1.0 BE A:BEF1002 1.8 98.7 1.0 NZ A:LYS106 2.3 93.9 1.0 O3B A:ADP1003 2.8 102.4 1.0 F1 A:BEF1002 3.0 98.7 1.0 F3 A:BEF1002 3.0 98.7 1.0 CE A:LYS106 3.3 93.9 1.0 OE1 A:GLU208 3.5 82.2 1.0 CG2 A:THR102 3.6 107.3 1.0 OE1 A:GLN521 3.9 93.3 1.0 PB A:ADP1003 3.9 102.4 1.0 OE2 A:GLU208 4.0 82.2 1.0 CD A:GLU208 4.1 82.2 1.0 N A:GLY372 4.2 106.8 1.0 NE2 A:GLN521 4.2 93.3 1.0 CA A:THR102 4.2 107.3 1.0 O1B A:ADP1003 4.3 102.4 1.0 CB A:THR102 4.4 107.3 1.0 CD A:LYS106 4.4 93.9 1.0 O2B A:ADP1003 4.5 102.4 1.0 MG A:MG1001 4.5 77.3 1.0 O A:ARG489 4.5 84.5 1.0 CD A:GLN521 4.5 93.3 1.0 NH1 A:ARG525 4.6 88.7 1.0 CA A:GLY372 4.6 106.8 1.0 C A:THR371 4.9 94.0 1.0 N A:THR102 5.0 107.3 1.0

Fluorine binding site 3 out of 3 in the Structure of the Seca-Secy Complex with the Substrate Hmbri-7TM


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 Seca-Secy Complex with the Substrate Hmbri-7TM within 5.0Å range: probe atom residue distance (Å) B Occ A:F1002 b:98.7 occ:1.00 F3 A:BEF1002 0.0 98.7 1.0 BE A:BEF1002 1.8 98.7 1.0 MG A:MG1001 1.9 77.3 1.0 O1B A:ADP1003 2.2 102.4 1.0 O3B A:ADP1003 2.4 102.4 1.0 PB A:ADP1003 2.8 102.4 1.0 F1 A:BEF1002 3.0 98.7 1.0 F2 A:BEF1002 3.0 98.7 1.0 OE2 A:GLU208 3.3 82.2 1.0 O3A A:ADP1003 3.8 102.4 1.0 CA A:GLY490 4.0 88.3 1.0 O2B A:ADP1003 4.0 102.4 1.0 O A:GLY490 4.1 88.3 1.0 CD A:GLU208 4.2 82.2 1.0 O1A A:ADP1003 4.2 102.4 1.0 O A:ARG489 4.4 84.5 1.0 OE1 A:GLU208 4.4 82.2 1.0 NZ A:LYS106 4.5 93.9 1.0 C A:GLY490 4.5 88.3 1.0 PA A:ADP1003 4.6 102.4 1.0 CE A:LYS106 4.6 93.9 1.0 NH1 A:ARG525 4.7 88.7 1.0 OD1 A:ASP207 4.7 76.2 1.0 NH2 A:ARG528 4.8 101.6 1.0

X.Ou, C.Ma, D.Sun, J.Xu, Y.Wang, X.Wu, D.Wang, S.Yang, N.Gao, C.Song, L.Li. Secy Translocon Chaperones Protein Folding During Membrane Protein Insertion Cell 2025.