Fluorine in PDB 8u8i: CDC48-SHP1 Unfolding Native Substrate, Class 4

All present enzymatic activity of CDC48-SHP1 Unfolding Native Substrate, Class 4:
3.6.4.6;

The structure of CDC48-SHP1 Unfolding Native Substrate, Class 4 also contains other interesting chemical elements:

Magnesium

(Mg)

8 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 24;

Binding sites:

The binding sites of Fluorine atom in the CDC48-SHP1 Unfolding Native Substrate, Class 4 (pdb code 8u8i). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 24 binding sites of Fluorine where determined in the CDC48-SHP1 Unfolding Native Substrate, Class 4, PDB code: 8u8i:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Fluorine binding site 1 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 4


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of CDC48-SHP1 Unfolding Native Substrate, Class 4 within 5.0Å range: probe atom residue distance (Å) B Occ A:F901 b:97.7 occ:1.00 F1 A:08T901 0.0 97.7 1.0 BE A:08T901 1.5 97.7 1.0 MG A:MG902 2.0 99.5 1.0 F3 A:08T901 2.5 97.7 1.0 F2 A:08T901 2.6 97.7 1.0 O3B A:08T901 2.6 93.8 1.0 O2B A:08T901 2.8 93.8 1.0 PB A:08T901 3.2 93.8 1.0 NH2 B:ARG372 3.7 102.8 1.0 OG1 A:THR262 3.8 92.7 1.0 O3A A:08T901 4.3 93.8 1.0 O1B A:08T901 4.4 93.8 1.0 CZ B:ARG372 4.7 102.8 1.0 NH1 B:ARG372 4.8 102.8 1.0 N A:GLY258 4.8 85.9 1.0 O2A A:08T901 4.9 93.8 1.0 CB A:THR262 5.0 92.7 1.0 CB A:LYS261 5.0 88.1 1.0

Fluorine binding site 2 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 4


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of CDC48-SHP1 Unfolding Native Substrate, Class 4 within 5.0Å range: probe atom residue distance (Å) B Occ A:F901 b:97.7 occ:1.00 F2 A:08T901 0.0 97.7 1.0 BE A:08T901 1.6 97.7 1.0 F3 A:08T901 2.5 97.7 1.0 F1 A:08T901 2.6 97.7 1.0 O3B A:08T901 2.6 93.8 1.0 PB A:08T901 3.3 93.8 1.0 O1B A:08T901 3.6 93.8 1.0 O2B A:08T901 3.6 93.8 1.0 N A:GLY258 3.6 85.9 1.0 CA A:PRO257 3.6 80.9 1.0 MG A:MG902 4.1 99.5 1.0 CB A:LYS261 4.1 88.1 1.0 C A:PRO257 4.2 80.9 1.0 CB A:ASN358 4.2 103.0 1.0 O A:PRO256 4.3 79.5 1.0 CB A:PRO257 4.4 80.9 1.0 N A:PRO257 4.6 80.9 1.0 CA A:GLY258 4.7 85.9 1.0 O3A A:08T901 4.8 93.8 1.0 C A:PRO256 4.9 79.5 1.0 CA A:ASN358 4.9 103.0 1.0 N A:THR259 5.0 82.6 1.0

Fluorine binding site 3 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 4


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of CDC48-SHP1 Unfolding Native Substrate, Class 4 within 5.0Å range: probe atom residue distance (Å) B Occ A:F901 b:97.7 occ:1.00 F3 A:08T901 0.0 97.7 1.0 BE A:08T901 1.5 97.7 1.0 F2 A:08T901 2.5 97.7 1.0 F1 A:08T901 2.5 97.7 1.0 O3B A:08T901 2.6 93.8 1.0 CB A:PRO257 3.2 80.9 1.0 N A:GLY258 3.3 85.9 1.0 CA A:PRO257 3.4 80.9 1.0 NH1 B:ARG372 3.6 102.8 1.0 C A:PRO257 3.8 80.9 1.0 NH2 B:ARG372 3.8 102.8 1.0 PB A:08T901 4.0 93.8 1.0 MG A:MG902 4.2 99.5 1.0 CZ B:ARG372 4.2 102.8 1.0 CA A:GLY258 4.4 85.9 1.0 O2B A:08T901 4.5 93.8 1.0 NE B:ARG369 4.6 101.2 1.0 N A:PRO257 4.7 80.9 1.0 CB A:ASN358 4.8 103.0 1.0 O1B A:08T901 4.8 93.8 1.0 CZ B:ARG369 4.9 101.2 1.0 O3A A:08T901 4.9 93.8 1.0 O A:PRO257 4.9 80.9 1.0 CD B:ARG369 5.0 101.2 1.0

Fluorine binding site 4 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 4


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of CDC48-SHP1 Unfolding Native Substrate, Class 4 within 5.0Å range: probe atom residue distance (Å) B Occ A:F903 b:76.3 occ:1.00 F1 A:08T903 0.0 76.3 1.0 BE A:08T903 1.5 76.3 1.0 MG A:MG904 1.9 70.3 1.0 F3 A:08T903 2.5 76.3 1.0 O2B A:08T903 2.5 77.3 1.0 F2 A:08T903 2.6 76.3 1.0 O3B A:08T903 2.6 77.3 1.0 PB A:08T903 3.0 77.3 1.0 NH2 B:ARG648 3.8 85.5 1.0 OG1 A:THR535 3.8 68.5 1.0 O3A A:08T903 4.0 77.3 1.0 O1B A:08T903 4.3 77.3 1.0 O2A A:08T903 4.4 77.3 1.0 CZ B:ARG648 4.8 85.5 1.0 PA A:08T903 4.9 77.3 1.0 NH1 B:ARG648 4.9 85.5 1.0 CB A:THR535 5.0 68.5 1.0

Fluorine binding site 5 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 4


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of CDC48-SHP1 Unfolding Native Substrate, Class 4 within 5.0Å range: probe atom residue distance (Å) B Occ A:F903 b:76.3 occ:1.00 F2 A:08T903 0.0 76.3 1.0 BE A:08T903 1.6 76.3 1.0 F3 A:08T903 2.5 76.3 1.0 F1 A:08T903 2.6 76.3 1.0 O3B A:08T903 2.6 77.3 1.0 CA A:PRO530 3.4 75.4 1.0 PB A:08T903 3.6 77.3 1.0 CB A:ASN634 3.6 71.7 1.0 N A:GLY531 3.7 74.4 1.0 O2B A:08T903 3.8 77.3 1.0 CB A:PRO530 3.8 75.4 1.0 O1B A:08T903 4.1 77.3 1.0 C A:PRO530 4.1 75.4 1.0 MG A:MG904 4.2 70.3 1.0 CA A:ASN634 4.4 71.7 1.0 N A:PRO530 4.4 75.4 1.0 O A:PRO529 4.6 73.7 1.0 C A:PRO529 4.9 73.7 1.0 CA A:GLY531 4.9 74.4 1.0 O3A A:08T903 4.9 77.3 1.0

Fluorine binding site 6 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 4


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of CDC48-SHP1 Unfolding Native Substrate, Class 4 within 5.0Å range: probe atom residue distance (Å) B Occ A:F903 b:76.3 occ:1.00 F3 A:08T903 0.0 76.3 1.0 BE A:08T903 1.5 76.3 1.0 F2 A:08T903 2.5 76.3 1.0 F1 A:08T903 2.5 76.3 1.0 O3B A:08T903 2.6 77.3 1.0 NH1 B:ARG648 2.8 85.5 1.0 NH2 B:ARG648 3.0 85.5 1.0 CZ B:ARG648 3.3 85.5 1.0 NE B:ARG645 3.5 80.8 1.0 MG A:MG904 3.9 70.3 1.0 PB A:08T903 4.0 77.3 1.0 CZ B:ARG645 4.0 80.8 1.0 NH2 B:ARG645 4.1 80.8 1.0 CD B:ARG645 4.2 80.8 1.0 N A:GLY531 4.2 74.4 1.0 O2B A:08T903 4.3 77.3 1.0 CB A:PRO530 4.4 75.4 1.0 CA A:PRO530 4.6 75.4 1.0 NE B:ARG648 4.6 85.5 1.0 O3A A:08T903 4.6 77.3 1.0 CB B:ALA642 4.8 82.5 1.0 C A:PRO530 4.9 75.4 1.0 NH1 B:ARG645 4.9 80.8 1.0 CA A:GLY531 4.9 74.4 1.0

Fluorine binding site 7 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 4


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 7 of CDC48-SHP1 Unfolding Native Substrate, Class 4 within 5.0Å range: probe atom residue distance (Å) B Occ B:F901 b:87.4 occ:1.00 F1 B:08T901 0.0 87.4 1.0 BE B:08T901 1.5 87.4 1.0 MG B:MG902 1.9 96.5 1.0 F3 B:08T901 2.5 87.4 1.0 F2 B:08T901 2.6 87.4 1.0 O1B B:08T901 2.6 83.2 1.0 O3B B:08T901 2.6 83.2 1.0 PB B:08T901 3.1 83.2 1.0 OG1 B:THR262 3.1 80.5 1.0 CG B:LYS261 3.9 76.0 1.0 O3A B:08T901 4.0 83.2 1.0 NH2 C:ARG372 4.1 93.6 1.0 CD B:LYS261 4.1 76.0 1.0 O2B B:08T901 4.3 83.2 1.0 CB B:THR262 4.3 80.5 1.0 N B:THR262 4.7 80.5 1.0 OD1 B:ASN358 4.9 86.7 1.0

Fluorine binding site 8 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 4


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 8 of CDC48-SHP1 Unfolding Native Substrate, Class 4 within 5.0Å range: probe atom residue distance (Å) B Occ B:F901 b:87.4 occ:1.00 F2 B:08T901 0.0 87.4 1.0 BE B:08T901 1.6 87.4 1.0 F3 B:08T901 2.5 87.4 1.0 F1 B:08T901 2.6 87.4 1.0 O3B B:08T901 2.6 83.2 1.0 OD1 B:ASN358 2.9 86.7 1.0 NZ B:LYS261 3.3 76.0 1.0 CA B:PRO257 3.5 73.4 1.0 PB B:08T901 3.5 83.2 1.0 CD B:LYS261 3.6 76.0 1.0 CG B:ASN358 3.7 86.7 1.0 O1B B:08T901 3.7 83.2 1.0 ND2 B:ASN358 3.7 86.7 1.0 CB B:PRO257 3.9 73.4 1.0 CE B:LYS261 3.9 76.0 1.0 O2B B:08T901 3.9 83.2 1.0 CG B:LYS261 3.9 76.0 1.0 N B:GLY258 4.0 76.6 1.0 MG B:MG902 4.1 96.5 1.0 C B:PRO257 4.3 73.4 1.0 N B:PRO257 4.4 73.4 1.0 O B:PRO256 4.5 74.8 1.0 C B:PRO256 4.8 74.8 1.0 O3A B:08T901 4.9 83.2 1.0

Fluorine binding site 9 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 4


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 9 of CDC48-SHP1 Unfolding Native Substrate, Class 4 within 5.0Å range: probe atom residue distance (Å) B Occ B:F901 b:87.4 occ:1.00 F3 B:08T901 0.0 87.4 1.0 BE B:08T901 1.5 87.4 1.0 F2 B:08T901 2.5 87.4 1.0 F1 B:08T901 2.5 87.4 1.0 O3B B:08T901 2.6 83.2 1.0 NH2 C:ARG372 2.8 93.6 1.0 NH1 C:ARG372 3.3 93.6 1.0 CZ C:ARG372 3.5 93.6 1.0 MG B:MG902 3.7 96.5 1.0 NH2 C:ARG369 3.8 91.0 1.0 PB B:08T901 4.0 83.2 1.0 CB B:PRO257 4.1 73.4 1.0 NE C:ARG369 4.2 91.0 1.0 ND2 B:ASN358 4.3 86.7 1.0 CZ C:ARG369 4.3 91.0 1.0 O1B B:08T901 4.4 83.2 1.0 CA B:PRO257 4.4 73.4 1.0 N B:GLY258 4.5 76.6 1.0 OD1 B:ASN358 4.7 86.7 1.0 O3A B:08T901 4.7 83.2 1.0 NE C:ARG372 4.7 93.6 1.0 CG B:ASN358 4.9 86.7 1.0 O2B B:08T901 5.0 83.2 1.0

Fluorine binding site 10 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 4


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 10 of CDC48-SHP1 Unfolding Native Substrate, Class 4 within 5.0Å range: probe atom residue distance (Å) B Occ B:F903 b:83.7 occ:1.00 F1 B:08T903 0.0 83.7 1.0 BE B:08T903 1.5 83.7 1.0 MG B:MG904 2.0 88.3 1.0 F3 B:08T903 2.5 83.7 1.0 F2 B:08T903 2.6 83.7 1.0 O3B B:08T903 2.6 81.5 1.0 O2B B:08T903 2.6 81.5 1.0 PB B:08T903 3.0 81.5 1.0 OG1 B:THR535 3.4 80.5 1.0 O3A B:08T903 3.6 81.5 1.0 NH2 C:ARG648 4.0 80.4 1.0 OE2 B:GLU588 4.0 92.9 1.0 CE B:LYS534 4.3 74.8 1.0 O1B B:08T903 4.4 81.5 1.0 NH1 C:ARG648 4.6 80.4 1.0 CB B:THR535 4.7 80.5 1.0 OD1 B:ASP587 4.7 87.9 1.0 CZ C:ARG648 4.8 80.4 1.0 O C:ASP619 5.0 92.0 1.0 PA B:08T903 5.0 81.5 1.0

I.Cooney, H.L.Schubert, K.Cedeno, O.N.Fisher, R.Carson, J.C.Price, C.P.Hill, P.S.Shen. Visualization of the CDC48 Aaa+ Atpase Protein Unfolding Pathway. Nat Commun V. 15 7505 2024.
ISSN: ESSN 2041-1723
PubMed: 39209885
DOI: 10.1038/S41467-024-51835-3