Fluorine in PDB 8u9p: CDC48-SHP1 Unfolding Native Substrate, Class 2

All present enzymatic activity of CDC48-SHP1 Unfolding Native Substrate, Class 2:
3.6.4.6;

The structure of CDC48-SHP1 Unfolding Native Substrate, Class 2 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 2 (pdb code 8u9p). 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 2, PDB code: 8u9p:
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 2


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 2 within 5.0Å range: probe atom residue distance (Å) B Occ A:F901 b:142.1 occ:1.00 F1 A:08T901 0.0 142.1 1.0 BE A:08T901 1.5 146.1 1.0 MG A:MG902 1.9 146.4 1.0 F3 A:08T901 2.5 148.9 1.0 O3B A:08T901 2.5 141.6 1.0 F2 A:08T901 2.6 151.7 1.0 O2B A:08T901 2.6 142.1 1.0 PB A:08T901 3.1 133.8 1.0 OG1 A:THR262 3.5 147.9 1.0 CG A:LYS261 3.6 143.4 1.0 CD A:LYS261 3.7 148.7 1.0 O1B A:08T901 4.1 138.8 1.0 O3A A:08T901 4.3 143.2 1.0 ND2 A:ASN358 4.3 173.5 1.0 CB A:THR262 4.5 143.8 1.0 CE A:LYS261 4.7 157.2 1.0 N A:THR262 4.7 137.8 1.0 N A:GLY258 4.9 145.2 1.0 O2A A:08T901 4.9 145.6 1.0 NH2 B:ARG372 4.9 132.3 1.0

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


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 2 within 5.0Å range: probe atom residue distance (Å) B Occ A:F901 b:151.7 occ:1.00 F2 A:08T901 0.0 151.7 1.0 BE A:08T901 1.6 146.1 1.0 F3 A:08T901 2.5 148.9 1.0 F1 A:08T901 2.6 142.1 1.0 O3B A:08T901 2.6 141.6 1.0 N A:GLY258 3.0 145.2 1.0 CA A:PRO257 3.2 143.8 1.0 ND2 A:ASN358 3.2 173.5 1.0 CD A:LYS261 3.3 148.7 1.0 CE A:LYS261 3.3 157.2 1.0 PB A:08T901 3.5 133.8 1.0 C A:PRO257 3.6 143.2 1.0 O1B A:08T901 3.6 138.8 1.0 CG A:LYS261 3.7 143.4 1.0 NZ A:LYS261 3.7 169.1 1.0 CB A:PRO257 3.9 146.9 1.0 O2B A:08T901 3.9 142.1 1.0 O A:PRO256 4.1 147.3 1.0 CA A:GLY258 4.2 143.6 1.0 MG A:MG902 4.2 146.4 1.0 N A:PRO257 4.3 146.9 1.0 CG A:ASN358 4.5 184.2 1.0 N A:THR259 4.6 140.3 1.0 C A:PRO256 4.6 146.3 1.0 O A:PRO257 4.8 137.7 1.0 O3A A:08T901 4.9 143.2 1.0 C A:GLY258 4.9 141.7 1.0

Fluorine binding site 3 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 2


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 2 within 5.0Å range: probe atom residue distance (Å) B Occ A:F901 b:148.9 occ:1.00 F3 A:08T901 0.0 148.9 1.0 BE A:08T901 1.5 146.1 1.0 F2 A:08T901 2.5 151.7 1.0 F1 A:08T901 2.5 142.1 1.0 O3B A:08T901 2.6 141.6 1.0 NH1 B:ARG369 3.6 133.4 1.0 N A:GLY258 3.7 145.2 1.0 ND2 A:ASN358 3.7 173.5 1.0 MG A:MG902 3.7 146.4 1.0 CD B:ARG369 3.9 131.1 1.0 NH2 B:ARG372 3.9 132.3 1.0 PB A:08T901 4.0 133.8 1.0 CB A:PRO257 4.0 146.9 1.0 NH1 B:ARG372 4.1 122.8 1.0 CA A:PRO257 4.1 143.8 1.0 CZ B:ARG372 4.2 126.9 1.0 CZ B:ARG369 4.3 133.7 1.0 C A:PRO257 4.3 143.2 1.0 O2B A:08T901 4.4 142.1 1.0 NE B:ARG369 4.4 131.2 1.0 CA A:GLY258 4.5 143.6 1.0 O3A A:08T901 4.8 143.2 1.0 CG A:ASN358 4.8 184.2 1.0 O1B A:08T901 4.9 138.8 1.0

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


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 2 within 5.0Å range: probe atom residue distance (Å) B Occ A:F903 b:105.2 occ:1.00 F1 A:08T903 0.0 105.2 1.0 BE A:08T903 1.5 105.3 1.0 MG A:MG904 1.9 88.3 1.0 O2B A:08T903 2.3 103.6 1.0 F3 A:08T903 2.5 112.9 1.0 O3B A:08T903 2.5 103.5 1.0 F2 A:08T903 2.6 100.5 1.0 PB A:08T903 2.9 102.4 1.0 OG1 A:THR535 3.4 105.6 1.0 O3A A:08T903 3.7 96.7 1.0 NH2 B:ARG648 4.1 114.7 1.0 O2A A:08T903 4.2 111.2 1.0 O1B A:08T903 4.3 103.3 1.0 CB A:THR535 4.5 104.0 1.0 CE A:LYS534 4.5 94.3 1.0 PA A:08T903 4.5 109.1 1.0 NZ A:LYS534 4.8 91.7 1.0 N A:THR535 4.8 91.7 1.0 O1A A:08T903 4.9 109.0 1.0 NH1 B:ARG645 4.9 100.6 1.0

Fluorine binding site 5 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 2


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 2 within 5.0Å range: probe atom residue distance (Å) B Occ A:F903 b:100.5 occ:1.00 F2 A:08T903 0.0 100.5 1.0 BE A:08T903 1.6 105.3 1.0 F3 A:08T903 2.5 112.9 1.0 F1 A:08T903 2.6 105.2 1.0 O3B A:08T903 2.6 103.5 1.0 CA A:PRO530 3.7 91.7 1.0 PB A:08T903 3.7 102.4 1.0 CB A:PRO530 3.8 92.3 1.0 O2B A:08T903 3.8 103.6 1.0 CB A:ASN634 4.1 99.0 1.0 NZ A:LYS534 4.1 91.7 1.0 CE A:LYS534 4.3 94.3 1.0 N A:GLY531 4.4 95.4 1.0 MG A:MG904 4.4 88.3 1.0 CG A:PRO530 4.4 89.0 1.0 O1B A:08T903 4.5 103.3 1.0 NH1 B:ARG648 4.5 97.0 1.0 NH2 B:ARG648 4.5 114.7 1.0 OE2 A:GLU588 4.6 135.2 1.0 C A:PRO530 4.6 95.7 1.0 N A:PRO530 4.7 92.1 1.0 CA A:ASN634 4.9 109.0 1.0 O3A A:08T903 4.9 96.7 1.0

Fluorine binding site 6 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 2


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 2 within 5.0Å range: probe atom residue distance (Å) B Occ A:F903 b:112.9 occ:1.00 F3 A:08T903 0.0 112.9 1.0 BE A:08T903 1.5 105.3 1.0 F2 A:08T903 2.5 100.5 1.0 F1 A:08T903 2.5 105.2 1.0 NH2 B:ARG648 2.6 114.7 1.0 O3B A:08T903 2.6 103.5 1.0 NH1 B:ARG648 2.7 97.0 1.0 NH1 B:ARG645 2.8 100.6 1.0 CZ B:ARG648 3.0 105.2 1.0 MG A:MG904 3.7 88.3 1.0 CZ B:ARG645 3.7 98.0 1.0 PB A:08T903 3.8 102.4 1.0 CD B:ARG645 3.9 88.0 1.0 NE B:ARG645 4.2 94.0 1.0 O2B A:08T903 4.2 103.6 1.0 O3A A:08T903 4.2 96.7 1.0 NE B:ARG648 4.3 104.7 1.0 OD2 B:ASP619 4.4 121.6 1.0 N A:GLY531 4.6 95.4 1.0 CB A:PRO530 4.7 92.3 1.0 NH2 B:ARG645 4.7 96.6 1.0 O2A A:08T903 4.7 111.2 1.0 CA A:PRO530 4.9 91.7 1.0

Fluorine binding site 7 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 2


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 2 within 5.0Å range: probe atom residue distance (Å) B Occ B:F901 b:98.0 occ:1.00 F1 B:08T901 0.0 98.0 1.0 BE B:08T901 1.5 97.1 1.0 MG B:MG902 1.8 101.9 1.0 F3 B:08T901 2.5 106.7 1.0 F2 B:08T901 2.6 103.3 1.0 O3B B:08T901 2.6 88.6 1.0 O1B B:08T901 2.6 95.2 1.0 PB B:08T901 3.1 85.1 1.0 OG1 B:THR262 3.4 95.9 1.0 NH2 C:ARG372 3.5 94.0 1.0 O3A B:08T901 3.9 86.6 1.0 NH2 C:ARG369 4.3 91.6 1.0 O2B B:08T901 4.3 95.0 1.0 O2A B:08T901 4.4 99.7 1.0 CB B:THR262 4.4 93.2 1.0 OE2 B:GLU315 4.5 115.4 1.0 CZ C:ARG372 4.7 86.3 1.0 CE B:LYS261 4.7 76.9 1.0 PA B:08T901 4.8 95.2 1.0 N B:THR262 4.9 86.3 1.0 OD2 C:ASP343 4.9 118.8 1.0 O C:ASP343 4.9 111.4 1.0

Fluorine binding site 8 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 2


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 2 within 5.0Å range: probe atom residue distance (Å) B Occ B:F901 b:103.3 occ:1.00 F2 B:08T901 0.0 103.3 1.0 BE B:08T901 1.6 97.1 1.0 F3 B:08T901 2.5 106.7 1.0 F1 B:08T901 2.6 98.0 1.0 O3B B:08T901 2.6 88.6 1.0 OD1 B:ASN358 2.7 103.4 1.0 NZ B:LYS261 3.2 75.6 1.0 CE B:LYS261 3.2 76.9 1.0 PB B:08T901 3.4 85.1 1.0 CG B:ASN358 3.5 101.1 1.0 ND2 B:ASN358 3.5 101.1 1.0 O1B B:08T901 3.5 95.2 1.0 CA B:PRO257 3.7 80.1 1.0 O2B B:08T901 3.8 95.0 1.0 MG B:MG902 4.0 101.9 1.0 CB B:PRO257 4.1 84.4 1.0 N B:GLY258 4.2 85.9 1.0 OE2 B:GLU315 4.3 115.4 1.0 C B:PRO257 4.5 81.4 1.0 NH2 C:ARG372 4.7 94.0 1.0 N B:PRO257 4.7 82.4 1.0 CD B:LYS261 4.7 84.3 1.0 O B:PRO256 4.8 81.1 1.0 O3A B:08T901 4.8 86.6 1.0 CB B:ASN358 5.0 98.1 1.0

Fluorine binding site 9 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 2


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 2 within 5.0Å range: probe atom residue distance (Å) B Occ B:F901 b:106.7 occ:1.00 F3 B:08T901 0.0 106.7 1.0 BE B:08T901 1.5 97.1 1.0 NH2 C:ARG372 2.4 94.0 1.0 F2 B:08T901 2.5 103.3 1.0 F1 B:08T901 2.5 98.0 1.0 O3B B:08T901 2.6 88.6 1.0 NH2 C:ARG369 3.0 91.6 1.0 CZ C:ARG372 3.1 86.3 1.0 NH1 C:ARG372 3.4 87.4 1.0 CZ C:ARG369 3.9 88.0 1.0 CB B:PRO257 4.0 84.4 1.0 PB B:08T901 4.0 85.1 1.0 NE C:ARG372 4.0 87.5 1.0 MG B:MG902 4.1 101.9 1.0 ND2 B:ASN358 4.1 101.1 1.0 NE C:ARG369 4.2 92.2 1.0 N B:GLY258 4.4 85.9 1.0 CA B:PRO257 4.4 80.1 1.0 O1B B:08T901 4.4 95.2 1.0 OE2 B:GLU315 4.5 115.4 1.0 OD1 B:ASN358 4.6 103.4 1.0 O3A B:08T901 4.7 86.6 1.0 CG B:ASN358 4.8 101.1 1.0 C B:PRO257 4.9 81.4 1.0 O2B B:08T901 4.9 95.0 1.0 CB C:ALA366 4.9 102.1 1.0 O C:ALA366 5.0 101.1 1.0

Fluorine binding site 10 out of 24 in the CDC48-SHP1 Unfolding Native Substrate, Class 2


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 2 within 5.0Å range: probe atom residue distance (Å) B Occ B:F903 b:99.4 occ:1.00 F1 B:08T903 0.0 99.4 1.0 BE B:08T903 1.5 97.5 1.0 MG B:MG904 1.9 98.5 1.0 F3 B:08T903 2.5 101.3 1.0 O3B B:08T903 2.5 92.9 1.0 F2 B:08T903 2.6 104.4 1.0 O1B B:08T903 2.7 99.3 1.0 PB B:08T903 3.1 93.2 1.0 NH2 C:ARG648 3.7 100.3 1.0 OE2 B:GLU588 3.8 113.4 1.0 OG1 B:THR535 3.9 102.1 1.0 O2B B:08T903 4.0 89.3 1.0 O3A B:08T903 4.3 88.5 1.0 CZ C:ARG648 4.8 94.0 1.0 ND2 B:ASN634 4.8 100.6 1.0 NZ B:LYS534 4.8 82.6 1.0 NH1 C:ARG648 4.8 89.0 1.0 CD B:GLU588 4.9 114.7 1.0 CD2 C:LEU615 4.9 102.5 1.0 OD1 B:ASP587 5.0 108.9 1.0 CD B:LYS534 5.0 77.0 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