Fluorine in PDB 6opc: CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain)

Enzymatic activity of CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain)

All present enzymatic activity of CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain):
3.6.4.6;

Other elements in 6opc:

The structure of CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain) also contains other interesting chemical elements:

Magnesium (Mg) 8 atoms

Fluorine Binding Sites:

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 Hexamer in A Complex with Substrate and SHP1(Ubx Domain) (pdb code 6opc). 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 Hexamer in A Complex with Substrate and SHP1(Ubx Domain), PDB code: 6opc:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Fluorine binding site 1 out of 24 in 6opc

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Fluorine binding site 1 out of 24 in the CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F902

b:61.3
occ:1.00
F1 A:BEF902 0.0 61.3 1.0
BE A:BEF902 1.5 61.3 1.0
MG A:MG903 2.4 52.1 1.0
F3 A:BEF902 2.5 61.3 1.0
F2 A:BEF902 2.5 61.3 1.0
O3B A:ADP901 2.6 61.3 1.0
O1B A:ADP901 2.6 61.3 1.0
PB A:ADP901 3.2 61.3 1.0
OG1 A:THR535 3.7 59.4 1.0
NH2 B:ARG648 3.8 51.4 1.0
NZ A:LYS534 4.0 58.2 1.0
OD1 A:ASN634 4.1 59.0 1.0
ND2 A:ASN634 4.2 59.0 1.0
O3A A:ADP901 4.2 61.3 1.0
OE2 A:GLU588 4.3 59.4 1.0
O2B A:ADP901 4.4 61.3 1.0
CE A:LYS534 4.4 58.2 1.0
CG A:ASN634 4.6 59.0 1.0
NH1 B:ARG648 4.6 51.4 1.0
CZ B:ARG648 4.7 51.4 1.0
O1A A:ADP901 4.7 61.3 1.0
CB A:THR535 5.0 59.4 1.0

Fluorine binding site 2 out of 24 in 6opc

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Fluorine binding site 2 out of 24 in the CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F902

b:61.3
occ:1.00
F2 A:BEF902 0.0 61.3 1.0
BE A:BEF902 1.5 61.3 1.0
OD1 A:ASN634 2.3 59.0 1.0
NZ A:LYS534 2.4 58.2 1.0
O1B A:ADP901 2.5 61.3 1.0
F1 A:BEF902 2.5 61.3 1.0
F3 A:BEF902 2.6 61.3 1.0
CG A:ASN634 3.2 59.0 1.0
CE A:LYS534 3.3 58.2 1.0
CA A:PRO530 3.4 57.2 1.0
PB A:ADP901 3.6 61.3 1.0
ND2 A:ASN634 3.6 59.0 1.0
CB A:PRO530 3.7 57.2 1.0
O3B A:ADP901 3.8 61.3 1.0
O2B A:ADP901 4.0 61.3 1.0
N A:GLY531 4.1 62.7 1.0
N A:PRO530 4.2 57.2 1.0
O A:PRO529 4.3 58.7 1.0
C A:PRO530 4.3 57.2 1.0
CB A:ASN634 4.5 59.0 1.0
C A:PRO529 4.6 58.7 1.0
CD A:LYS534 4.7 58.2 1.0
MG A:MG903 4.7 52.1 1.0
CA A:ASN634 4.8 59.0 1.0
O3A A:ADP901 4.9 61.3 1.0
CG A:PRO530 5.0 57.2 1.0

Fluorine binding site 3 out of 24 in 6opc

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Fluorine binding site 3 out of 24 in the CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F902

b:61.3
occ:1.00
F3 A:BEF902 0.0 61.3 1.0
BE A:BEF902 1.5 61.3 1.0
O1B A:ADP901 2.4 61.3 1.0
F1 A:BEF902 2.5 61.3 1.0
F2 A:BEF902 2.6 61.3 1.0
NH1 B:ARG648 3.0 51.4 1.0
CB A:PRO530 3.4 57.2 1.0
OD1 A:ASN634 3.4 59.0 1.0
NE B:ARG645 3.5 54.4 1.0
NH2 B:ARG648 3.7 51.4 1.0
CD B:ARG645 3.7 54.4 1.0
CZ B:ARG648 3.8 51.4 1.0
CA A:PRO530 3.8 57.2 1.0
CZ B:ARG645 3.8 54.4 1.0
N A:GLY531 3.9 62.7 1.0
PB A:ADP901 3.9 61.3 1.0
O3B A:ADP901 4.2 61.3 1.0
C A:PRO530 4.3 57.2 1.0
NH1 B:ARG645 4.3 54.4 1.0
NH2 B:ARG645 4.3 54.4 1.0
CG A:ASN634 4.3 59.0 1.0
ND2 A:ASN634 4.4 59.0 1.0
O3A A:ADP901 4.5 61.3 1.0
NZ A:LYS534 4.8 58.2 1.0
MG A:MG903 4.8 52.1 1.0
CG A:PRO530 4.9 57.2 1.0
CA A:GLY531 4.9 62.7 1.0
O2B A:ADP901 5.0 61.3 1.0
O B:ALA642 5.0 47.9 1.0

Fluorine binding site 4 out of 24 in 6opc

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Fluorine binding site 4 out of 24 in the CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F905

b:89.7
occ:1.00
F1 A:BEF905 0.0 89.7 1.0
BE A:BEF905 1.5 89.7 1.0
F3 A:BEF905 2.5 89.7 1.0
F2 A:BEF905 2.5 89.7 1.0
O3B A:ADP904 2.6 89.7 1.0
O1B A:ADP904 2.6 89.7 1.0
MG A:MG906 2.8 85.0 1.0
PB A:ADP904 3.1 89.7 1.0
CD A:LYS261 3.6 98.4 1.0
CG A:LYS261 3.7 98.4 1.0
O2B A:ADP904 3.8 89.7 1.0
OG1 A:THR262 4.2 96.0 1.0
O3A A:ADP904 4.5 89.7 1.0
N A:GLY258 4.5 85.3 1.0
OD1 A:ASN358 4.5 94.5 1.0
ND2 A:ASN358 4.5 94.5 1.0
NZ A:LYS261 4.7 98.4 1.0
CE A:LYS261 4.7 98.4 1.0
CG A:ASN358 4.9 94.5 1.0
NH2 B:ARG372 5.0 68.2 1.0

Fluorine binding site 5 out of 24 in 6opc

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Fluorine binding site 5 out of 24 in the CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F905

b:89.7
occ:1.00
F2 A:BEF905 0.0 89.7 1.0
BE A:BEF905 1.5 89.7 1.0
O1B A:ADP904 2.5 89.7 1.0
F1 A:BEF905 2.5 89.7 1.0
F3 A:BEF905 2.6 89.7 1.0
NZ A:LYS261 3.0 98.4 1.0
N A:GLY258 3.0 85.3 1.0
CA A:PRO257 3.3 85.3 1.0
O A:PRO256 3.3 86.8 1.0
CD A:LYS261 3.5 98.4 1.0
C A:PRO257 3.6 85.3 1.0
CG A:LYS261 3.6 98.4 1.0
N A:THR259 3.7 86.2 1.0
CE A:LYS261 3.8 98.4 1.0
PB A:ADP904 3.9 89.7 1.0
CA A:GLY258 4.0 85.3 1.0
C A:PRO256 4.2 86.8 1.0
N A:PRO257 4.2 85.3 1.0
O2B A:ADP904 4.3 89.7 1.0
OG1 A:THR259 4.3 86.2 1.0
C A:GLY258 4.3 85.3 1.0
O3B A:ADP904 4.3 89.7 1.0
CB A:PRO257 4.4 85.3 1.0
CB A:THR259 4.5 86.2 1.0
OD1 A:ASN358 4.5 94.5 1.0
CA A:THR259 4.6 86.2 1.0
O A:PRO257 4.7 85.3 1.0
N A:GLY260 4.8 92.4 1.0
O3A A:ADP904 5.0 89.7 1.0

Fluorine binding site 6 out of 24 in 6opc

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Fluorine binding site 6 out of 24 in the CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F905

b:89.7
occ:1.00
F3 A:BEF905 0.0 89.7 1.0
BE A:BEF905 1.5 89.7 1.0
O1B A:ADP904 2.4 89.7 1.0
N A:GLY258 2.4 85.3 1.0
F1 A:BEF905 2.5 89.7 1.0
F2 A:BEF905 2.6 89.7 1.0
C A:PRO257 3.3 85.3 1.0
CA A:PRO257 3.3 85.3 1.0
NE B:ARG369 3.3 70.4 1.0
CA A:GLY258 3.4 85.3 1.0
CZ B:ARG369 3.6 70.4 1.0
CB A:PRO257 3.6 85.3 1.0
PB A:ADP904 3.7 89.7 1.0
CD B:ARG369 3.7 70.4 1.0
O3B A:ADP904 3.7 89.7 1.0
NH2 B:ARG369 4.0 70.4 1.0
NH1 B:ARG369 4.1 70.4 1.0
O3A A:ADP904 4.3 89.7 1.0
OD1 A:ASN358 4.4 94.5 1.0
O A:PRO257 4.4 85.3 1.0
C A:GLY258 4.5 85.3 1.0
N A:THR259 4.6 86.2 1.0
N A:PRO257 4.7 85.3 1.0
NH2 B:ARG372 4.8 68.2 1.0
MG A:MG906 4.8 85.0 1.0
NH1 B:ARG372 4.8 68.2 1.0
O2B A:ADP904 4.9 89.7 1.0
O A:PRO256 5.0 86.8 1.0

Fluorine binding site 7 out of 24 in 6opc

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Fluorine binding site 7 out of 24 in the CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 7 of CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F904

b:43.3
occ:1.00
F1 B:BEF904 0.0 43.3 1.0
BE B:BEF904 1.5 43.3 1.0
MG B:MG905 2.1 31.4 1.0
F3 B:BEF904 2.5 43.3 1.0
F2 B:BEF904 2.5 43.3 1.0
O1B B:ADP903 2.6 43.3 1.0
O3B B:ADP903 2.9 43.3 1.0
PB B:ADP903 3.4 43.3 1.0
OG1 B:THR262 3.4 41.7 1.0
NH2 C:ARG372 4.1 41.5 1.0
O3A B:ADP903 4.3 43.3 1.0
ND2 B:ASN358 4.4 43.8 1.0
O2B B:ADP903 4.5 43.3 1.0
CG B:LYS261 4.6 40.6 1.0
CD B:LYS261 4.7 40.6 1.0
CB B:THR262 4.7 41.7 1.0
OE1 B:GLU315 4.9 47.8 1.0

Fluorine binding site 8 out of 24 in 6opc

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Fluorine binding site 8 out of 24 in the CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 8 of CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F904

b:43.3
occ:1.00
F2 B:BEF904 0.0 43.3 1.0
BE B:BEF904 1.5 43.3 1.0
O1B B:ADP903 2.5 43.3 1.0
F1 B:BEF904 2.5 43.3 1.0
F3 B:BEF904 2.6 43.3 1.0
ND2 B:ASN358 3.2 43.8 1.0
NZ B:LYS261 3.3 40.6 1.0
PB B:ADP903 3.3 43.3 1.0
CA B:PRO257 3.4 39.9 1.0
O3B B:ADP903 3.4 43.3 1.0
N B:GLY258 3.5 39.1 1.0
CD B:LYS261 3.5 40.6 1.0
O2B B:ADP903 3.7 43.3 1.0
CG B:LYS261 3.7 40.6 1.0
O B:PRO256 3.9 43.5 1.0
CE B:LYS261 4.0 40.6 1.0
C B:PRO257 4.0 39.9 1.0
CB B:PRO257 4.1 39.9 1.0
N B:PRO257 4.3 39.9 1.0
MG B:MG905 4.4 31.4 1.0
CG B:ASN358 4.5 43.8 1.0
C B:PRO256 4.5 43.5 1.0
CA B:GLY258 4.7 39.1 1.0
O3A B:ADP903 4.8 43.3 1.0
N B:THR259 4.8 38.3 1.0

Fluorine binding site 9 out of 24 in 6opc

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Fluorine binding site 9 out of 24 in the CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 9 of CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F904

b:43.3
occ:1.00
F3 B:BEF904 0.0 43.3 1.0
BE B:BEF904 1.5 43.3 1.0
O1B B:ADP903 2.4 43.3 1.0
F1 B:BEF904 2.5 43.3 1.0
F2 B:BEF904 2.6 43.3 1.0
CB B:PRO257 3.3 39.9 1.0
CA B:PRO257 3.5 39.9 1.0
N B:GLY258 3.6 39.1 1.0
NE C:ARG369 3.6 39.6 1.0
NH1 C:ARG372 3.7 41.5 1.0
ND2 B:ASN358 3.8 43.8 1.0
PB B:ADP903 4.0 43.3 1.0
C B:PRO257 4.0 39.9 1.0
NH2 C:ARG372 4.0 41.5 1.0
CZ C:ARG369 4.1 39.6 1.0
CD C:ARG369 4.2 39.6 1.0
NH2 C:ARG369 4.3 39.6 1.0
CZ C:ARG372 4.4 41.5 1.0
O3B B:ADP903 4.4 43.3 1.0
MG B:MG905 4.6 31.4 1.0
CA B:GLY258 4.6 39.1 1.0
O3A B:ADP903 4.7 43.3 1.0
CG B:ASN358 4.7 43.8 1.0
OD1 B:ASN358 4.8 43.8 1.0
CB C:ALA366 4.8 39.1 1.0
CG B:PRO257 4.8 39.9 1.0
O2B B:ADP903 4.8 43.3 1.0
N B:PRO257 4.9 39.9 1.0
NH1 C:ARG369 5.0 39.6 1.0

Fluorine binding site 10 out of 24 in 6opc

Go back to Fluorine Binding Sites List in 6opc
Fluorine binding site 10 out of 24 in the CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain)


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 10 of CDC48 Hexamer in A Complex with Substrate and SHP1(Ubx Domain) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F901

b:36.0
occ:1.00
F1 C:BEF901 0.0 36.0 1.0
BE C:BEF901 1.5 36.0 1.0
MG B:MG902 2.5 30.5 1.0
O3B B:ADP901 2.5 36.0 1.0
F3 C:BEF901 2.5 36.0 1.0
F2 C:BEF901 2.5 36.0 1.0
O1B B:ADP901 2.6 36.0 1.0
PB B:ADP901 3.2 36.0 1.0
NH2 C:ARG648 3.6 37.7 1.0
OE2 B:GLU588 3.7 41.2 1.0
OG1 B:THR535 4.0 37.2 1.0
O2B B:ADP901 4.1 36.0 1.0
O3A B:ADP901 4.3 36.0 1.0
NH2 C:ARG645 4.6 39.3 1.0
CZ C:ARG648 4.7 37.7 1.0
NH1 C:ARG648 4.8 37.7 1.0
CE B:LYS534 4.9 38.0 1.0
CD B:GLU588 4.9 41.2 1.0

Reference:

I.Cooney, H.Han, M.G.Stewart, R.H.Carson, D.T.Hansen, J.H.Iwasa, J.C.Price, C.P.Hill, P.S.Shen. Structure of the CDC48 Segregase in the Act of Unfolding An Authentic Substrate. Science V. 365 502 2019.
ISSN: ESSN 1095-9203
PubMed: 31249134
DOI: 10.1126/SCIENCE.AAX0486
Page generated: Sun Dec 13 13:04:11 2020

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