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Fluorine in PDB 7re3: Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer

Enzymatic activity of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer

All present enzymatic activity of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer:
2.7.7.48; 3.6.4.12; 3.6.4.13;

Other elements in 7re3:

The structure of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer also contains other interesting chemical elements:

Zinc (Zn) 16 atoms
Aluminium (Al) 4 atoms
Magnesium (Mg) 6 atoms

Fluorine Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Fluorine atom in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer (pdb code 7re3). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 12 binding sites of Fluorine where determined in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer, PDB code: 7re3:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Fluorine binding site 1 out of 12 in 7re3

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Fluorine binding site 1 out of 12 in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer within 5.0Å range:
probe atom residue distance (Å) B Occ
E:F706

b:322.7
occ:1.00
 F1 E:AF3706 0.0 322.7 1.0
AL E:AF3706 1.8 322.7 1.0
MG E:MG705 2.1 318.9 1.0
O3B E:ADP704 2.4 316.0 1.0
O1A E:ADP704 2.7 316.0 1.0
F2 E:AF3706 3.1 322.7 1.0
F3 E:AF3706 3.1 322.7 1.0
PB E:ADP704 3.4 316.0 1.0
NH1 E:ARG443 3.6 350.2 1.0
O1B E:ADP704 3.6 316.0 1.0
O E:GLY538 3.6 353.4 1.0
O3A E:ADP704 3.8 316.0 1.0
PA E:ADP704 3.9 316.0 1.0
CA E:GLY538 3.9 353.4 1.0
NH2 E:ARG443 4.0 350.2 1.0
OG E:SER289 4.0 311.6 1.0
C E:GLY538 4.2 353.4 1.0
CZ E:ARG443 4.3 350.2 1.0
N E:GLY285 4.7 324.2 1.0
N E:GLY538 4.7 353.4 1.0
O2B E:ADP704 4.8 316.0 1.0
CB E:SER289 4.9 311.6 1.0
O5' E:ADP704 4.9 316.0 1.0
O2A E:ADP704 4.9 316.0 1.0

Fluorine binding site 2 out of 12 in 7re3

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Fluorine binding site 2 out of 12 in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer within 5.0Å range:
probe atom residue distance (Å) B Occ
E:F706

b:322.7
occ:1.00
 F2 E:AF3706 0.0 322.7 1.0
AL E:AF3706 1.8 322.7 1.0
NE2 E:GLN404 2.7 322.3 1.0
O3B E:ADP704 3.0 316.0 1.0
F1 E:AF3706 3.1 322.7 1.0
F3 E:AF3706 3.1 322.7 1.0
OE1 E:GLN404 3.2 322.3 1.0
CD E:GLN404 3.3 322.3 1.0
CB E:PRO284 3.7 323.7 1.0
NZ E:LYS288 3.8 313.1 1.0
CA E:PRO284 3.8 323.7 1.0
MG E:MG705 4.0 318.9 1.0
CE E:LYS288 4.0 313.1 1.0
PB E:ADP704 4.2 316.0 1.0
N E:GLY285 4.3 324.2 1.0
O1B E:ADP704 4.5 316.0 1.0
C E:PRO284 4.7 323.7 1.0
CG E:GLN404 4.7 322.3 1.0
NH2 E:ARG567 4.8 362.1 1.0
O2B E:ADP704 4.8 316.0 1.0
N E:PRO284 4.9 323.7 1.0

Fluorine binding site 3 out of 12 in 7re3

Go back to Fluorine Binding Sites List in 7re3
Fluorine binding site 3 out of 12 in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer within 5.0Å range:
probe atom residue distance (Å) B Occ
E:F706

b:322.7
occ:1.00
 F3 E:AF3706 0.0 322.7 1.0
AL E:AF3706 1.8 322.7 1.0
MG E:MG705 2.2 318.9 1.0
OG E:SER289 2.7 311.6 1.0
O1B E:ADP704 3.1 316.0 1.0
F2 E:AF3706 3.1 322.7 1.0
F1 E:AF3706 3.1 322.7 1.0
O3B E:ADP704 3.6 316.0 1.0
PB E:ADP704 3.9 316.0 1.0
CB E:SER289 4.1 311.6 1.0
CE E:LYS288 4.1 313.1 1.0
N E:SER289 4.2 311.6 1.0
OD1 E:ASP374 4.5 306.7 1.0
CB E:LYS288 4.5 313.1 1.0
O1A E:ADP704 4.5 316.0 1.0
CA E:SER289 4.7 311.6 1.0
NZ E:LYS288 4.8 313.1 1.0
OD2 E:ASP374 4.9 306.7 1.0
O2B E:ADP704 4.9 316.0 1.0
NE2 E:GLN404 5.0 322.3 1.0
C E:LYS288 5.0 313.1 1.0

Fluorine binding site 4 out of 12 in 7re3

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Fluorine binding site 4 out of 12 in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer within 5.0Å range:
probe atom residue distance (Å) B Occ
F:F1005

b:194.8
occ:1.00
 F1 F:AF31005 0.0 194.8 1.0
AL F:AF31005 1.8 194.8 1.0
O1B F:ADP1003 2.3 194.2 1.0
N F:GLY285 2.9 193.3 1.0
F3 F:AF31005 3.1 194.8 1.0
F2 F:AF31005 3.1 194.8 1.0
O3B F:ADP1003 3.2 194.2 1.0
PB F:ADP1003 3.3 194.2 1.0
CA F:GLY285 3.5 193.3 1.0
O1A F:ADP1003 3.8 194.2 1.0
C F:PRO284 3.9 191.6 1.0
CA F:PRO284 4.0 191.6 1.0
O3A F:ADP1003 4.3 194.2 1.0
NH2 F:ARG443 4.4 201.2 1.0
O2B F:ADP1003 4.4 194.2 1.0
O5' F:ADP1003 4.5 194.2 1.0
PA F:ADP1003 4.5 194.2 1.0
N F:THR286 4.5 191.8 1.0
C F:GLY285 4.5 193.3 1.0
CB F:PRO284 4.7 191.6 1.0
NZ F:LYS288 4.8 189.9 1.0
O F:PRO284 5.0 191.6 1.0

Fluorine binding site 5 out of 12 in 7re3

Go back to Fluorine Binding Sites List in 7re3
Fluorine binding site 5 out of 12 in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer within 5.0Å range:
probe atom residue distance (Å) B Occ
F:F1005

b:194.8
occ:1.00
 F2 F:AF31005 0.0 194.8 1.0
AL F:AF31005 1.8 194.8 1.0
NZ F:LYS288 2.4 189.9 1.0
N F:THR286 2.5 191.8 1.0
O3B F:ADP1003 2.5 194.2 1.0
N F:GLY285 2.7 193.3 1.0
OG1 F:THR286 2.7 191.8 1.0
O F:PRO283 2.8 189.9 1.0
F1 F:AF31005 3.1 194.8 1.0
F3 F:AF31005 3.1 194.8 1.0
PB F:ADP1003 3.2 194.2 1.0
C F:GLY285 3.3 193.3 1.0
CA F:GLY285 3.3 193.3 1.0
CE F:LYS288 3.4 189.9 1.0
CA F:THR286 3.4 191.8 1.0
O1B F:ADP1003 3.5 194.2 1.0
CB F:THR286 3.5 191.8 1.0
C F:PRO284 3.6 191.6 1.0
O2B F:ADP1003 3.6 194.2 1.0
N F:GLY287 3.7 190.8 1.0
CA F:PRO284 3.9 191.6 1.0
C F:PRO283 4.0 189.9 1.0
C F:THR286 4.0 191.8 1.0
CG2 F:THR286 4.1 191.8 1.0
CG F:LYS288 4.4 189.9 1.0
N F:PRO284 4.4 191.6 1.0
O F:GLY285 4.4 193.3 1.0
CD F:LYS288 4.5 189.9 1.0
O F:PRO284 4.5 191.6 1.0
N F:LYS288 4.7 189.9 1.0
O3A F:ADP1003 4.7 194.2 1.0
CA F:GLY287 4.8 190.8 1.0

Fluorine binding site 6 out of 12 in 7re3

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Fluorine binding site 6 out of 12 in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer within 5.0Å range:
probe atom residue distance (Å) B Occ
F:F1005

b:194.8
occ:1.00
 F3 F:AF31005 0.0 194.8 1.0
AL F:AF31005 1.8 194.8 1.0
NZ F:LYS288 3.0 189.9 1.0
F1 F:AF31005 3.1 194.8 1.0
F2 F:AF31005 3.1 194.8 1.0
CE F:LYS288 3.2 189.9 1.0
CA F:PRO284 3.3 191.6 1.0
NE2 F:GLN404 3.6 184.2 1.0
O F:PRO283 3.7 189.9 1.0
N F:GLY285 3.9 193.3 1.0
N F:PRO284 3.9 191.6 1.0
O1B F:ADP1003 4.0 194.2 1.0
C F:PRO283 4.0 189.9 1.0
CB F:PRO284 4.1 191.6 1.0
C F:PRO284 4.1 191.6 1.0
O F:GLY282 4.2 187.7 1.0
CG F:PRO284 4.5 191.6 1.0
CD F:GLN404 4.7 184.2 1.0
PB F:ADP1003 4.7 194.2 1.0
CD F:LYS288 4.7 189.9 1.0
CD F:PRO284 4.8 191.6 1.0
O3B F:ADP1003 4.9 194.2 1.0
O2B F:ADP1003 5.0 194.2 1.0
C F:GLY282 5.0 187.7 1.0

Fluorine binding site 7 out of 12 in 7re3

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Fluorine binding site 7 out of 12 in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 7 of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer within 5.0Å range:
probe atom residue distance (Å) B Occ
K:F706

b:422.9
occ:1.00
 F1 K:AF3706 0.0 422.9 1.0
AL K:AF3706 1.8 422.9 1.0
MG K:MG705 2.1 418.4 1.0
O3B K:ADP704 2.4 417.9 1.0
O2A K:ADP704 2.7 417.9 1.0
F3 K:AF3706 3.1 422.9 1.0
F2 K:AF3706 3.1 422.9 1.0
PB K:ADP704 3.4 417.9 1.0
NH1 K:ARG443 3.6 452.7 1.0
O2B K:ADP704 3.6 417.9 1.0
O K:GLY538 3.6 451.8 1.0
O3A K:ADP704 3.8 417.9 1.0
PA K:ADP704 3.9 417.9 1.0
CA K:GLY538 3.9 451.8 1.0
NH2 K:ARG443 4.0 452.7 1.0
OG K:SER289 4.0 412.2 1.0
C K:GLY538 4.2 451.8 1.0
CZ K:ARG443 4.3 452.7 1.0
N K:GLY285 4.7 426.8 1.0
N K:GLY538 4.7 451.8 1.0
O1B K:ADP704 4.8 417.9 1.0
CB K:SER289 4.9 412.2 1.0
O5' K:ADP704 4.9 417.9 1.0
O1A K:ADP704 4.9 417.9 1.0

Fluorine binding site 8 out of 12 in 7re3

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Fluorine binding site 8 out of 12 in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 8 of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer within 5.0Å range:
probe atom residue distance (Å) B Occ
K:F706

b:422.9
occ:1.00
 F2 K:AF3706 0.0 422.9 1.0
AL K:AF3706 1.8 422.9 1.0
NE2 K:GLN404 2.7 414.8 1.0
O3B K:ADP704 3.0 417.9 1.0
F3 K:AF3706 3.1 422.9 1.0
F1 K:AF3706 3.1 422.9 1.0
OE1 K:GLN404 3.2 414.8 1.0
CD K:GLN404 3.3 414.8 1.0
CB K:PRO284 3.7 425.2 1.0
NZ K:LYS288 3.8 413.4 1.0
CA K:PRO284 3.8 425.2 1.0
MG K:MG705 4.0 418.4 1.0
CE K:LYS288 4.0 413.4 1.0
PB K:ADP704 4.2 417.9 1.0
N K:GLY285 4.3 426.8 1.0
O2B K:ADP704 4.5 417.9 1.0
C K:PRO284 4.7 425.2 1.0
CG K:GLN404 4.7 414.8 1.0
NH2 K:ARG567 4.8 463.1 1.0
O1B K:ADP704 4.8 417.9 1.0
N K:PRO284 4.9 425.2 1.0

Fluorine binding site 9 out of 12 in 7re3

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Fluorine binding site 9 out of 12 in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 9 of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer within 5.0Å range:
probe atom residue distance (Å) B Occ
K:F706

b:422.9
occ:1.00
 F3 K:AF3706 0.0 422.9 1.0
AL K:AF3706 1.8 422.9 1.0
MG K:MG705 2.2 418.4 1.0
OG K:SER289 2.7 412.2 1.0
O2B K:ADP704 3.1 417.9 1.0
F1 K:AF3706 3.1 422.9 1.0
F2 K:AF3706 3.1 422.9 1.0
O3B K:ADP704 3.6 417.9 1.0
PB K:ADP704 3.9 417.9 1.0
CB K:SER289 4.1 412.2 1.0
CE K:LYS288 4.1 413.4 1.0
N K:SER289 4.2 412.2 1.0
OD1 K:ASP374 4.5 396.8 1.0
CB K:LYS288 4.5 413.4 1.0
O2A K:ADP704 4.5 417.9 1.0
CA K:SER289 4.7 412.2 1.0
NZ K:LYS288 4.8 413.4 1.0
OD2 K:ASP374 4.9 396.8 1.0
O1B K:ADP704 4.9 417.9 1.0
NE2 K:GLN404 5.0 414.8 1.0
C K:LYS288 5.0 413.4 1.0

Fluorine binding site 10 out of 12 in 7re3

Go back to Fluorine Binding Sites List in 7re3
Fluorine binding site 10 out of 12 in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 10 of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc Dimer within 5.0Å range:
probe atom residue distance (Å) B Occ
L:F1005

b:201.6
occ:1.00
 F1 L:AF31005 0.0 201.6 1.0
AL L:AF31005 1.8 201.6 1.0
O2B L:ADP1003 2.3 201.2 1.0
N L:GLY285 2.9 199.2 1.0
F3 L:AF31005 3.1 201.6 1.0
F2 L:AF31005 3.1 201.6 1.0
O3B L:ADP1003 3.2 201.2 1.0
PB L:ADP1003 3.3 201.2 1.0
CA L:GLY285 3.5 199.2 1.0
O2A L:ADP1003 3.8 201.2 1.0
C L:PRO284 3.9 198.5 1.0
CA L:PRO284 4.0 198.5 1.0
O3A L:ADP1003 4.3 201.2 1.0
NH2 L:ARG443 4.4 209.3 1.0
O1B L:ADP1003 4.4 201.2 1.0
O5' L:ADP1003 4.5 201.2 1.0
PA L:ADP1003 4.5 201.2 1.0
N L:THR286 4.5 199.1 1.0
C L:GLY285 4.5 199.2 1.0
CB L:PRO284 4.7 198.5 1.0
NZ L:LYS288 4.8 195.9 1.0
O L:PRO284 5.0 198.5 1.0

Reference:

J.Chen, Q.Wang, B.Malone, E.C.Llewellyn, K.Maruthi, E.T.Eng, J.Perry, E.A.Campbell, D.E.Shaw, S.A.Darst. Ensemble Cryo-Electron Microscopy Reveals Conformational States of the Sars-Cov-2 Helicase Replication-Transcription Complex Biorxiv 2021.
DOI: 10.1101/2021.11.10.468168
Page generated: Tue Jul 15 23:29:58 2025

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