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

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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

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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

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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: Fri Aug 2 12:03:18 2024

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