Atomistry » Fluorine » PDB 7qvz-7rfw » 7re0
Atomistry »
  Fluorine »
    PDB 7qvz-7rfw »
      7re0 »

Fluorine in PDB 7re0: Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc - Swiveled Class

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

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

Other elements in 7re0:

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

Zinc (Zn) 8 atoms
Magnesium (Mg) 3 atoms
Aluminium (Al) 2 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc - Swiveled Class (pdb code 7re0). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 6 binding sites of Fluorine where determined in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc - Swiveled Class, PDB code: 7re0:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5; 6;

Fluorine binding site 1 out of 6 in 7re0

Go back to Fluorine Binding Sites List in 7re0
Fluorine binding site 1 out of 6 in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc - Swiveled Class


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 - Swiveled Class within 5.0Å range:
probe atom residue distance (Å) B Occ
E:F1005

b:87.2
occ:1.00
 F1 E:AF31005 0.0 87.2 1.0
AL E:AF31005 1.8 87.2 1.0
O3B E:ADP1003 2.5 85.0 1.0
O1B E:ADP1003 2.9 85.0 1.0
F3 E:AF31005 3.1 87.2 1.0
F2 E:AF31005 3.1 87.2 1.0
PB E:ADP1003 3.2 85.0 1.0
NH1 E:ARG443 3.4 85.7 1.0
N E:GLY285 3.5 85.0 1.0
NH2 E:ARG567 3.7 88.6 1.0
NH2 E:ARG443 3.7 85.7 1.0
O3A E:ADP1003 4.0 85.0 1.0
CB E:PRO284 4.0 85.1 1.0
CA E:GLY538 4.0 92.6 1.0
CZ E:ARG443 4.0 85.7 1.0
CA E:PRO284 4.2 85.1 1.0
MG E:MG1004 4.2 85.8 1.0
C E:PRO284 4.2 85.1 1.0
CA E:GLY285 4.3 85.0 1.0
N E:GLY538 4.3 92.6 1.0
C E:GLY538 4.5 92.6 1.0
O2B E:ADP1003 4.5 85.0 1.0
CZ E:ARG567 4.6 88.6 1.0
O E:GLY538 4.6 92.6 1.0
OE1 E:GLN404 4.8 88.7 1.0
NE E:ARG567 4.9 88.6 1.0

Fluorine binding site 2 out of 6 in 7re0

Go back to Fluorine Binding Sites List in 7re0
Fluorine binding site 2 out of 6 in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc - Swiveled Class


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 - Swiveled Class within 5.0Å range:
probe atom residue distance (Å) B Occ
E:F1005

b:87.2
occ:1.00
 F2 E:AF31005 0.0 87.2 1.0
AL E:AF31005 1.8 87.2 1.0
OE1 E:GLN404 2.3 88.7 1.0
F3 E:AF31005 3.1 87.2 1.0
F1 E:AF31005 3.1 87.2 1.0
CD E:GLN404 3.2 88.7 1.0
CB E:PRO284 3.5 85.1 1.0
OE2 E:GLU375 3.6 87.8 1.0
O1B E:ADP1003 3.8 85.0 1.0
CA E:PRO284 3.9 85.1 1.0
CG E:GLN404 4.0 88.7 1.0
OE1 E:GLU375 4.1 87.8 1.0
NE2 E:GLN404 4.1 88.7 1.0
CD E:GLU375 4.2 87.8 1.0
NZ E:LYS288 4.2 83.4 1.0
O3B E:ADP1003 4.3 85.0 1.0
NE2 E:GLN537 4.5 92.2 1.0
CE E:LYS288 4.5 83.4 1.0
CG E:GLN537 4.5 92.2 1.0
PB E:ADP1003 4.5 85.0 1.0
MG E:MG1004 4.8 85.8 1.0
N E:PRO284 4.8 85.1 1.0
N E:GLY538 4.8 92.6 1.0
CG E:PRO284 4.8 85.1 1.0
N E:GLY285 4.8 85.0 1.0
CA E:GLY538 4.9 92.6 1.0
C E:PRO284 4.9 85.1 1.0
NH2 E:ARG567 4.9 88.6 1.0
CB E:GLN404 4.9 88.7 1.0
CD E:GLN537 5.0 92.2 1.0

Fluorine binding site 3 out of 6 in 7re0

Go back to Fluorine Binding Sites List in 7re0
Fluorine binding site 3 out of 6 in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc - Swiveled Class


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 - Swiveled Class within 5.0Å range:
probe atom residue distance (Å) B Occ
E:F1005

b:87.2
occ:1.00
 F3 E:AF31005 0.0 87.2 1.0
AL E:AF31005 1.8 87.2 1.0
MG E:MG1004 2.0 85.8 1.0
O3B E:ADP1003 2.3 85.0 1.0
OE2 E:GLU375 2.5 87.8 1.0
F2 E:AF31005 3.1 87.2 1.0
F1 E:AF31005 3.1 87.2 1.0
PB E:ADP1003 3.1 85.0 1.0
O2B E:ADP1003 3.5 85.0 1.0
O1B E:ADP1003 3.6 85.0 1.0
CD E:GLU375 3.6 87.8 1.0
OG E:SER289 3.7 83.2 1.0
CA E:GLY538 3.7 92.6 1.0
OE1 E:GLU375 4.4 87.8 1.0
CG E:GLU375 4.5 87.8 1.0
O3A E:ADP1003 4.5 85.0 1.0
O E:GLY538 4.6 92.6 1.0
N E:GLY538 4.6 92.6 1.0
C E:GLY538 4.6 92.6 1.0
CB E:SER289 4.7 83.2 1.0
O2A E:ADP1003 4.7 85.0 1.0
CE E:LYS288 4.9 83.4 1.0

Fluorine binding site 4 out of 6 in 7re0

Go back to Fluorine Binding Sites List in 7re0
Fluorine binding site 4 out of 6 in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc - Swiveled Class


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 - Swiveled Class within 5.0Å range:
probe atom residue distance (Å) B Occ
F:F1005

b:106.1
occ:1.00
 F1 F:AF31005 0.0 106.1 1.0
AL F:AF31005 1.8 106.1 1.0
O3B F:ADP1003 2.9 108.2 1.0
N F:GLY285 3.1 107.6 1.0
F3 F:AF31005 3.1 106.1 1.0
F2 F:AF31005 3.1 106.1 1.0
CA F:PRO284 3.6 107.2 1.0
C F:PRO284 3.8 107.2 1.0
PB F:ADP1003 3.9 108.2 1.0
CA F:GLY285 4.0 107.6 1.0
NE2 F:GLN404 4.2 104.9 1.0
O1B F:ADP1003 4.3 108.2 1.0
CB F:PRO284 4.3 107.2 1.0
O2B F:ADP1003 4.3 108.2 1.0
MG F:MG1004 4.7 106.8 1.0
O F:PRO283 4.8 105.4 1.0
N F:PRO284 4.8 107.2 1.0
NZ F:LYS288 4.9 102.6 1.0
NH2 F:ARG567 4.9 114.3 1.0
O F:PRO284 4.9 107.2 1.0

Fluorine binding site 5 out of 6 in 7re0

Go back to Fluorine Binding Sites List in 7re0
Fluorine binding site 5 out of 6 in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc - Swiveled Class


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 - Swiveled Class within 5.0Å range:
probe atom residue distance (Å) B Occ
F:F1005

b:106.1
occ:1.00
 F2 F:AF31005 0.0 106.1 1.0
AL F:AF31005 1.8 106.1 1.0
NZ F:LYS288 2.3 102.6 1.0
O F:GLY282 2.4 101.8 1.0
O F:PRO283 2.7 105.4 1.0
F3 F:AF31005 3.1 106.1 1.0
F1 F:AF31005 3.1 106.1 1.0
C F:PRO283 3.2 105.4 1.0
CA F:PRO284 3.3 107.2 1.0
C F:GLY282 3.4 101.8 1.0
N F:GLY285 3.5 107.6 1.0
N F:PRO284 3.5 107.2 1.0
CE F:LYS288 3.6 102.6 1.0
OG1 F:THR286 3.7 106.5 1.0
C F:PRO284 3.8 107.2 1.0
O2B F:ADP1003 4.0 108.2 1.0
CA F:PRO283 4.1 105.4 1.0
N F:PRO283 4.1 105.4 1.0
O1B F:ADP1003 4.3 108.2 1.0
CA F:GLY282 4.3 101.8 1.0
N F:THR286 4.3 106.5 1.0
PB F:ADP1003 4.4 108.2 1.0
O3B F:ADP1003 4.4 108.2 1.0
CB F:PRO284 4.5 107.2 1.0
CA F:GLY285 4.6 107.6 1.0
CB F:ASP401 4.6 101.3 1.0
CD F:PRO284 4.7 107.2 1.0
NE2 F:GLN404 4.7 104.9 1.0
CD F:LYS288 4.8 102.6 1.0
MG F:MG1004 4.9 106.8 1.0
C F:GLY285 4.9 107.6 1.0
N F:GLY282 4.9 101.8 1.0
CG F:PRO284 4.9 107.2 1.0
O F:PRO284 5.0 107.2 1.0

Fluorine binding site 6 out of 6 in 7re0

Go back to Fluorine Binding Sites List in 7re0
Fluorine binding site 6 out of 6 in the Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc - Swiveled Class


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 - Swiveled Class within 5.0Å range:
probe atom residue distance (Å) B Occ
F:F1005

b:106.1
occ:1.00
 F3 F:AF31005 0.0 106.1 1.0
AL F:AF31005 1.8 106.1 1.0
MG F:MG1004 2.0 106.8 1.0
O2B F:ADP1003 2.4 108.2 1.0
O3B F:ADP1003 2.9 108.2 1.0
F1 F:AF31005 3.1 106.1 1.0
F2 F:AF31005 3.1 106.1 1.0
PB F:ADP1003 3.2 108.2 1.0
NZ F:LYS288 3.2 102.6 1.0
CE F:LYS288 3.6 102.6 1.0
OG F:SER289 3.9 103.0 1.0
CB F:LYS288 4.1 102.6 1.0
O1B F:ADP1003 4.2 108.2 1.0
O3A F:ADP1003 4.4 108.2 1.0
OE2 F:GLU375 4.4 94.9 1.0
N F:SER289 4.4 103.0 1.0
N F:LYS288 4.7 102.6 1.0
CD F:LYS288 4.8 102.6 1.0
CG F:LYS288 4.8 102.6 1.0
CA F:LYS288 4.9 102.6 1.0
O F:GLY282 5.0 101.8 1.0

Reference:

J.Chen, Q.Wang, B.Malone, E.Llewellyn, Y.Pechersky, K.Maruthi, E.T.Eng, J.K.Perry, E.A.Campbell, D.E.Shaw, S.A.Darst. Ensemble Cryo-Electron Microscopy Reveals Conformational States of the NSP13 Helicase in the Sars-Cov-2 Helicase Replication-Transcription Complex Biorxiv 2021.
DOI: 10.1101/2021.11.10.468168
Page generated: Fri Aug 2 12:01:58 2024

Last articles

Zn in 2YRC
Zn in 2YQP
Zn in 2YR2
Zn in 2YQL
Zn in 2YPT
Zn in 2YPA
Zn in 2YPU
Zn in 2YNW
Zn in 2YNT
Zn in 2YNV
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy