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Fluorine in PDB 6xez: Structure of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc

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

All present enzymatic activity of Structure of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc:
2.7.7.48; 3.4.19.12; 3.4.22.69; 3.6.4.12; 3.6.4.13;

Other elements in 6xez:

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

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

Fluorine Binding Sites:

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

Fluorine binding site 1 out of 6 in 6xez

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


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Structure of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc within 5.0Å range:
probe atom residue distance (Å) B Occ
E:F705

b:1.0
occ:1.00
 F1 E:AF3705 0.0 1.0 1.0
AL E:AF3705 1.8 1.0 1.0
O2B E:ADP704 1.8 0.1 1.0
PB E:ADP704 2.7 0.1 1.0
O3B E:ADP704 2.7 0.1 1.0
CB E:LYS288 2.8 0.6 1.0
F2 E:AF3705 3.1 1.0 1.0
F3 E:AF3705 3.1 1.0 1.0
OG1 E:THR286 3.2 0.6 1.0
O1B E:ADP704 3.4 0.1 1.0
O E:PRO283 3.8 0.1 1.0
O E:GLY282 3.9 0.8 1.0
CA E:LYS288 4.0 0.6 1.0
N E:LYS288 4.0 0.6 1.0
O3A E:ADP704 4.1 0.1 1.0
N E:THR286 4.2 0.6 1.0
C E:GLY282 4.3 0.8 1.0
CA E:GLY282 4.3 0.8 1.0
O E:THR286 4.3 0.6 1.0
CB E:THR286 4.4 0.6 1.0
C E:THR286 4.5 0.6 1.0
CA E:THR286 4.6 0.6 1.0
MG E:MG706 4.7 0.9 1.0
C E:LYS288 4.8 0.6 1.0
N E:GLY285 4.8 0.5 1.0
C E:PRO283 4.9 0.1 1.0
O E:LYS288 5.0 0.6 1.0

Fluorine binding site 2 out of 6 in 6xez

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


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Structure of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc within 5.0Å range:
probe atom residue distance (Å) B Occ
E:F705

b:1.0
occ:1.00
 F2 E:AF3705 0.0 1.0 1.0
AL E:AF3705 1.8 1.0 1.0
O3B E:ADP704 2.9 0.1 1.0
MG E:MG706 2.9 0.9 1.0
F1 E:AF3705 3.1 1.0 1.0
F3 E:AF3705 3.1 1.0 1.0
O1B E:ADP704 3.1 0.1 1.0
PB E:ADP704 3.4 0.1 1.0
OE2 E:GLU375 3.7 0.9 1.0
O2B E:ADP704 3.8 0.1 1.0
CB E:LYS288 4.3 0.6 1.0
CA E:GLY538 4.7 0.1 1.0
NE2 E:GLN404 4.7 0.7 1.0
CD E:GLU375 4.8 0.9 1.0
O3A E:ADP704 4.8 0.1 1.0
OD1 E:ASP374 4.9 0.2 1.0

Fluorine binding site 3 out of 6 in 6xez

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Fluorine binding site 3 out of 6 in the Structure of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Structure of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc within 5.0Å range:
probe atom residue distance (Å) B Occ
E:F705

b:1.0
occ:1.00
 F3 E:AF3705 0.0 1.0 1.0
AL E:AF3705 1.8 1.0 1.0
O1B E:ADP704 1.8 0.1 1.0
O2B E:ADP704 2.6 0.1 1.0
PB E:ADP704 2.7 0.1 1.0
F1 E:AF3705 3.1 1.0 1.0
F2 E:AF3705 3.1 1.0 1.0
N E:GLY285 3.4 0.5 1.0
O3B E:ADP704 3.6 0.1 1.0
CA E:PRO284 3.9 0.5 1.0
O3A E:ADP704 4.1 0.1 1.0
O E:PRO283 4.2 0.1 1.0
C E:PRO284 4.2 0.5 1.0
NE2 E:GLN404 4.3 0.7 1.0
NH2 E:ARG567 4.4 0.8 1.0
CA E:GLY285 4.4 0.5 1.0
O E:GLY282 4.7 0.8 1.0
N E:THR286 4.7 0.6 1.0
N E:PRO284 4.8 0.5 1.0
C E:PRO283 4.8 0.1 1.0
CB E:PRO284 4.9 0.5 1.0
OE2 E:GLU375 5.0 0.9 1.0
OG1 E:THR286 5.0 0.6 1.0

Fluorine binding site 4 out of 6 in 6xez

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Fluorine binding site 4 out of 6 in the Structure of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Structure of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc within 5.0Å range:
probe atom residue distance (Å) B Occ
F:F1004

b:0.4
occ:1.00
 F1 F:AF31004 0.0 0.4 1.0
AL F:AF31004 1.8 0.4 1.0
O1B F:ADP1003 1.8 0.5 1.0
O F:GLY282 2.7 0.6 1.0
PB F:ADP1003 2.7 0.5 1.0
O3B F:ADP1003 2.7 0.5 1.0
OG1 F:THR286 2.8 0.1 1.0
CB F:LYS288 2.9 0.3 1.0
F2 F:AF31004 3.1 0.4 1.0
F3 F:AF31004 3.1 0.4 1.0
C F:GLY282 3.1 0.6 1.0
CA F:GLY282 3.3 0.6 1.0
O2B F:ADP1003 3.4 0.5 1.0
O F:PRO283 3.8 0.4 1.0
O3A F:ADP1003 4.1 0.5 1.0
CA F:LYS288 4.1 0.3 1.0
N F:PRO283 4.1 0.4 1.0
N F:LYS288 4.1 0.3 1.0
CB F:THR286 4.1 0.1 1.0
C F:PRO283 4.2 0.4 1.0
N F:GLY282 4.4 0.6 1.0
N F:THR286 4.6 0.1 1.0
O F:THR286 4.6 0.1 1.0
C F:THR286 4.7 0.1 1.0
MG F:MG1005 4.7 0.0 1.0
CA F:THR286 4.7 0.1 1.0
CA F:PRO283 4.7 0.4 1.0
N F:PRO284 4.7 0.0 1.0
CA F:PRO284 4.9 0.0 1.0

Fluorine binding site 5 out of 6 in 6xez

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Fluorine binding site 5 out of 6 in the Structure of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Structure of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc within 5.0Å range:
probe atom residue distance (Å) B Occ
F:F1004

b:0.4
occ:1.00
 F2 F:AF31004 0.0 0.4 1.0
AL F:AF31004 1.8 0.4 1.0
O3B F:ADP1003 2.9 0.5 1.0
MG F:MG1005 2.9 0.0 1.0
OD2 F:ASP374 3.0 0.3 1.0
F1 F:AF31004 3.1 0.4 1.0
F3 F:AF31004 3.1 0.4 1.0
O2B F:ADP1003 3.1 0.5 1.0
PB F:ADP1003 3.4 0.5 1.0
CB F:LYS288 3.5 0.3 1.0
O1B F:ADP1003 3.8 0.5 1.0
CG F:ASP374 4.0 0.3 1.0
OD1 F:ASP374 4.1 0.3 1.0
O F:GLY282 4.8 0.6 1.0
CA F:LYS288 4.8 0.3 1.0
O3A F:ADP1003 4.8 0.5 1.0
C F:LYS288 5.0 0.3 1.0

Fluorine binding site 6 out of 6 in 6xez

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


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 6 of Structure of Sars-Cov-2 Replication-Transcription Complex Bound to NSP13 Helicase - NSP13(2)-Rtc within 5.0Å range:
probe atom residue distance (Å) B Occ
F:F1004

b:0.4
occ:1.00
 F3 F:AF31004 0.0 0.4 1.0
AL F:AF31004 1.8 0.4 1.0
O2B F:ADP1003 1.8 0.5 1.0
O1B F:ADP1003 2.6 0.5 1.0
PB F:ADP1003 2.7 0.5 1.0
F1 F:AF31004 3.1 0.4 1.0
F2 F:AF31004 3.1 0.4 1.0
CA F:PRO284 3.1 0.0 1.0
O F:GLY282 3.3 0.6 1.0
N F:PRO284 3.3 0.0 1.0
O3B F:ADP1003 3.6 0.5 1.0
C F:PRO283 3.7 0.4 1.0
CB F:PRO284 3.8 0.0 1.0
CD F:PRO284 3.8 0.0 1.0
O F:PRO283 4.0 0.4 1.0
O3A F:ADP1003 4.1 0.5 1.0
C F:PRO284 4.3 0.0 1.0
C F:GLY282 4.3 0.6 1.0
N F:GLY285 4.4 0.7 1.0
CG F:PRO284 4.4 0.0 1.0
CA F:PRO283 4.6 0.4 1.0
OG1 F:THR286 4.7 0.1 1.0
NE2 F:GLN404 4.7 0.1 1.0
N F:PRO283 4.9 0.4 1.0

Reference:

J.Chen, B.Malone, E.Llewellyn, M.Grasso, P.M.M.Shelton, P.D.B.Olinares, K.Maruthi, E.T.Eng, H.Vatandaslar, B.T.Chait, T.M.Kapoor, S.A.Darst, E.A.Campbell. Structural Basis For Helicase-Polymerase Coupling in the Sars-Cov-2 Replication-Transcription Complex. Cell V. 182 1560 2020.
ISSN: ISSN 1097-4172
PubMed: 32783916
DOI: 10.1016/J.CELL.2020.07.033
Page generated: Tue Jul 15 17:23:28 2025

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