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Zinc in PDB 7cxm: Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex

Enzymatic activity of Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex

All present enzymatic activity of Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex:
2.7.7.48; 3.4.19.12; 3.4.22.69; 3.6.4.12; 3.6.4.13;

Zinc Binding Sites:

The binding sites of Zinc atom in the Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex (pdb code 7cxm). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex, PDB code: 7cxm:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in 7cxm

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Zinc binding site 1 out of 8 in the Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1001

b:77.0
occ:1.00
 ND1 A:HIS295 2.1 57.5 1.0
SG A:CYS301 2.3 62.2 1.0
SG A:CYS310 2.3 55.2 1.0
SG A:CYS306 2.3 58.0 1.0
CE1 A:HIS295 2.9 57.5 1.0
CG A:HIS295 3.2 57.5 1.0
O A:CYS306 3.4 58.0 1.0
CB A:CYS301 3.5 62.2 1.0
CB A:CYS306 3.7 58.0 1.0
CB A:HIS295 3.7 57.5 1.0
CB A:CYS310 3.7 55.2 1.0
C A:CYS306 3.8 58.0 1.0
CA A:CYS301 3.9 62.2 1.0
NE2 A:HIS295 4.1 57.5 1.0
CA A:CYS306 4.2 58.0 1.0
N A:HIS295 4.3 57.5 1.0
CD2 A:HIS295 4.3 57.5 1.0
CA A:HIS295 4.6 57.5 1.0
N A:ILE307 4.6 55.3 1.0
N A:CYS301 4.7 62.2 1.0
N A:LEU302 4.9 62.7 1.0
N A:CYS310 4.9 55.2 1.0
CA A:CYS310 4.9 55.2 1.0
O A:THR293 4.9 57.9 1.0
O A:HIS295 4.9 57.5 1.0
C A:CYS301 5.0 62.2 1.0

Zinc binding site 2 out of 8 in 7cxm

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Zinc binding site 2 out of 8 in the Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1002

b:89.2
occ:1.00
 ND1 A:HIS642 2.1 64.5 1.0
SG A:CYS487 2.3 67.8 1.0
SG A:CYS645 2.3 71.8 1.0
SG A:CYS646 2.3 70.2 1.0
CE1 A:HIS642 2.9 64.5 1.0
CG A:HIS642 3.2 64.5 1.0
CB A:CYS645 3.5 71.8 1.0
CB A:CYS646 3.6 70.2 1.0
CB A:HIS642 3.6 64.5 1.0
CB A:CYS487 3.7 67.8 1.0
CE1 A:PHE571 3.8 61.7 1.0
N A:CYS487 3.9 67.8 1.0
N A:CYS646 3.9 70.2 1.0
NE2 A:HIS642 4.1 64.5 1.0
C A:CYS645 4.2 71.8 1.0
CD2 A:HIS642 4.2 64.5 1.0
CA A:CYS646 4.2 70.2 1.0
CD1 A:PHE571 4.3 61.7 1.0
CA A:CYS487 4.3 67.8 1.0
CA A:CYS645 4.4 71.8 1.0
C A:GLY486 4.6 65.2 1.0
CA A:HIS642 4.6 64.5 1.0
O A:CYS645 4.8 71.8 1.0
CZ A:PHE571 4.8 61.7 1.0
CA A:GLY486 4.8 65.2 1.0

Zinc binding site 3 out of 8 in 7cxm

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Zinc binding site 3 out of 8 in the Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn1000

b:0.4
occ:1.00
 SG F:CYS26 2.3 0.2 1.0
SG F:CYS29 2.3 0.1 1.0
CB F:CYS26 3.0 0.2 1.0
CB F:CYS29 3.0 0.1 1.0
CB F:CYS8 3.1 0.1 1.0
N F:CYS8 3.3 0.1 1.0
N F:CYS26 3.5 0.2 1.0
CB F:LEU7 3.5 0.9 1.0
CB F:CYS5 3.6 0.8 1.0
SG F:CYS5 3.7 0.8 1.0
CA F:CYS26 3.8 0.2 1.0
CA F:CYS8 3.9 0.1 1.0
C F:LEU7 3.9 0.9 1.0
CA F:GLY99 3.9 0.5 1.0
N F:CYS29 4.0 0.1 1.0
CA F:LEU7 4.1 0.9 1.0
CA F:CYS29 4.1 0.1 1.0
N F:GLY99 4.4 0.5 1.0
N F:LEU7 4.4 0.9 1.0
SG F:CYS8 4.5 0.1 1.0
C F:CYS26 4.5 0.2 1.0
O F:CYS26 4.7 0.2 1.0
C F:LEU25 4.7 0.3 1.0
CG F:LEU7 4.7 0.9 1.0
C F:GLY99 4.8 0.5 1.0
N F:SER100 4.8 0.3 1.0
O F:LEU7 4.8 0.9 1.0
OG F:SER10 4.9 0.8 1.0
C F:CYS8 4.9 0.1 1.0
CA F:CYS5 5.0 0.8 1.0

Zinc binding site 4 out of 8 in 7cxm

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Zinc binding site 4 out of 8 in the Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn1001

b:0.3
occ:1.00
 ND1 F:HIS75 2.1 0.8 1.0
SG F:CYS72 2.3 0.0 1.0
SG F:CYS55 2.3 0.9 1.0
SG F:CYS50 2.3 0.1 1.0
CE1 F:HIS75 2.4 0.8 1.0
CB F:CYS55 2.5 0.9 1.0
CB F:CYS72 3.0 0.0 1.0
CG F:HIS75 3.2 0.8 1.0
CB F:ALA52 3.3 0.7 1.0
NE2 F:HIS75 3.5 0.8 1.0
CB F:CYS50 3.6 0.1 1.0
N F:CYS72 3.7 0.0 1.0
CD2 F:HIS75 3.9 0.8 1.0
CA F:CYS55 4.0 0.9 1.0
CA F:CYS72 4.0 0.0 1.0
CB F:HIS75 4.1 0.8 1.0
N F:HIS75 4.5 0.8 1.0
CA F:ALA52 4.6 0.7 1.0
N F:ALA52 4.7 0.7 1.0
N F:CYS55 4.7 0.9 1.0
O F:CYS55 4.7 0.9 1.0
C F:CYS55 4.8 0.9 1.0
C F:TYR71 4.9 0.3 1.0
CA F:HIS75 4.9 0.8 1.0
CA F:CYS50 4.9 0.1 1.0
OG F:SER74 4.9 0.9 1.0
CD1 F:TYR71 4.9 0.3 1.0

Zinc binding site 5 out of 8 in 7cxm

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Zinc binding site 5 out of 8 in the Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn1002

b:0.6
occ:1.00
 CE1 F:HIS33 1.6 1.0 1.0
ND1 F:HIS39 2.1 0.3 1.0
ND1 F:HIS33 2.1 1.0 1.0
SG F:CYS19 2.3 0.3 1.0
SG F:CYS16 2.3 0.1 1.0
NE2 F:HIS33 2.8 1.0 1.0
CE1 F:HIS39 2.9 0.3 1.0
CG F:HIS39 3.2 0.3 1.0
CG F:HIS33 3.4 1.0 1.0
CB F:CYS16 3.5 0.1 1.0
CB F:HIS39 3.7 0.3 1.0
CD2 F:HIS33 3.7 1.0 1.0
CE2 F:PHE106 3.9 0.3 1.0
CZ F:PHE106 4.0 0.3 1.0
CB F:CYS19 4.0 0.3 1.0
N F:CYS19 4.0 0.3 1.0
NE2 F:HIS39 4.0 0.3 1.0
CD2 F:HIS39 4.2 0.3 1.0
CB F:ALA18 4.4 0.2 1.0
O F:CYS16 4.4 0.1 1.0
CA F:CYS19 4.6 0.3 1.0
CB F:HIS33 4.6 1.0 1.0
C F:ALA18 4.6 0.2 1.0
CA F:CYS16 4.8 0.1 1.0
CD1 F:LEU25 4.8 0.3 1.0
C F:CYS16 4.9 0.1 1.0
CA F:ALA18 4.9 0.2 1.0
N F:ALA18 5.0 0.2 1.0

Zinc binding site 6 out of 8 in 7cxm

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Zinc binding site 6 out of 8 in the Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn701

b:0.9
occ:1.00
 SG E:CYS26 2.3 0.8 1.0
SG E:CYS5 2.3 0.7 1.0
SG E:CYS29 2.3 0.9 1.0
SG E:CYS8 2.3 0.1 1.0
CB E:CYS29 3.0 0.9 1.0
CB E:CYS26 3.2 0.8 1.0
CB E:CYS5 3.4 0.7 1.0
O E:VAL98 3.4 0.6 1.0
N E:CYS26 3.8 0.8 1.0
CB E:CYS8 4.0 0.1 1.0
N E:CYS8 4.0 0.1 1.0
CA E:CYS26 4.1 0.8 1.0
N E:CYS29 4.1 0.9 1.0
CA E:CYS29 4.2 0.9 1.0
OG E:SER10 4.2 0.8 1.0
C E:VAL98 4.5 0.6 1.0
CB E:LEU7 4.5 0.4 1.0
CA E:CYS8 4.6 0.1 1.0
CA E:GLY99 4.7 0.9 1.0
C E:CYS26 4.7 0.8 1.0
CD1 E:LEU7 4.8 0.4 1.0
CA E:CYS5 4.8 0.7 1.0
N E:SER100 4.8 0.7 1.0
N E:LEU7 4.9 0.4 1.0
C E:LEU7 5.0 0.4 1.0

Zinc binding site 7 out of 8 in 7cxm

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Zinc binding site 7 out of 8 in the Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn702

b:0.9
occ:1.00
 CB E:CYS72 1.9 0.1 1.0
ND1 E:HIS75 2.1 0.1 1.0
SG E:CYS55 2.3 0.3 1.0
SG E:CYS50 2.3 0.7 1.0
SG E:CYS72 2.3 0.1 1.0
CE1 E:HIS75 2.4 0.1 1.0
CB E:CYS55 3.3 0.3 1.0
CA E:CYS72 3.4 0.1 1.0
CG E:HIS75 3.4 0.1 1.0
CB E:CYS50 3.5 0.7 1.0
NE2 E:HIS75 3.7 0.1 1.0
N E:CYS72 3.9 0.1 1.0
OG E:SER74 3.9 0.3 1.0
CD2 E:HIS75 4.2 0.1 1.0
CB E:HIS75 4.2 0.1 1.0
C E:CYS72 4.3 0.1 1.0
N E:HIS75 4.5 0.1 1.0
CG2 E:VAL57 4.6 0.5 1.0
CA E:CYS55 4.7 0.3 1.0
CB E:VAL57 4.7 0.5 1.0
N E:LYS73 4.9 0.2 1.0
CB E:ALA52 4.9 0.8 1.0
CA E:CYS50 4.9 0.7 1.0
O E:CYS72 4.9 0.1 1.0
CB E:SER74 4.9 0.3 1.0

Zinc binding site 8 out of 8 in 7cxm

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Zinc binding site 8 out of 8 in the Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn703

b:1.0
occ:1.00
 NE2 E:HIS33 2.0 0.3 1.0
ND1 E:HIS39 2.0 0.8 1.0
SG E:CYS19 2.3 0.8 1.0
SG E:CYS16 2.3 0.7 1.0
CG E:HIS39 2.4 0.8 1.0
CE1 E:HIS33 2.6 0.3 1.0
CB E:HIS39 2.6 0.8 1.0
CE1 E:HIS39 3.0 0.8 1.0
CD2 E:HIS33 3.3 0.3 1.0
CB E:CYS19 3.4 0.8 1.0
N E:CYS19 3.4 0.8 1.0
CD2 E:HIS39 3.5 0.8 1.0
NE2 E:HIS39 3.7 0.8 1.0
CB E:CYS16 3.7 0.7 1.0
CA E:CYS19 3.8 0.8 1.0
ND1 E:HIS33 3.9 0.3 1.0
CA E:HIS39 4.2 0.8 1.0
CG E:HIS33 4.2 0.3 1.0
C E:ALA18 4.2 0.3 1.0
O E:CYS16 4.4 0.7 1.0
CB E:ALA18 4.4 0.3 1.0
CA E:ALA18 4.7 0.3 1.0
C E:CYS16 4.8 0.7 1.0
N E:ALA18 4.8 0.3 1.0
CA E:CYS16 4.8 0.7 1.0
CG2 E:THR37 4.9 0.3 1.0
C E:HIS39 4.9 0.8 1.0
N E:HIS39 4.9 0.8 1.0
O E:ALA18 5.0 0.3 1.0
CB E:ALA110 5.0 0.5 1.0

Reference:

L.Yan, Y.Zhang, J.Ge, L.Zheng, Y.Gao, T.Wang, Z.Jia, H.Wang, Y.Huang, M.Li, Q.Wang, Z.Rao, Z.Lou. Architecture of A Sars-Cov-2 Mini Replication and Transcription Complex. Nat Commun V. 11 5874 2020.
ISSN: ESSN 2041-1723
PubMed: 33208736
DOI: 10.1038/S41467-020-19770-1
Page generated: Tue Oct 29 18:29:28 2024

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