Atomistry » Zinc » PDB 7ea8-7emf » 7elb
Atomistry »
  Zinc »
    PDB 7ea8-7emf »
      7elb »

Zinc in PDB 7elb: Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form)

Enzymatic activity of Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form)

All present enzymatic activity of Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form):
2.7.7.48;

Other elements in 7elb:

The structure of Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form) also contains other interesting chemical elements:

Manganese (Mn) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form) (pdb code 7elb). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form), PDB code: 7elb:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in 7elb

Go back to Zinc Binding Sites List in 7elb
Zinc binding site 1 out of 8 in the Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2302

b:205.6
occ:1.00
 ND1 A:HIS472 2.1 147.2 1.0
SG A:CYS284 2.4 145.2 1.0
SG A:CYS470 2.4 171.0 1.0
SG A:CYS287 2.4 148.9 1.0
CE1 A:HIS472 2.7 147.2 1.0
CB A:CYS284 2.9 145.2 1.0
CG A:HIS472 3.2 147.2 1.0
CB A:CYS287 3.3 148.9 1.0
CB A:CYS470 3.7 171.0 1.0
N A:CYS287 3.8 148.9 1.0
CB A:HIS472 3.8 147.2 1.0
NE2 A:HIS472 3.9 147.2 1.0
CA A:CYS287 4.2 148.9 1.0
CD2 A:HIS472 4.2 147.2 1.0
CA A:CYS284 4.3 145.2 1.0
CA A:CYS470 4.4 171.0 1.0
O A:CYS284 4.4 145.2 1.0
C A:CYS284 4.5 145.2 1.0
CB A:PHE286 4.7 141.9 1.0
C A:PHE286 4.8 141.9 1.0
C A:CYS470 4.8 171.0 1.0
N A:PHE286 4.9 141.9 1.0
N A:ARG471 4.9 157.9 1.0
N A:HIS472 4.9 147.2 1.0

Zinc binding site 2 out of 8 in 7elb

Go back to Zinc Binding Sites List in 7elb
Zinc binding site 2 out of 8 in the Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2303

b:151.7
occ:1.00
 SG A:CYS1650 2.4 119.3 1.0
SG A:CYS1664 2.4 95.8 1.0
SG A:CYS1652 2.4 126.0 1.0
SG A:CYS1655 2.4 104.8 1.0
CB A:CYS1655 2.9 104.8 1.0
OG A:SER1667 3.4 85.3 1.0
N A:CYS1652 3.5 126.0 1.0
N A:CYS1655 3.6 104.8 1.0
CB A:CYS1664 3.7 95.8 1.0
CB A:CYS1652 3.8 126.0 1.0
CA A:CYS1655 3.8 104.8 1.0
N A:THR1651 4.0 126.6 1.0
CG2 A:ILE1654 4.1 94.5 1.0
CA A:CYS1652 4.1 126.0 1.0
CB A:CYS1650 4.2 119.3 1.0
CA A:THR1651 4.4 126.6 1.0
C A:THR1651 4.4 126.6 1.0
N A:CYS1664 4.5 95.8 1.0
C A:ILE1654 4.6 94.5 1.0
C A:CYS1652 4.6 126.0 1.0
CB A:SER1667 4.6 85.3 1.0
CA A:CYS1664 4.7 95.8 1.0
OD1 A:ASN1666 4.8 88.6 1.0
C A:CYS1655 4.8 104.8 1.0
C A:CYS1650 4.8 119.3 1.0
N A:ILE1654 4.8 94.5 1.0

Zinc binding site 3 out of 8 in 7elb

Go back to Zinc Binding Sites List in 7elb
Zinc binding site 3 out of 8 in the Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn101

b:191.5
occ:1.00
 SG B:CYS61 2.4 160.0 1.0
SG B:CYS58 2.4 172.5 1.0
SG B:CYS39 2.4 150.3 1.0
SG B:CYS42 2.4 142.1 1.0
CB B:CYS39 3.3 150.3 1.0
CB B:CYS61 3.6 160.0 1.0
CB B:CYS58 3.7 172.5 1.0
CB B:CYS42 3.7 142.1 1.0
CB B:ALA45 4.3 159.1 1.0
N B:CYS42 4.3 142.1 1.0
N B:CYS61 4.5 160.0 1.0
CA B:CYS42 4.6 142.1 1.0
CA B:CYS61 4.7 160.0 1.0
N B:CYS58 4.7 172.5 1.0
CB B:CYS41 4.8 143.6 1.0
CA B:CYS39 4.8 150.3 1.0
CA B:CYS58 4.8 172.5 1.0

Zinc binding site 4 out of 8 in 7elb

Go back to Zinc Binding Sites List in 7elb
Zinc binding site 4 out of 8 in the Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn102

b:244.6
occ:1.00
 NE2 B:HIS55 2.1 182.5 1.0
CE1 B:HIS55 2.3 182.5 1.0
SG B:CYS52 2.4 186.9 1.0
SG B:CYS75 2.4 161.3 1.0
SG B:CYS72 2.4 174.1 1.0
CB B:CYS52 3.0 186.9 1.0
CG2 B:ILE74 3.3 162.4 1.0
CD2 B:HIS55 3.4 182.5 1.0
CB B:CYS75 3.4 161.3 1.0
ND1 B:HIS55 3.6 182.5 1.0
CB B:CYS72 3.8 174.1 1.0
N B:CYS75 3.9 161.3 1.0
O B:CYS52 4.1 186.9 1.0
CG B:HIS55 4.1 182.5 1.0
CA B:CYS75 4.3 161.3 1.0
CA B:CYS52 4.4 186.9 1.0
C B:ILE74 4.6 162.4 1.0
C B:CYS52 4.7 186.9 1.0
CB B:ILE74 4.7 162.4 1.0
CD2 B:LEU79 4.9 186.3 1.0

Zinc binding site 5 out of 8 in 7elb

Go back to Zinc Binding Sites List in 7elb
Zinc binding site 5 out of 8 in the Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn2302

b:211.9
occ:1.00
 ND1 C:HIS472 2.1 145.8 1.0
SG C:CYS284 2.4 146.2 1.0
SG C:CYS470 2.4 170.5 1.0
SG C:CYS287 2.4 147.6 1.0
CE1 C:HIS472 2.7 145.8 1.0
CB C:CYS284 2.9 146.2 1.0
CG C:HIS472 3.2 145.8 1.0
CB C:CYS287 3.3 147.6 1.0
CB C:CYS470 3.7 170.5 1.0
N C:CYS287 3.8 147.6 1.0
CB C:HIS472 3.8 145.8 1.0
NE2 C:HIS472 3.9 145.8 1.0
CA C:CYS287 4.2 147.6 1.0
CD2 C:HIS472 4.2 145.8 1.0
CA C:CYS284 4.3 146.2 1.0
CA C:CYS470 4.4 170.5 1.0
O C:CYS284 4.4 146.2 1.0
C C:CYS284 4.5 146.2 1.0
CB C:PHE286 4.7 140.4 1.0
C C:PHE286 4.8 140.4 1.0
C C:CYS470 4.8 170.5 1.0
N C:PHE286 4.9 140.4 1.0
N C:ARG471 4.9 156.0 1.0
N C:HIS472 4.9 145.8 1.0

Zinc binding site 6 out of 8 in 7elb

Go back to Zinc Binding Sites List in 7elb
Zinc binding site 6 out of 8 in the Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn2303

b:154.1
occ:1.00
 SG C:CYS1650 2.4 117.5 1.0
SG C:CYS1664 2.4 94.4 1.0
SG C:CYS1652 2.4 123.4 1.0
SG C:CYS1655 2.4 104.9 1.0
CB C:CYS1655 2.9 104.9 1.0
OG C:SER1667 3.4 86.2 1.0
N C:CYS1652 3.5 123.4 1.0
N C:CYS1655 3.6 104.9 1.0
CB C:CYS1664 3.7 94.4 1.0
CB C:CYS1652 3.8 123.4 1.0
CA C:CYS1655 3.8 104.9 1.0
N C:THR1651 4.0 124.3 1.0
CG2 C:ILE1654 4.1 93.3 1.0
CA C:CYS1652 4.1 123.4 1.0
CB C:CYS1650 4.2 117.5 1.0
CA C:THR1651 4.4 124.3 1.0
C C:THR1651 4.4 124.3 1.0
N C:CYS1664 4.5 94.4 1.0
C C:ILE1654 4.6 93.3 1.0
C C:CYS1652 4.6 123.4 1.0
CB C:SER1667 4.6 86.2 1.0
CA C:CYS1664 4.7 94.4 1.0
OD1 C:ASN1666 4.8 88.5 1.0
C C:CYS1655 4.8 104.9 1.0
C C:CYS1650 4.8 117.5 1.0
N C:ILE1654 4.8 93.3 1.0

Zinc binding site 7 out of 8 in 7elb

Go back to Zinc Binding Sites List in 7elb
Zinc binding site 7 out of 8 in the Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn101

b:186.3
occ:1.00
 SG D:CYS61 2.4 160.3 1.0
SG D:CYS58 2.4 172.2 1.0
SG D:CYS39 2.4 150.2 1.0
SG D:CYS42 2.4 142.2 1.0
CB D:CYS39 3.3 150.2 1.0
CB D:CYS61 3.6 160.3 1.0
CB D:CYS58 3.7 172.2 1.0
CB D:CYS42 3.7 142.2 1.0
CB D:ALA45 4.3 160.2 1.0
N D:CYS42 4.3 142.2 1.0
N D:CYS61 4.5 160.3 1.0
CA D:CYS42 4.6 142.2 1.0
CA D:CYS61 4.7 160.3 1.0
N D:CYS58 4.8 172.2 1.0
CB D:CYS41 4.8 143.6 1.0
CA D:CYS39 4.8 150.2 1.0
CA D:CYS58 4.8 172.2 1.0

Zinc binding site 8 out of 8 in 7elb

Go back to Zinc Binding Sites List in 7elb
Zinc binding site 8 out of 8 in the Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Structure of Machupo Virus L Polymerase in Complex with Z Protein (Dimeric Form) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn102

b:246.2
occ:1.00
 NE2 D:HIS55 2.1 181.4 1.0
CE1 D:HIS55 2.3 181.4 1.0
SG D:CYS52 2.4 186.6 1.0
SG D:CYS75 2.4 162.9 1.0
SG D:CYS72 2.4 172.9 1.0
CB D:CYS52 3.0 186.6 1.0
CG2 D:ILE74 3.3 159.9 1.0
CB D:CYS75 3.4 162.9 1.0
CD2 D:HIS55 3.4 181.4 1.0
ND1 D:HIS55 3.6 181.4 1.0
CB D:CYS72 3.8 172.9 1.0
N D:CYS75 3.9 162.9 1.0
O D:CYS52 4.1 186.6 1.0
CG D:HIS55 4.1 181.4 1.0
CA D:CYS75 4.3 162.9 1.0
CA D:CYS52 4.4 186.6 1.0
C D:ILE74 4.6 159.9 1.0
C D:CYS52 4.7 186.6 1.0
CB D:ILE74 4.7 159.9 1.0
CD2 D:LEU79 4.9 184.7 1.0

Reference:

R.Peng, X.Xu, Q.Peng, Y.Shi. Cryo-Em Structures of Lassa and Machupo Virus Polymerases Complexed with Cognate Regulatory Z Proteins Identify Targets For Antivirals. Nat Microbiol 2021.
ISSN: ESSN 2058-5276
Page generated: Tue Oct 29 19:55:37 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy