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Zinc in PDB 6xfa: Cryo-Em Structure of Ebv BFLF1

Zinc Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20;

Binding sites:

The binding sites of Zinc atom in the Cryo-Em Structure of Ebv BFLF1 (pdb code 6xfa). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 20 binding sites of Zinc where determined in the Cryo-Em Structure of Ebv BFLF1, PDB code: 6xfa:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 20 in 6xfa

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Zinc binding site 1 out of 20 in the Cryo-Em Structure of Ebv BFLF1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of Ebv BFLF1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn500

b:30.0
occ:1.00
 SG A:CYS57 2.3 0.8 1.0
ND1 A:HIS132 2.4 0.7 1.0
SG A:CYS138 2.5 0.7 1.0
SG A:CYS54 2.5 0.8 1.0
CB A:CYS138 3.0 0.7 1.0
CE1 A:HIS132 3.0 0.7 1.0
CB A:CYS54 3.3 0.8 1.0
CG A:HIS132 3.6 0.7 1.0
CB A:CYS57 4.1 0.8 1.0
CB A:HIS132 4.1 0.7 1.0
CA A:HIS132 4.3 0.7 1.0
NE2 A:HIS132 4.3 0.7 1.0
CA A:CYS138 4.5 0.7 1.0
N A:CYS57 4.5 0.8 1.0
CD2 A:HIS132 4.6 0.7 1.0
CA A:CYS54 4.8 0.8 1.0
CA A:CYS57 4.9 0.8 1.0
O A:LEU131 4.9 0.7 1.0
N A:CYS138 4.9 0.7 1.0

Zinc binding site 2 out of 20 in 6xfa

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Zinc binding site 2 out of 20 in the Cryo-Em Structure of Ebv BFLF1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of Ebv BFLF1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn501

b:30.0
occ:1.00
 ND1 A:HIS386 2.2 0.8 1.0
SG A:CYS319 2.3 0.8 1.0
SG A:CYS316 2.3 0.8 1.0
SG A:CYS393 2.3 0.8 1.0
CB A:CYS316 2.8 0.8 1.0
CE1 A:HIS386 3.0 0.8 1.0
CG A:HIS386 3.2 0.8 1.0
CB A:CYS393 3.4 0.8 1.0
CB A:CYS319 3.5 0.8 1.0
CB A:HIS386 3.6 0.8 1.0
N A:CYS319 3.7 0.8 1.0
CA A:CYS319 4.1 0.8 1.0
CA A:CYS393 4.2 0.8 1.0
NE2 A:HIS386 4.2 0.8 1.0
CA A:CYS316 4.2 0.8 1.0
CA A:HIS386 4.3 0.8 1.0
O A:CYS316 4.3 0.8 1.0
CD2 A:HIS386 4.3 0.8 1.0
CB A:LEU318 4.4 0.8 1.0
C A:LEU318 4.5 0.8 1.0
C A:CYS316 4.5 0.8 1.0
CA A:LEU318 4.8 0.8 1.0
N A:LEU318 4.9 0.8 1.0

Zinc binding site 3 out of 20 in 6xfa

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Zinc binding site 3 out of 20 in the Cryo-Em Structure of Ebv BFLF1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Cryo-Em Structure of Ebv BFLF1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn500

b:30.0
occ:1.00
 SG B:CYS57 2.3 0.8 1.0
ND1 B:HIS132 2.4 0.7 1.0
SG B:CYS138 2.5 0.7 1.0
SG B:CYS54 2.5 0.8 1.0
CB B:CYS138 3.0 0.7 1.0
CE1 B:HIS132 3.0 0.7 1.0
CB B:CYS54 3.3 0.8 1.0
CG B:HIS132 3.6 0.7 1.0
CB B:CYS57 4.1 0.8 1.0
CB B:HIS132 4.1 0.7 1.0
CA B:HIS132 4.3 0.7 1.0
NE2 B:HIS132 4.3 0.7 1.0
CA B:CYS138 4.5 0.7 1.0
N B:CYS57 4.5 0.8 1.0
CD2 B:HIS132 4.6 0.7 1.0
CA B:CYS54 4.8 0.8 1.0
CA B:CYS57 4.9 0.8 1.0
O B:LEU131 4.9 0.7 1.0
N B:CYS138 4.9 0.7 1.0

Zinc binding site 4 out of 20 in 6xfa

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Zinc binding site 4 out of 20 in the Cryo-Em Structure of Ebv BFLF1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Cryo-Em Structure of Ebv BFLF1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn501

b:30.0
occ:1.00
 ND1 B:HIS386 2.2 0.8 1.0
SG B:CYS319 2.3 0.8 1.0
SG B:CYS316 2.3 0.8 1.0
SG B:CYS393 2.3 0.8 1.0
CB B:CYS316 2.8 0.8 1.0
CE1 B:HIS386 3.0 0.8 1.0
CG B:HIS386 3.2 0.8 1.0
CB B:CYS393 3.4 0.8 1.0
CB B:CYS319 3.5 0.8 1.0
CB B:HIS386 3.6 0.8 1.0
N B:CYS319 3.7 0.8 1.0
CA B:CYS319 4.1 0.8 1.0
CA B:CYS393 4.2 0.8 1.0
NE2 B:HIS386 4.2 0.8 1.0
CA B:CYS316 4.2 0.8 1.0
CA B:HIS386 4.3 0.8 1.0
O B:CYS316 4.3 0.8 1.0
CD2 B:HIS386 4.3 0.8 1.0
CB B:LEU318 4.4 0.8 1.0
C B:LEU318 4.5 0.8 1.0
C B:CYS316 4.5 0.8 1.0
CA B:LEU318 4.8 0.8 1.0
N B:LEU318 4.9 0.8 1.0

Zinc binding site 5 out of 20 in 6xfa

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Zinc binding site 5 out of 20 in the Cryo-Em Structure of Ebv BFLF1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Cryo-Em Structure of Ebv BFLF1 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn500

b:30.0
occ:1.00
 SG C:CYS57 2.3 0.8 1.0
ND1 C:HIS132 2.4 0.7 1.0
SG C:CYS138 2.5 0.7 1.0
SG C:CYS54 2.5 0.8 1.0
CB C:CYS138 3.0 0.7 1.0
CE1 C:HIS132 3.0 0.7 1.0
CB C:CYS54 3.3 0.8 1.0
CG C:HIS132 3.6 0.7 1.0
CB C:CYS57 4.1 0.8 1.0
CB C:HIS132 4.1 0.7 1.0
CA C:HIS132 4.3 0.7 1.0
NE2 C:HIS132 4.3 0.7 1.0
CA C:CYS138 4.5 0.7 1.0
N C:CYS57 4.5 0.8 1.0
CD2 C:HIS132 4.6 0.7 1.0
CA C:CYS54 4.8 0.8 1.0
CA C:CYS57 4.9 0.8 1.0
O C:LEU131 4.9 0.7 1.0
N C:CYS138 4.9 0.7 1.0

Zinc binding site 6 out of 20 in 6xfa

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Zinc binding site 6 out of 20 in the Cryo-Em Structure of Ebv BFLF1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Cryo-Em Structure of Ebv BFLF1 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn501

b:30.0
occ:1.00
 ND1 C:HIS386 2.2 0.8 1.0
SG C:CYS319 2.3 0.8 1.0
SG C:CYS316 2.3 0.8 1.0
SG C:CYS393 2.3 0.8 1.0
CB C:CYS316 2.8 0.8 1.0
CE1 C:HIS386 3.0 0.8 1.0
CG C:HIS386 3.2 0.8 1.0
CB C:CYS393 3.4 0.8 1.0
CB C:CYS319 3.5 0.8 1.0
CB C:HIS386 3.6 0.8 1.0
N C:CYS319 3.7 0.8 1.0
CA C:CYS319 4.1 0.8 1.0
CA C:CYS393 4.2 0.8 1.0
NE2 C:HIS386 4.2 0.8 1.0
CA C:CYS316 4.2 0.8 1.0
CA C:HIS386 4.3 0.8 1.0
O C:CYS316 4.3 0.8 1.0
CD2 C:HIS386 4.3 0.8 1.0
CB C:LEU318 4.4 0.8 1.0
C C:LEU318 4.5 0.8 1.0
C C:CYS316 4.5 0.8 1.0
CA C:LEU318 4.8 0.8 1.0
N C:LEU318 4.9 0.8 1.0

Zinc binding site 7 out of 20 in 6xfa

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Zinc binding site 7 out of 20 in the Cryo-Em Structure of Ebv BFLF1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Cryo-Em Structure of Ebv BFLF1 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn500

b:30.0
occ:1.00
 SG D:CYS57 2.3 0.8 1.0
ND1 D:HIS132 2.4 0.7 1.0
SG D:CYS138 2.5 0.7 1.0
SG D:CYS54 2.5 0.8 1.0
CB D:CYS138 3.0 0.7 1.0
CE1 D:HIS132 3.0 0.7 1.0
CB D:CYS54 3.3 0.8 1.0
CG D:HIS132 3.6 0.7 1.0
CB D:CYS57 4.1 0.8 1.0
CB D:HIS132 4.1 0.7 1.0
CA D:HIS132 4.3 0.7 1.0
NE2 D:HIS132 4.3 0.7 1.0
CA D:CYS138 4.5 0.7 1.0
N D:CYS57 4.5 0.8 1.0
CD2 D:HIS132 4.6 0.7 1.0
CA D:CYS54 4.8 0.8 1.0
CA D:CYS57 4.9 0.8 1.0
O D:LEU131 4.9 0.7 1.0
N D:CYS138 4.9 0.7 1.0

Zinc binding site 8 out of 20 in 6xfa

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Zinc binding site 8 out of 20 in the Cryo-Em Structure of Ebv BFLF1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Cryo-Em Structure of Ebv BFLF1 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn501

b:30.0
occ:1.00
 ND1 D:HIS386 2.2 0.8 1.0
SG D:CYS319 2.3 0.8 1.0
SG D:CYS316 2.3 0.8 1.0
SG D:CYS393 2.3 0.8 1.0
CB D:CYS316 2.8 0.8 1.0
CE1 D:HIS386 3.0 0.8 1.0
CG D:HIS386 3.2 0.8 1.0
CB D:CYS393 3.4 0.8 1.0
CB D:CYS319 3.5 0.8 1.0
CB D:HIS386 3.6 0.8 1.0
N D:CYS319 3.7 0.8 1.0
CA D:CYS319 4.1 0.8 1.0
CA D:CYS393 4.2 0.8 1.0
NE2 D:HIS386 4.2 0.8 1.0
CA D:CYS316 4.2 0.8 1.0
CA D:HIS386 4.3 0.8 1.0
O D:CYS316 4.3 0.8 1.0
CD2 D:HIS386 4.3 0.8 1.0
CB D:LEU318 4.4 0.8 1.0
C D:LEU318 4.5 0.8 1.0
C D:CYS316 4.5 0.8 1.0
CA D:LEU318 4.8 0.8 1.0
N D:LEU318 4.9 0.8 1.0

Zinc binding site 9 out of 20 in 6xfa

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Zinc binding site 9 out of 20 in the Cryo-Em Structure of Ebv BFLF1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Cryo-Em Structure of Ebv BFLF1 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn500

b:30.0
occ:1.00
 SG E:CYS57 2.3 0.8 1.0
ND1 E:HIS132 2.4 0.7 1.0
SG E:CYS138 2.5 0.7 1.0
SG E:CYS54 2.5 0.8 1.0
CB E:CYS138 3.0 0.7 1.0
CE1 E:HIS132 3.1 0.7 1.0
CB E:CYS54 3.3 0.8 1.0
CG E:HIS132 3.6 0.7 1.0
CB E:CYS57 4.1 0.8 1.0
CB E:HIS132 4.1 0.7 1.0
CA E:HIS132 4.3 0.7 1.0
NE2 E:HIS132 4.3 0.7 1.0
CA E:CYS138 4.5 0.7 1.0
N E:CYS57 4.5 0.8 1.0
CD2 E:HIS132 4.6 0.7 1.0
CA E:CYS54 4.8 0.8 1.0
CA E:CYS57 4.9 0.8 1.0
O E:LEU131 4.9 0.7 1.0
N E:CYS138 4.9 0.7 1.0

Zinc binding site 10 out of 20 in 6xfa

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Zinc binding site 10 out of 20 in the Cryo-Em Structure of Ebv BFLF1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Cryo-Em Structure of Ebv BFLF1 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn501

b:30.0
occ:1.00
 ND1 E:HIS386 2.2 0.8 1.0
SG E:CYS319 2.3 0.8 1.0
SG E:CYS316 2.3 0.8 1.0
SG E:CYS393 2.3 0.8 1.0
CB E:CYS316 2.8 0.8 1.0
CE1 E:HIS386 3.0 0.8 1.0
CG E:HIS386 3.2 0.8 1.0
CB E:CYS393 3.4 0.8 1.0
CB E:CYS319 3.5 0.8 1.0
CB E:HIS386 3.6 0.8 1.0
N E:CYS319 3.7 0.8 1.0
CA E:CYS319 4.1 0.8 1.0
CA E:CYS393 4.2 0.8 1.0
NE2 E:HIS386 4.2 0.8 1.0
CA E:CYS316 4.2 0.8 1.0
CA E:HIS386 4.3 0.8 1.0
O E:CYS316 4.3 0.8 1.0
CD2 E:HIS386 4.3 0.8 1.0
CB E:LEU318 4.4 0.8 1.0
C E:LEU318 4.5 0.8 1.0
C E:CYS316 4.5 0.8 1.0
CA E:LEU318 4.8 0.8 1.0
N E:LEU318 4.9 0.8 1.0

Reference:

A.L.Didychuk, S.N.Gates, M.R.Gardner, L.M.Strong, A.Martin, B.A.Glaunsinger. A Pentameric Protein Ring with Novel Architecture Is Required For Herpesviral Packaging. Elife V. 10 2021.
ISSN: ESSN 2050-084X
PubMed: 33554858
DOI: 10.7554/ELIFE.62261
Page generated: Tue Oct 29 10:47:06 2024

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