Zinc in PDB 8fnv: Structure of Rdrb From Escherichia Coli Radar Defense System

Zinc Binding Sites:

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>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Zinc atom in the Structure of Rdrb From Escherichia Coli Radar Defense System (pdb code 8fnv). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 12 binding sites of Zinc where determined in the Structure of Rdrb From Escherichia Coli Radar Defense System, PDB code: 8fnv:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 12 in 8fnv

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Zinc binding site 1 out of 12 in the Structure of Rdrb From Escherichia Coli Radar Defense System


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A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Rdrb From Escherichia Coli Radar Defense System within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn801

b:35.7
occ:1.00
 NE2 A:HIS154 2.2 28.9 1.0
NE2 A:HIS530 2.2 20.4 1.0
NE2 A:HIS498 2.3 24.8 1.0
NE2 A:HIS152 2.3 25.3 1.0
CD2 A:HIS498 2.7 24.8 1.0
CE1 A:HIS154 2.9 28.9 1.0
CD2 A:HIS530 3.1 20.4 1.0
CE1 A:HIS530 3.2 20.4 1.0
CE1 A:HIS152 3.3 25.3 1.0
CD2 A:HIS152 3.3 25.3 1.0
CD2 A:HIS154 3.3 28.9 1.0
CE1 A:HIS498 3.5 24.8 1.0
OE2 A:GLU501 3.8 25.0 1.0
CG A:HIS498 4.0 24.8 1.0
ND1 A:HIS154 4.1 28.9 1.0
CG A:HIS530 4.2 20.4 1.0
ND1 A:HIS530 4.3 20.4 1.0
CG A:HIS154 4.3 28.9 1.0
OD2 A:ASP748 4.3 29.7 1.0
CD A:GLU501 4.4 25.0 1.0
ND1 A:HIS498 4.4 24.8 1.0
ND1 A:HIS152 4.4 25.3 1.0
CG A:HIS152 4.4 25.3 1.0
OE1 A:GLU501 4.6 25.0 1.0

Zinc binding site 2 out of 12 in 8fnv

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Zinc binding site 2 out of 12 in the Structure of Rdrb From Escherichia Coli Radar Defense System


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Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Rdrb From Escherichia Coli Radar Defense System within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn801

b:35.5
occ:1.00
 NE2 B:HIS154 2.2 29.0 1.0
NE2 B:HIS530 2.2 20.5 1.0
NE2 B:HIS498 2.3 24.8 1.0
NE2 B:HIS152 2.3 25.5 1.0
CD2 B:HIS498 2.7 24.8 1.0
CE1 B:HIS154 2.9 29.0 1.0
CD2 B:HIS530 3.1 20.5 1.0
CE1 B:HIS530 3.2 20.5 1.0
CE1 B:HIS152 3.3 25.5 1.0
CD2 B:HIS152 3.3 25.5 1.0
CD2 B:HIS154 3.3 29.0 1.0
CE1 B:HIS498 3.5 24.8 1.0
OE2 B:GLU501 3.8 25.3 1.0
CG B:HIS498 4.0 24.8 1.0
ND1 B:HIS154 4.1 29.0 1.0
CG B:HIS530 4.2 20.5 1.0
ND1 B:HIS530 4.3 20.5 1.0
CG B:HIS154 4.3 29.0 1.0
OD2 B:ASP748 4.3 29.8 1.0
CD B:GLU501 4.4 25.3 1.0
ND1 B:HIS498 4.4 24.8 1.0
ND1 B:HIS152 4.4 25.5 1.0
CG B:HIS152 4.4 25.5 1.0
OE1 B:GLU501 4.6 25.3 1.0

Zinc binding site 3 out of 12 in 8fnv

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Zinc binding site 3 out of 12 in the Structure of Rdrb From Escherichia Coli Radar Defense System


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Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of Rdrb From Escherichia Coli Radar Defense System within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn801

b:36.9
occ:1.00
 NE2 C:HIS154 2.2 29.0 1.0
NE2 C:HIS530 2.2 20.7 1.0
NE2 C:HIS498 2.3 24.6 1.0
NE2 C:HIS152 2.3 25.2 1.0
CD2 C:HIS498 2.7 24.6 1.0
CE1 C:HIS154 2.9 29.0 1.0
CD2 C:HIS530 3.1 20.7 1.0
CE1 C:HIS530 3.2 20.7 1.0
CE1 C:HIS152 3.3 25.2 1.0
CD2 C:HIS152 3.3 25.2 1.0
CD2 C:HIS154 3.3 29.0 1.0
CE1 C:HIS498 3.5 24.6 1.0
OE2 C:GLU501 3.8 25.4 1.0
CG C:HIS498 4.0 24.6 1.0
ND1 C:HIS154 4.1 29.0 1.0
CG C:HIS530 4.2 20.7 1.0
ND1 C:HIS530 4.3 20.7 1.0
CG C:HIS154 4.3 29.0 1.0
OD2 C:ASP748 4.3 29.4 1.0
CD C:GLU501 4.4 25.4 1.0
ND1 C:HIS498 4.4 24.6 1.0
ND1 C:HIS152 4.4 25.2 1.0
CG C:HIS152 4.4 25.2 1.0
OE1 C:GLU501 4.6 25.4 1.0

Zinc binding site 4 out of 12 in 8fnv

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Zinc binding site 4 out of 12 in the Structure of Rdrb From Escherichia Coli Radar Defense System


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Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of Rdrb From Escherichia Coli Radar Defense System within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn801

b:37.1
occ:1.00
 NE2 D:HIS154 2.2 29.1 1.0
NE2 D:HIS530 2.2 20.7 1.0
NE2 D:HIS498 2.3 24.7 1.0
NE2 D:HIS152 2.3 25.3 1.0
CD2 D:HIS498 2.7 24.7 1.0
CE1 D:HIS154 2.9 29.1 1.0
CD2 D:HIS530 3.1 20.7 1.0
CE1 D:HIS530 3.2 20.7 1.0
CE1 D:HIS152 3.3 25.3 1.0
CD2 D:HIS152 3.3 25.3 1.0
CD2 D:HIS154 3.3 29.1 1.0
CE1 D:HIS498 3.5 24.7 1.0
OE2 D:GLU501 3.8 25.7 1.0
CG D:HIS498 4.0 24.7 1.0
ND1 D:HIS154 4.1 29.1 1.0
CG D:HIS530 4.2 20.7 1.0
ND1 D:HIS530 4.3 20.7 1.0
CG D:HIS154 4.3 29.1 1.0
OD2 D:ASP748 4.3 30.3 1.0
CD D:GLU501 4.4 25.7 1.0
ND1 D:HIS498 4.4 24.7 1.0
ND1 D:HIS152 4.4 25.3 1.0
CG D:HIS152 4.4 25.3 1.0
OE1 D:GLU501 4.6 25.7 1.0

Zinc binding site 5 out of 12 in 8fnv

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Zinc binding site 5 out of 12 in the Structure of Rdrb From Escherichia Coli Radar Defense System


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Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of Rdrb From Escherichia Coli Radar Defense System within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn801

b:38.2
occ:1.00
 NE2 E:HIS154 2.2 29.5 1.0
NE2 E:HIS530 2.2 20.8 1.0
NE2 E:HIS498 2.3 25.2 1.0
NE2 E:HIS152 2.3 25.1 1.0
CD2 E:HIS498 2.7 25.2 1.0
CE1 E:HIS154 2.9 29.5 1.0
CD2 E:HIS530 3.1 20.8 1.0
CE1 E:HIS530 3.2 20.8 1.0
CE1 E:HIS152 3.3 25.1 1.0
CD2 E:HIS152 3.3 25.1 1.0
CD2 E:HIS154 3.3 29.5 1.0
CE1 E:HIS498 3.5 25.2 1.0
OE2 E:GLU501 3.8 25.2 1.0
CG E:HIS498 4.0 25.2 1.0
ND1 E:HIS154 4.1 29.5 1.0
CG E:HIS530 4.2 20.8 1.0
ND1 E:HIS530 4.3 20.8 1.0
CG E:HIS154 4.3 29.5 1.0
OD2 E:ASP748 4.3 29.4 1.0
CD E:GLU501 4.4 25.2 1.0
ND1 E:HIS498 4.4 25.2 1.0
ND1 E:HIS152 4.4 25.1 1.0
CG E:HIS152 4.4 25.1 1.0
OE1 E:GLU501 4.6 25.2 1.0

Zinc binding site 6 out of 12 in 8fnv

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Zinc binding site 6 out of 12 in the Structure of Rdrb From Escherichia Coli Radar Defense System


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of Rdrb From Escherichia Coli Radar Defense System within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn801

b:35.7
occ:1.00
 NE2 F:HIS154 2.2 29.3 1.0
NE2 F:HIS530 2.2 20.6 1.0
NE2 F:HIS498 2.3 24.4 1.0
NE2 F:HIS152 2.3 24.9 1.0
CD2 F:HIS498 2.7 24.4 1.0
CE1 F:HIS154 2.9 29.3 1.0
CD2 F:HIS530 3.1 20.6 1.0
CE1 F:HIS530 3.2 20.6 1.0
CE1 F:HIS152 3.3 24.9 1.0
CD2 F:HIS152 3.3 24.9 1.0
CD2 F:HIS154 3.3 29.3 1.0
CE1 F:HIS498 3.5 24.4 1.0
OE2 F:GLU501 3.8 25.4 1.0
CG F:HIS498 4.0 24.4 1.0
ND1 F:HIS154 4.1 29.3 1.0
CG F:HIS530 4.2 20.6 1.0
ND1 F:HIS530 4.3 20.6 1.0
CG F:HIS154 4.3 29.3 1.0
OD2 F:ASP748 4.3 30.0 1.0
CD F:GLU501 4.4 25.4 1.0
ND1 F:HIS498 4.4 24.4 1.0
ND1 F:HIS152 4.4 24.9 1.0
CG F:HIS152 4.4 24.9 1.0
OE1 F:GLU501 4.6 25.4 1.0

Zinc binding site 7 out of 12 in 8fnv

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Zinc binding site 7 out of 12 in the Structure of Rdrb From Escherichia Coli Radar Defense System


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Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Structure of Rdrb From Escherichia Coli Radar Defense System within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Zn801

b:37.6
occ:1.00
 NE2 G:HIS154 2.2 29.2 1.0
NE2 G:HIS530 2.2 20.8 1.0
NE2 G:HIS498 2.3 25.0 1.0
NE2 G:HIS152 2.3 25.4 1.0
CD2 G:HIS498 2.7 25.0 1.0
CE1 G:HIS154 2.9 29.2 1.0
CD2 G:HIS530 3.1 20.8 1.0
CE1 G:HIS530 3.2 20.8 1.0
CE1 G:HIS152 3.3 25.4 1.0
CD2 G:HIS152 3.3 25.4 1.0
CD2 G:HIS154 3.3 29.2 1.0
CE1 G:HIS498 3.5 25.0 1.0
OE2 G:GLU501 3.8 25.2 1.0
CG G:HIS498 4.0 25.0 1.0
ND1 G:HIS154 4.1 29.2 1.0
CG G:HIS530 4.2 20.8 1.0
ND1 G:HIS530 4.3 20.8 1.0
CG G:HIS154 4.3 29.2 1.0
OD2 G:ASP748 4.3 29.6 1.0
CD G:GLU501 4.4 25.2 1.0
ND1 G:HIS498 4.4 25.0 1.0
ND1 G:HIS152 4.4 25.4 1.0
CG G:HIS152 4.4 25.4 1.0
OE1 G:GLU501 4.6 25.2 1.0

Zinc binding site 8 out of 12 in 8fnv

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Zinc binding site 8 out of 12 in the Structure of Rdrb From Escherichia Coli Radar Defense System


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Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Structure of Rdrb From Escherichia Coli Radar Defense System within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn801

b:35.6
occ:1.00
 NE2 H:HIS154 2.2 29.2 1.0
NE2 H:HIS530 2.2 20.2 1.0
NE2 H:HIS498 2.3 24.4 1.0
NE2 H:HIS152 2.3 25.3 1.0
CD2 H:HIS498 2.7 24.4 1.0
CE1 H:HIS154 2.9 29.2 1.0
CD2 H:HIS530 3.1 20.2 1.0
CE1 H:HIS530 3.2 20.2 1.0
CE1 H:HIS152 3.3 25.3 1.0
CD2 H:HIS152 3.3 25.3 1.0
CD2 H:HIS154 3.3 29.2 1.0
CE1 H:HIS498 3.5 24.4 1.0
OE2 H:GLU501 3.8 25.2 1.0
CG H:HIS498 4.0 24.4 1.0
ND1 H:HIS154 4.1 29.2 1.0
CG H:HIS530 4.2 20.2 1.0
ND1 H:HIS530 4.3 20.2 1.0
CG H:HIS154 4.3 29.2 1.0
OD2 H:ASP748 4.3 29.7 1.0
CD H:GLU501 4.4 25.2 1.0
ND1 H:HIS498 4.4 24.4 1.0
ND1 H:HIS152 4.4 25.3 1.0
CG H:HIS152 4.4 25.3 1.0
OE1 H:GLU501 4.6 25.2 1.0

Zinc binding site 9 out of 12 in 8fnv

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Zinc binding site 9 out of 12 in the Structure of Rdrb From Escherichia Coli Radar Defense System


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Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Structure of Rdrb From Escherichia Coli Radar Defense System within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Zn801

b:35.7
occ:1.00
 NE2 I:HIS154 2.2 29.1 1.0
NE2 I:HIS530 2.2 20.5 1.0
NE2 I:HIS498 2.3 25.0 1.0
NE2 I:HIS152 2.3 25.1 1.0
CD2 I:HIS498 2.7 25.0 1.0
CE1 I:HIS154 2.9 29.1 1.0
CD2 I:HIS530 3.1 20.5 1.0
CE1 I:HIS530 3.2 20.5 1.0
CE1 I:HIS152 3.3 25.1 1.0
CD2 I:HIS152 3.3 25.1 1.0
CD2 I:HIS154 3.3 29.1 1.0
CE1 I:HIS498 3.5 25.0 1.0
OE2 I:GLU501 3.8 25.1 1.0
CG I:HIS498 4.0 25.0 1.0
ND1 I:HIS154 4.1 29.1 1.0
CG I:HIS530 4.2 20.5 1.0
ND1 I:HIS530 4.3 20.5 1.0
CG I:HIS154 4.3 29.1 1.0
OD2 I:ASP748 4.3 29.9 1.0
CD I:GLU501 4.4 25.1 1.0
ND1 I:HIS498 4.4 25.0 1.0
ND1 I:HIS152 4.4 25.1 1.0
CG I:HIS152 4.4 25.1 1.0
OE1 I:GLU501 4.6 25.1 1.0

Zinc binding site 10 out of 12 in 8fnv

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Zinc binding site 10 out of 12 in the Structure of Rdrb From Escherichia Coli Radar Defense System


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Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Structure of Rdrb From Escherichia Coli Radar Defense System within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn801

b:37.1
occ:1.00
 NE2 J:HIS154 2.2 29.4 1.0
NE2 J:HIS530 2.2 21.0 1.0
NE2 J:HIS498 2.3 25.2 1.0
NE2 J:HIS152 2.3 25.7 1.0
CD2 J:HIS498 2.7 25.2 1.0
CE1 J:HIS154 2.9 29.4 1.0
CD2 J:HIS530 3.1 21.0 1.0
CE1 J:HIS530 3.2 21.0 1.0
CE1 J:HIS152 3.3 25.7 1.0
CD2 J:HIS152 3.3 25.7 1.0
CD2 J:HIS154 3.3 29.4 1.0
CE1 J:HIS498 3.5 25.2 1.0
OE2 J:GLU501 3.8 25.8 1.0
CG J:HIS498 4.0 25.2 1.0
ND1 J:HIS154 4.1 29.4 1.0
CG J:HIS530 4.2 21.0 1.0
ND1 J:HIS530 4.3 21.0 1.0
CG J:HIS154 4.3 29.4 1.0
OD2 J:ASP748 4.3 30.6 1.0
CD J:GLU501 4.4 25.8 1.0
ND1 J:HIS498 4.4 25.2 1.0
ND1 J:HIS152 4.4 25.7 1.0
CG J:HIS152 4.4 25.7 1.0
OE1 J:GLU501 4.6 25.8 1.0

Reference:

B.Duncan-Lowey, N.Tal, A.G.Johnson, S.Rawson, M.L.Mayer, S.Doron, A.Millman, S.Melamed, T.Fedorenko, A.Kacen, A.Brandis, T.Mehlman, G.Amitai, R.Sorek, P.J.Kranzusch. Cryo-Em Structure of the Radar Supramolecular Anti-Phage Defense Complex To Be Published.
Page generated: Wed Oct 30 20:33:07 2024

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