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Zinc in PDB 5n6i: Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna

Enzymatic activity of Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna

All present enzymatic activity of Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna:
2.7.7.86;

Protein crystallography data

The structure of Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna, PDB code: 5n6i was solved by L.Andreeva, D.Kostrewa, K.-P.Hopfner, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.00 / 3.60
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 168.530, 122.940, 179.980, 90.00, 96.37, 90.00
R / Rfree (%) 20.4 / 25.6

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna (pdb code 5n6i). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna, PDB code: 5n6i:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 5n6i

Go back to Zinc Binding Sites List in 5n6i
Zinc binding site 1 out of 6 in the Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn601

b:0.5
occ:1.00
NE2 A:HIS378 2.0 0.2 1.0
SG A:CYS385 2.3 0.0 1.0
SG A:CYS392 2.3 0.3 1.0
SG A:CYS384 2.4 0.7 1.0
CD2 A:HIS378 2.9 0.1 1.0
CE1 A:HIS378 3.1 0.8 1.0
CB A:CYS392 3.3 0.3 1.0
CB A:CYS385 3.3 0.4 1.0
CB A:CYS384 3.5 0.0 1.0
C A:CYS384 3.6 0.0 1.0
N A:CYS385 3.6 0.8 1.0
N A:CYS392 3.7 1.0 1.0
O A:CYS384 3.9 0.7 1.0
CA A:CYS385 4.0 0.8 1.0
CG A:HIS378 4.1 0.6 1.0
CA A:CYS384 4.1 0.2 1.0
CA A:CYS392 4.1 0.6 1.0
ND1 A:HIS378 4.1 0.9 1.0
NH1 A:ARG394 4.1 0.8 1.0
O A:ALA390 4.5 0.3 1.0
NZ A:LYS391 4.7 0.3 1.0
C A:LYS391 4.7 0.7 1.0
C A:CYS392 4.9 0.0 1.0
CA A:LYS391 4.9 0.5 1.0

Zinc binding site 2 out of 6 in 5n6i

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Zinc binding site 2 out of 6 in the Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn601

b:0.8
occ:1.00
NE2 B:HIS378 2.0 0.7 1.0
SG B:CYS384 2.3 0.6 1.0
SG B:CYS385 2.3 0.4 1.0
SG B:CYS392 2.4 0.4 1.0
CD2 B:HIS378 2.9 0.8 1.0
CE1 B:HIS378 3.0 0.3 1.0
CB B:CYS385 3.3 0.9 1.0
CB B:CYS392 3.4 0.9 1.0
CB B:CYS384 3.4 0.9 1.0
C B:CYS384 3.6 0.2 1.0
N B:CYS385 3.6 0.9 1.0
N B:CYS392 3.7 0.2 1.0
O B:CYS384 3.9 0.9 1.0
CG B:HIS378 4.0 0.0 1.0
CA B:CYS384 4.0 0.0 1.0
CA B:CYS385 4.0 0.3 1.0
ND1 B:HIS378 4.1 0.8 1.0
NH1 B:ARG394 4.1 0.1 1.0
CA B:CYS392 4.2 0.5 1.0
O B:ALA390 4.5 0.5 1.0
C B:LYS391 4.7 0.3 1.0
NZ B:LYS391 4.7 1.0 1.0
CA B:LYS391 4.9 0.1 1.0
C B:CYS392 4.9 0.3 1.0

Zinc binding site 3 out of 6 in 5n6i

Go back to Zinc Binding Sites List in 5n6i
Zinc binding site 3 out of 6 in the Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn601

b:0.2
occ:1.00
NE2 C:HIS378 2.1 1.0 1.0
SG C:CYS384 2.3 0.7 1.0
SG C:CYS385 2.3 0.9 1.0
SG C:CYS392 2.4 0.7 1.0
CD2 C:HIS378 2.9 0.2 1.0
CE1 C:HIS378 3.1 0.5 1.0
CB C:CYS392 3.3 0.1 1.0
CB C:CYS385 3.3 0.2 1.0
CB C:CYS384 3.5 0.2 1.0
C C:CYS384 3.6 0.7 1.0
N C:CYS385 3.6 1.0 1.0
N C:CYS392 3.7 0.2 1.0
O C:CYS384 3.9 0.8 1.0
CA C:CYS385 4.0 0.7 1.0
CA C:CYS384 4.0 0.6 1.0
CA C:CYS392 4.1 0.9 1.0
CG C:HIS378 4.1 0.4 1.0
NH1 C:ARG394 4.1 0.2 1.0
ND1 C:HIS378 4.2 0.8 1.0
O C:ALA390 4.4 0.6 1.0
C C:LYS391 4.6 0.9 1.0
NZ C:LYS391 4.7 1.0 1.0
CA C:LYS391 4.8 0.0 1.0
C C:CYS392 4.9 0.6 1.0

Zinc binding site 4 out of 6 in 5n6i

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Zinc binding site 4 out of 6 in the Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn601

b:0.8
occ:1.00
NE2 D:HIS378 2.2 0.1 1.0
SG D:CYS385 2.3 0.1 1.0
SG D:CYS384 2.3 0.5 1.0
SG D:CYS392 2.3 0.7 1.0
CD2 D:HIS378 3.0 0.3 1.0
CE1 D:HIS378 3.2 0.4 1.0
CB D:CYS392 3.2 0.5 1.0
CB D:CYS385 3.3 0.7 1.0
CB D:CYS384 3.5 0.2 1.0
N D:CYS385 3.6 0.3 1.0
C D:CYS384 3.6 0.6 1.0
N D:CYS392 3.6 0.9 1.0
O D:CYS384 3.9 0.2 1.0
CA D:CYS385 4.0 0.9 1.0
CA D:CYS392 4.0 0.9 1.0
CA D:CYS384 4.0 0.4 1.0
NH1 D:ARG394 4.2 1.0 1.0
CG D:HIS378 4.2 0.2 1.0
ND1 D:HIS378 4.3 0.2 1.0
O D:ALA390 4.4 0.8 1.0
C D:LYS391 4.5 0.2 1.0
NZ D:LYS391 4.7 0.5 1.0
CA D:LYS391 4.8 0.3 1.0
C D:CYS392 4.8 0.5 1.0

Zinc binding site 5 out of 6 in 5n6i

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Zinc binding site 5 out of 6 in the Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn601

b:0.2
occ:1.00
NE2 E:HIS378 2.1 0.6 1.0
SG E:CYS392 2.3 0.4 1.0
SG E:CYS385 2.3 0.1 1.0
SG E:CYS384 2.3 0.8 1.0
CD2 E:HIS378 2.9 0.7 1.0
CE1 E:HIS378 3.1 0.9 1.0
CB E:CYS392 3.2 0.6 1.0
CB E:CYS385 3.4 0.9 1.0
CB E:CYS384 3.5 0.5 1.0
N E:CYS392 3.6 0.9 1.0
C E:CYS384 3.7 0.9 1.0
N E:CYS385 3.7 0.7 1.0
O E:CYS384 4.0 0.1 1.0
CA E:CYS392 4.0 0.2 1.0
CA E:CYS385 4.1 0.1 1.0
CA E:CYS384 4.1 0.8 1.0
CG E:HIS378 4.1 0.6 1.0
NH1 E:ARG394 4.1 0.8 1.0
ND1 E:HIS378 4.2 0.7 1.0
O E:ALA390 4.5 0.5 1.0
C E:LYS391 4.6 0.0 1.0
NZ E:LYS391 4.7 0.4 1.0
C E:CYS392 4.8 0.1 1.0
CA E:LYS391 4.9 0.9 1.0

Zinc binding site 6 out of 6 in 5n6i

Go back to Zinc Binding Sites List in 5n6i
Zinc binding site 6 out of 6 in the Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of Mouse Cgas in Complex with 39 Bp Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn601

b:0.2
occ:1.00
NE2 F:HIS378 2.1 0.4 1.0
SG F:CYS385 2.3 0.9 1.0
SG F:CYS392 2.3 0.8 1.0
SG F:CYS384 2.3 0.5 1.0
CD2 F:HIS378 3.0 0.4 1.0
CE1 F:HIS378 3.2 0.9 1.0
CB F:CYS392 3.2 0.5 1.0
CB F:CYS385 3.4 0.1 1.0
CB F:CYS384 3.5 0.4 1.0
N F:CYS392 3.6 0.6 1.0
N F:CYS385 3.6 0.7 1.0
C F:CYS384 3.6 0.7 1.0
O F:CYS384 4.0 0.9 1.0
CA F:CYS392 4.0 0.2 1.0
CA F:CYS385 4.0 0.7 1.0
CA F:CYS384 4.1 0.0 1.0
NH1 F:ARG394 4.2 0.5 1.0
CG F:HIS378 4.2 0.3 1.0
ND1 F:HIS378 4.2 0.9 1.0
O F:ALA390 4.4 0.1 1.0
C F:LYS391 4.5 0.6 1.0
NZ F:LYS391 4.7 0.4 1.0
CA F:LYS391 4.8 0.2 1.0
C F:CYS392 4.8 0.1 1.0

Reference:

L.Andreeva, B.Hiller, D.Kostrewa, C.Lassig, C.C.De Oliveira Mann, D.Jan Drexler, A.Maiser, M.Gaidt, H.Leonhardt, V.Hornung, K.P.Hopfner. Cgas Senses Long and Hmgb/Tfam-Bound U-Turn Dna By Forming Protein-Dna Ladders. Nature V. 549 394 2017.
ISSN: ESSN 1476-4687
PubMed: 28902841
DOI: 10.1038/NATURE23890
Page generated: Wed Dec 16 06:35:00 2020

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