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Zinc in PDB 8s09: H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna

Enzymatic activity of H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna

All present enzymatic activity of H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna:
3.6.4.12;

Other elements in 8s09:

The structure of H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna also contains other interesting chemical elements:

Magnesium (Mg) 8 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna (pdb code 8s09). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 10 binding sites of Zinc where determined in the H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna, PDB code: 8s09:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 10 in 8s09

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Zinc binding site 1 out of 10 in the H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Zn1003

b:43.2
occ:1.00
 SG 2:CYS355 2.2 16.6 1.0
SG 2:CYS332 2.2 14.4 1.0
SG 2:CYS352 2.2 15.6 1.0
SG 2:CYS329 2.3 22.3 1.0
CB 2:CYS329 3.1 22.3 1.0
CB 2:CYS352 3.1 15.6 1.0
CB 2:CYS355 3.7 16.6 1.0
CB 2:CYS332 3.8 14.4 1.0
N 2:CYS332 4.1 14.4 1.0
OG 2:SER357 4.2 14.7 1.0
N 2:CYS355 4.2 16.6 1.0
CA 2:CYS332 4.5 14.4 1.0
CA 2:CYS355 4.5 16.6 1.0
CA 2:CYS329 4.6 22.3 1.0
CA 2:CYS352 4.6 15.6 1.0
CB 2:PHE334 4.6 19.4 1.0
C 2:CYS332 4.8 14.4 1.0

Zinc binding site 2 out of 10 in 8s09

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Zinc binding site 2 out of 10 in the H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
4:Zn901

b:49.7
occ:1.00
 SG 4:CYS328 2.2 26.7 1.0
SG 4:CYS331 2.3 30.6 1.0
SG 4:CYS309 2.3 28.1 1.0
SG 4:CYS306 2.3 23.6 1.0
CB 4:CYS328 3.2 26.7 1.0
CB 4:CYS306 3.4 23.6 1.0
CB 4:CYS331 3.6 30.6 1.0
CB 4:CYS309 3.8 28.1 1.0
N 4:CYS331 3.8 30.6 1.0
N 4:CYS309 4.1 28.1 1.0
CA 4:CYS331 4.3 30.6 1.0
CB 4:HIS311 4.4 23.1 1.0
OG 4:SER336 4.5 24.7 1.0
CA 4:CYS309 4.5 28.1 1.0
N 4:ARG330 4.6 33.5 1.0
CA 4:CYS328 4.7 26.7 1.0
C 4:ARG330 4.7 33.5 1.0
CA 4:CYS306 4.8 23.6 1.0
CB 4:ARG330 4.8 33.5 1.0
CB 4:VAL308 4.9 26.0 1.0
C 4:CYS331 4.9 30.6 1.0
CA 4:ARG330 4.9 33.5 1.0
N 4:GLY329 5.0 30.4 1.0
N 4:HIS332 5.0 30.8 1.0
C 4:CYS309 5.0 28.1 1.0

Zinc binding site 3 out of 10 in 8s09

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Zinc binding site 3 out of 10 in the H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
5:Zn802

b:63.9
occ:1.00
 SG 5:CYS175 2.2 28.5 1.0
SG 5:CYS172 2.3 27.7 1.0
SG 5:CYS197 2.3 39.4 1.0
SG 5:CYS207 2.4 37.1 1.0
CB 5:CYS172 3.4 27.7 1.0
CB 5:CYS197 3.4 39.4 1.0
CB 5:CYS207 3.5 37.1 1.0
OG 5:SER174 3.6 27.4 1.0
CB 5:CYS175 3.7 28.5 1.0
N 5:CYS175 3.9 28.5 1.0
CA 5:CYS175 4.4 28.5 1.0
OG1 5:THR199 4.7 60.9 1.0
ND2 5:ASN177 4.8 29.2 1.0
NE2 5:GLN201 4.8 78.2 1.0
CA 5:CYS172 4.8 27.7 1.0
CA 5:CYS197 4.8 39.4 1.0
N 5:SER174 4.8 27.4 1.0
CB 5:SER174 4.9 27.4 1.0
CA 5:CYS207 4.9 37.1 1.0
C 5:SER174 5.0 27.4 1.0

Zinc binding site 4 out of 10 in 8s09

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Zinc binding site 4 out of 10 in the H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
6:Zn902

b:56.0
occ:1.00
 SG 6:CYS161 2.3 27.2 1.0
SG 6:CYS185 2.3 26.1 1.0
SG 6:CYS158 2.3 24.5 1.0
SG 6:CYS180 2.3 25.6 1.0
CB 6:CYS185 3.3 26.1 1.0
CB 6:CYS158 3.3 24.5 1.0
CB 6:CYS161 3.4 27.2 1.0
CB 6:CYS180 3.5 25.6 1.0
N 6:CYS161 3.8 27.2 1.0
CA 6:CYS161 4.1 27.2 1.0
CB 6:ASN187 4.2 23.5 1.0
OG1 6:THR163 4.6 26.3 1.0
CB 6:ASP160 4.7 26.1 1.0
C 6:CYS161 4.7 27.2 1.0
CA 6:CYS185 4.7 26.1 1.0
CB 6:THR163 4.7 26.3 1.0
CA 6:CYS158 4.7 24.5 1.0
ND2 6:ASN187 4.8 23.5 1.0
C 6:ASP160 4.9 26.1 1.0
CB 6:ASN182 4.9 27.4 1.0
CA 6:CYS180 4.9 25.6 1.0
N 6:GLN162 5.0 26.6 1.0

Zinc binding site 5 out of 10 in 8s09

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Zinc binding site 5 out of 10 in the H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
7:Zn803

b:48.8
occ:1.00
 CB 7:CYS184 2.2 22.1 1.0
SG 7:CYS184 2.2 22.1 1.0
SG 7:CYS187 2.3 25.4 1.0
SG 7:CYS206 2.3 22.8 1.0
SG 7:CYS211 2.3 27.2 1.0
OG 7:SER208 2.9 24.9 1.0
CB 7:CYS206 3.2 22.8 1.0
CB 7:CYS187 3.4 25.4 1.0
CA 7:CYS184 3.7 22.1 1.0
CB 7:CYS211 3.9 27.2 1.0
CB 7:SER208 4.0 24.9 1.0
N 7:CYS187 4.4 25.4 1.0
CA 7:CYS187 4.4 25.4 1.0
N 7:CYS184 4.5 22.1 1.0
C 7:CYS184 4.5 22.1 1.0
CA 7:CYS206 4.6 22.8 1.0
N 7:ASP185 4.8 22.9 1.0
C 7:GLN186 4.9 24.3 1.0
N 7:GLN186 4.9 24.3 1.0
C 7:CYS187 5.0 25.4 1.0

Zinc binding site 6 out of 10 in 8s09

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Zinc binding site 6 out of 10 in the H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1003

b:43.2
occ:1.00
 SG A:CYS355 2.2 16.6 1.0
SG A:CYS332 2.2 14.4 1.0
SG A:CYS352 2.2 15.6 1.0
SG A:CYS329 2.3 22.3 1.0
CB A:CYS329 3.1 22.3 1.0
CB A:CYS352 3.1 15.6 1.0
CB A:CYS355 3.7 16.6 1.0
CB A:CYS332 3.8 14.4 1.0
N A:CYS332 4.1 14.4 1.0
OG A:SER357 4.2 14.7 1.0
N A:CYS355 4.2 16.6 1.0
CA A:CYS332 4.5 14.4 1.0
CA A:CYS355 4.5 16.6 1.0
CA A:CYS329 4.6 22.3 1.0
CA A:CYS352 4.6 15.6 1.0
CB A:PHE334 4.6 19.4 1.0
C A:CYS332 4.8 14.4 1.0

Zinc binding site 7 out of 10 in 8s09

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Zinc binding site 7 out of 10 in the H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn901

b:49.7
occ:1.00
 SG C:CYS328 2.2 26.7 1.0
SG C:CYS331 2.3 30.6 1.0
SG C:CYS309 2.3 28.1 1.0
SG C:CYS306 2.3 23.6 1.0
CB C:CYS328 3.2 26.7 1.0
CB C:CYS306 3.4 23.6 1.0
CB C:CYS331 3.6 30.6 1.0
CB C:CYS309 3.8 28.1 1.0
N C:CYS331 3.8 30.6 1.0
N C:CYS309 4.1 28.1 1.0
CA C:CYS331 4.3 30.6 1.0
CB C:HIS311 4.4 23.1 1.0
OG C:SER336 4.5 24.7 1.0
CA C:CYS309 4.5 28.1 1.0
N C:ARG330 4.6 33.5 1.0
CA C:CYS328 4.7 26.7 1.0
C C:ARG330 4.7 33.5 1.0
CA C:CYS306 4.8 23.6 1.0
CB C:ARG330 4.8 33.5 1.0
CB C:VAL308 4.9 26.0 1.0
C C:CYS331 4.9 30.6 1.0
CA C:ARG330 4.9 33.5 1.0
N C:GLY329 5.0 30.4 1.0
N C:HIS332 5.0 30.8 1.0
C C:CYS309 5.0 28.1 1.0

Zinc binding site 8 out of 10 in 8s09

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Zinc binding site 8 out of 10 in the H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn802

b:63.9
occ:1.00
 SG D:CYS175 2.2 28.5 1.0
SG D:CYS172 2.3 27.7 1.0
SG D:CYS197 2.3 39.4 1.0
SG D:CYS207 2.4 37.1 1.0
CB D:CYS172 3.4 27.7 1.0
CB D:CYS197 3.4 39.4 1.0
CB D:CYS207 3.5 37.1 1.0
OG D:SER174 3.6 27.4 1.0
CB D:CYS175 3.7 28.5 1.0
N D:CYS175 3.9 28.5 1.0
CA D:CYS175 4.4 28.5 1.0
OG1 D:THR199 4.7 60.9 1.0
ND2 D:ASN177 4.8 29.2 1.0
NE2 D:GLN201 4.8 78.2 1.0
CA D:CYS172 4.8 27.7 1.0
CA D:CYS197 4.8 39.4 1.0
N D:SER174 4.8 27.4 1.0
CB D:SER174 4.9 27.4 1.0
CA D:CYS207 4.9 37.1 1.0
C D:SER174 5.0 27.4 1.0

Zinc binding site 9 out of 10 in 8s09

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Zinc binding site 9 out of 10 in the H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn902

b:56.0
occ:1.00
 SG E:CYS161 2.3 27.2 1.0
SG E:CYS185 2.3 26.1 1.0
SG E:CYS158 2.3 24.5 1.0
SG E:CYS180 2.3 25.6 1.0
CB E:CYS185 3.3 26.1 1.0
CB E:CYS158 3.3 24.5 1.0
CB E:CYS161 3.4 27.2 1.0
CB E:CYS180 3.5 25.6 1.0
N E:CYS161 3.8 27.2 1.0
CA E:CYS161 4.1 27.2 1.0
CB E:ASN187 4.2 23.5 1.0
OG1 E:THR163 4.6 26.3 1.0
CB E:ASP160 4.7 26.1 1.0
C E:CYS161 4.7 27.2 1.0
CA E:CYS185 4.7 26.1 1.0
CB E:THR163 4.7 26.3 1.0
CA E:CYS158 4.7 24.5 1.0
ND2 E:ASN187 4.8 23.5 1.0
C E:ASP160 4.9 26.1 1.0
CB E:ASN182 4.9 27.4 1.0
CA E:CYS180 4.9 25.6 1.0
N E:GLN162 5.0 26.6 1.0

Zinc binding site 10 out of 10 in 8s09

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Zinc binding site 10 out of 10 in the H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of H. Sapiens MCM2-7 Double Hexamer Bound to Double Stranded Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn803

b:48.8
occ:1.00
 CB F:CYS184 2.2 22.1 1.0
SG F:CYS184 2.2 22.1 1.0
SG F:CYS187 2.3 25.4 1.0
SG F:CYS206 2.3 22.8 1.0
SG F:CYS211 2.3 27.2 1.0
OG F:SER208 2.9 24.9 1.0
CB F:CYS206 3.2 22.8 1.0
CB F:CYS187 3.4 25.4 1.0
CA F:CYS184 3.7 22.1 1.0
CB F:CYS211 3.9 27.2 1.0
CB F:SER208 4.0 24.9 1.0
N F:CYS187 4.4 25.4 1.0
CA F:CYS187 4.4 25.4 1.0
N F:CYS184 4.5 22.1 1.0
C F:CYS184 4.5 22.1 1.0
CA F:CYS206 4.6 22.8 1.0
N F:ASP185 4.8 22.9 1.0
C F:GLN186 4.9 24.3 1.0
N F:GLN186 4.9 24.3 1.0
C F:CYS187 5.0 25.4 1.0

Reference:

F.Weissmann, J.F.Greiwe, T.Puehringer, E.L.Eastwood, E.C.Couves, T.C.R.Miller, J.F.X.Diffley, A.Costa. Mcm Double Hexamer Loading Visualised with Human Proteins Nature 2024.
ISSN: ESSN 1476-4687
Page generated: Thu Oct 31 10:46:33 2024

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