Atomistry » Zinc » PDB 6mby-6mn4 » 6mii
Atomistry »
  Zinc »
    PDB 6mby-6mn4 »
      6mii »

Zinc in PDB 6mii: Crystal Structure of Minichromosome Maintenance Protein Mcm/Dna Complex

Enzymatic activity of Crystal Structure of Minichromosome Maintenance Protein Mcm/Dna Complex

All present enzymatic activity of Crystal Structure of Minichromosome Maintenance Protein Mcm/Dna Complex:
3.6.4.12;

Protein crystallography data

The structure of Crystal Structure of Minichromosome Maintenance Protein Mcm/Dna Complex, PDB code: 6mii was solved by E.J.Enemark, M.Meagher, L.B.Epling, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.70 / 3.15
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 186.665, 186.665, 281.489, 90.00, 90.00, 90.00
R / Rfree (%) 18.8 / 24.1

Other elements in 6mii:

The structure of Crystal Structure of Minichromosome Maintenance Protein Mcm/Dna Complex also contains other interesting chemical elements:

Fluorine (F) 9 atoms
Magnesium (Mg) 6 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Minichromosome Maintenance Protein Mcm/Dna Complex (pdb code 6mii). 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 Minichromosome Maintenance Protein Mcm/Dna Complex, PDB code: 6mii:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 6mii

Go back to Zinc Binding Sites List in 6mii
Zinc binding site 1 out of 6 in the Crystal Structure of Minichromosome Maintenance Protein Mcm/Dna Complex


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 Minichromosome Maintenance Protein Mcm/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2002

b:0.5
occ:1.00
 SG A:CYS174 2.1 0.4 1.0
SG A:CYS149 2.1 0.8 1.0
SG A:CYS171 2.1 0.4 1.0
ND1 A:HIS144 2.1 0.3 1.0
CB A:CYS149 2.8 0.8 1.0
CB A:CYS171 2.9 0.1 1.0
CE1 A:HIS144 3.1 0.3 1.0
CG A:HIS144 3.1 0.8 1.0
CB A:HIS144 3.4 0.0 1.0
CB A:CYS174 3.5 0.6 1.0
NE2 A:HIS144 4.2 0.2 1.0
CD2 A:HIS144 4.2 0.9 1.0
N A:CYS174 4.2 0.8 1.0
CA A:CYS149 4.3 0.3 1.0
CA A:CYS171 4.3 1.0 1.0
O A:LYS176 4.3 0.2 1.0
CA A:CYS174 4.5 0.0 1.0
C A:CYS171 4.8 0.5 1.0
N A:LYS176 4.9 0.0 1.0
C A:LYS173 4.9 0.4 1.0
CA A:HIS144 4.9 0.8 1.0
O A:CYS171 4.9 0.0 1.0
N A:GLY175 4.9 0.6 1.0
CB A:LYS176 5.0 0.5 1.0

Zinc binding site 2 out of 6 in 6mii

Go back to Zinc Binding Sites List in 6mii
Zinc binding site 2 out of 6 in the Crystal Structure of Minichromosome Maintenance Protein Mcm/Dna Complex


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 Minichromosome Maintenance Protein Mcm/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn2002

b:0.1
occ:1.00
 SG B:CYS174 2.1 0.0 1.0
SG B:CYS171 2.1 0.7 1.0
SG B:CYS149 2.1 0.7 1.0
ND1 B:HIS144 2.1 0.9 1.0
CB B:CYS149 2.9 0.6 1.0
CB B:CYS171 3.0 0.9 1.0
CE1 B:HIS144 3.0 0.1 1.0
CG B:HIS144 3.1 0.5 1.0
CB B:HIS144 3.5 0.5 1.0
CB B:CYS174 3.6 1.0 1.0
N B:CYS174 4.1 0.5 1.0
NE2 B:HIS144 4.2 0.5 1.0
CD2 B:HIS144 4.2 0.2 1.0
CA B:CYS149 4.3 1.0 1.0
CA B:CYS171 4.4 0.1 1.0
CA B:CYS174 4.4 0.5 1.0
O B:LYS176 4.4 0.8 1.0
C B:LYS173 4.7 0.7 1.0
CB B:LYS173 4.7 0.3 1.0
N B:GLY175 4.9 0.1 1.0
CA B:HIS144 5.0 0.1 1.0

Zinc binding site 3 out of 6 in 6mii

Go back to Zinc Binding Sites List in 6mii
Zinc binding site 3 out of 6 in the Crystal Structure of Minichromosome Maintenance Protein Mcm/Dna Complex


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 Minichromosome Maintenance Protein Mcm/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn2002

b:0.6
occ:1.00
 SG C:CYS174 2.1 1.0 1.0
SG C:CYS149 2.1 0.9 1.0
ND1 C:HIS144 2.1 0.4 1.0
SG C:CYS171 2.1 0.8 1.0
CB C:CYS171 2.9 0.9 1.0
CG C:HIS144 3.0 0.6 1.0
CB C:CYS149 3.1 0.4 1.0
CE1 C:HIS144 3.1 0.9 1.0
CB C:HIS144 3.3 1.0 1.0
CB C:CYS174 3.4 0.2 1.0
N C:CYS174 4.2 0.9 1.0
CD2 C:HIS144 4.2 0.8 1.0
O C:LYS176 4.2 0.0 1.0
NE2 C:HIS144 4.2 0.4 1.0
CA C:CYS174 4.4 1.0 1.0
CA C:CYS171 4.4 0.2 1.0
CA C:CYS149 4.5 0.1 1.0
CA C:HIS144 4.8 0.6 1.0
N C:GLY175 4.9 0.8 1.0
C C:LYS173 4.9 0.2 1.0
N C:LYS176 4.9 0.6 1.0
C C:CYS171 4.9 0.6 1.0

Zinc binding site 4 out of 6 in 6mii

Go back to Zinc Binding Sites List in 6mii
Zinc binding site 4 out of 6 in the Crystal Structure of Minichromosome Maintenance Protein Mcm/Dna Complex


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 Minichromosome Maintenance Protein Mcm/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn2002

b:0.3
occ:1.00
 ND1 D:HIS144 2.1 0.0 1.0
SG D:CYS171 2.1 0.4 1.0
SG D:CYS149 2.1 0.5 1.0
SG D:CYS174 2.1 0.4 1.0
CB D:CYS149 2.7 1.0 1.0
CE1 D:HIS144 2.9 0.5 1.0
CG D:HIS144 3.2 0.2 1.0
CB D:CYS171 3.2 0.1 1.0
CB D:CYS174 3.5 0.0 1.0
CB D:HIS144 3.6 0.8 1.0
N D:CYS174 4.0 0.7 1.0
NE2 D:HIS144 4.1 0.9 1.0
CA D:CYS149 4.1 0.6 1.0
CD2 D:HIS144 4.2 0.5 1.0
CA D:CYS174 4.3 0.1 1.0
CB D:LYS173 4.5 0.0 1.0
O D:LYS176 4.5 0.4 1.0
C D:LYS173 4.6 0.6 1.0
CA D:CYS171 4.6 0.0 1.0
N D:GLY175 4.9 0.6 1.0
N D:LYS173 4.9 0.9 1.0
CA D:LYS173 4.9 1.0 1.0
N D:CYS149 4.9 0.5 1.0

Zinc binding site 5 out of 6 in 6mii

Go back to Zinc Binding Sites List in 6mii
Zinc binding site 5 out of 6 in the Crystal Structure of Minichromosome Maintenance Protein Mcm/Dna Complex


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 Minichromosome Maintenance Protein Mcm/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn2002

b:0.4
occ:1.00
 ND1 E:HIS144 2.1 0.3 1.0
SG E:CYS149 2.1 0.7 1.0
SG E:CYS171 2.1 0.0 1.0
SG E:CYS174 2.1 0.2 1.0
CB E:CYS149 2.7 0.0 1.0
CB E:CYS171 2.9 0.7 1.0
CE1 E:HIS144 3.0 1.0 1.0
CG E:HIS144 3.1 0.8 1.0
CB E:HIS144 3.4 0.6 1.0
CB E:CYS174 3.6 0.0 1.0
CA E:CYS149 4.1 0.2 1.0
N E:CYS174 4.1 0.4 1.0
NE2 E:HIS144 4.1 0.6 1.0
CD2 E:HIS144 4.2 0.5 1.0
CA E:CYS171 4.3 0.7 1.0
CA E:CYS174 4.5 0.1 1.0
CB E:LYS173 4.6 0.8 1.0
C E:LYS173 4.7 0.6 1.0
C E:CYS171 4.8 0.4 1.0
O E:LYS176 4.8 0.6 1.0
N E:CYS149 4.9 0.7 1.0
O E:CYS171 4.9 0.9 1.0
CA E:HIS144 4.9 0.5 1.0
N E:LYS173 5.0 0.2 1.0
C E:CYS149 5.0 0.0 1.0

Zinc binding site 6 out of 6 in 6mii

Go back to Zinc Binding Sites List in 6mii
Zinc binding site 6 out of 6 in the Crystal Structure of Minichromosome Maintenance Protein Mcm/Dna Complex


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 Minichromosome Maintenance Protein Mcm/Dna Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn2002

b:0.3
occ:1.00
 SG F:CYS149 2.1 0.1 1.0
ND1 F:HIS144 2.1 0.3 1.0
SG F:CYS171 2.1 0.7 1.0
SG F:CYS174 2.1 0.8 1.0
CB F:CYS171 2.9 0.9 1.0
CB F:CYS149 3.0 0.7 1.0
CG F:HIS144 3.1 0.1 1.0
CE1 F:HIS144 3.1 0.8 1.0
CB F:HIS144 3.4 0.9 1.0
CB F:CYS174 3.5 0.4 1.0
N F:CYS174 4.1 0.0 1.0
NE2 F:HIS144 4.2 0.8 1.0
CD2 F:HIS144 4.2 0.3 1.0
O F:LYS176 4.2 0.7 1.0
CA F:CYS149 4.4 0.4 1.0
CA F:CYS171 4.4 0.3 1.0
CA F:CYS174 4.4 0.2 1.0
C F:LYS173 4.8 0.8 1.0
CA F:HIS144 4.9 0.7 1.0
CB F:LYS173 4.9 0.7 1.0
C F:CYS171 4.9 0.2 1.0
N F:GLY175 4.9 0.9 1.0

Reference:

M.Meagher, L.B.Epling, E.J.Enemark. Dna Translocation Mechanism of the Mcm Complex and Implications For Replication Initiation. Nat Commun V. 10 3117 2019.
ISSN: ESSN 2041-1723
PubMed: 31308367
DOI: 10.1038/S41467-019-11074-3
Page generated: Tue Oct 29 03:12:30 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy