Atomistry » Calcium » PDB 4csy-4dbp » 4ct3
Atomistry »
  Calcium »
    PDB 4csy-4dbp »
      4ct3 »

Calcium in PDB 4ct3: Methylmercury Chloride Derivative Structure of the Lytic Chapk Domain of the Endolysin Lysk From Staphylococcus Aureus Bacteriophage K

Protein crystallography data

The structure of Methylmercury Chloride Derivative Structure of the Lytic Chapk Domain of the Endolysin Lysk From Staphylococcus Aureus Bacteriophage K, PDB code: 4ct3 was solved by M.Sanz-Gaitero, R.Keary, C.Garcia-Doval, A.Coffey, M.J.Van Raaij, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 61.50 / 1.69
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 39.020, 61.520, 72.800, 91.80, 98.73, 90.01
R / Rfree (%) 18.074 / 22.407

Other elements in 4ct3:

The structure of Methylmercury Chloride Derivative Structure of the Lytic Chapk Domain of the Endolysin Lysk From Staphylococcus Aureus Bacteriophage K also contains other interesting chemical elements:

Mercury (Hg) 20 atoms
Chlorine (Cl) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Methylmercury Chloride Derivative Structure of the Lytic Chapk Domain of the Endolysin Lysk From Staphylococcus Aureus Bacteriophage K (pdb code 4ct3). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Methylmercury Chloride Derivative Structure of the Lytic Chapk Domain of the Endolysin Lysk From Staphylococcus Aureus Bacteriophage K, PDB code: 4ct3:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 4ct3

Go back to Calcium Binding Sites List in 4ct3
Calcium binding site 1 out of 4 in the Methylmercury Chloride Derivative Structure of the Lytic Chapk Domain of the Endolysin Lysk From Staphylococcus Aureus Bacteriophage K


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Methylmercury Chloride Derivative Structure of the Lytic Chapk Domain of the Endolysin Lysk From Staphylococcus Aureus Bacteriophage K within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1170

b:15.8
occ:1.00
OD1 A:ASP45 2.3 11.7 1.0
O A:HIS51 2.3 14.8 1.0
OD2 A:ASP56 2.4 15.5 1.0
OD1 A:ASP47 2.4 20.5 1.0
O A:HOH2083 2.4 17.6 1.0
O A:TYR49 2.4 16.2 1.0
OD1 A:ASP56 2.7 17.4 1.0
CG A:ASP56 2.9 15.5 1.0
CG A:ASP45 3.4 12.2 1.0
CG A:ASP47 3.4 20.8 1.0
C A:HIS51 3.5 14.7 1.0
C A:TYR49 3.6 16.0 1.0
OD2 A:ASP47 3.8 20.2 1.0
OD2 A:ASP45 4.1 12.4 1.0
N A:TYR49 4.2 14.8 1.0
N A:HIS51 4.2 13.5 1.0
CA A:ASP45 4.2 12.3 1.0
OH A:TYR32 4.3 13.2 1.0
C A:TYR50 4.3 14.6 1.0
CB A:ASP45 4.3 12.4 1.0
CB A:ASP56 4.3 14.7 1.0
N A:GLN53 4.3 16.1 1.0
CA A:HIS51 4.4 13.4 1.0
N A:ASP47 4.4 20.1 1.0
N A:ALA52 4.4 14.9 1.0
N A:ALA46 4.5 15.3 1.0
CA A:TYR49 4.5 16.1 1.0
N A:GLY48 4.5 18.1 1.0
CA A:ALA52 4.5 15.7 1.0
O A:HOH2097 4.6 24.9 1.0
N A:TYR50 4.6 15.6 1.0
CG A:GLN53 4.6 19.1 1.0
O A:TYR50 4.6 14.4 1.0
CB A:ASP47 4.7 20.4 1.0
CA A:TYR50 4.7 15.9 1.0
C A:ASP45 4.7 13.3 1.0
CB A:TYR50 4.8 16.9 1.0
CB A:GLN53 4.8 18.4 1.0
CA A:ASP47 4.9 19.3 1.0

Calcium binding site 2 out of 4 in 4ct3

Go back to Calcium Binding Sites List in 4ct3
Calcium binding site 2 out of 4 in the Methylmercury Chloride Derivative Structure of the Lytic Chapk Domain of the Endolysin Lysk From Staphylococcus Aureus Bacteriophage K


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Methylmercury Chloride Derivative Structure of the Lytic Chapk Domain of the Endolysin Lysk From Staphylococcus Aureus Bacteriophage K within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1169

b:17.1
occ:1.00
OD1 B:ASP45 2.3 10.0 1.0
O B:HIS51 2.3 16.4 1.0
OD1 B:ASP47 2.4 22.8 1.0
O B:HOH2088 2.4 13.6 1.0
OD2 B:ASP56 2.4 16.7 1.0
O B:TYR49 2.4 17.1 1.0
OD1 B:ASP56 2.7 18.0 1.0
CG B:ASP56 2.9 16.1 1.0
CG B:ASP45 3.4 11.1 1.0
CG B:ASP47 3.4 22.7 1.0
C B:HIS51 3.6 14.8 1.0
C B:TYR49 3.6 17.0 1.0
OD2 B:ASP47 3.8 21.4 1.0
N B:TYR49 4.1 16.6 1.0
OD2 B:ASP45 4.2 11.3 1.0
N B:HIS51 4.2 15.1 1.0
CA B:ASP45 4.3 11.7 1.0
OH B:TYR32 4.3 12.1 1.0
C B:TYR50 4.3 15.3 1.0
CB B:ASP45 4.3 11.2 1.0
CB B:ASP56 4.3 14.9 1.0
N B:ASP47 4.4 19.5 1.0
N B:GLN53 4.4 16.2 1.0
CA B:HIS51 4.4 14.0 1.0
N B:ALA46 4.5 14.7 1.0
CA B:TYR49 4.5 17.6 1.0
O B:HOH2099 4.5 10.0 0.5
N B:ALA52 4.5 15.3 1.0
N B:GLY48 4.5 19.1 1.0
N B:TYR50 4.6 17.3 1.0
CA B:ALA52 4.6 15.7 1.0
CG B:GLN53 4.6 20.6 1.0
O B:TYR50 4.7 15.1 1.0
CB B:ASP47 4.7 22.0 1.0
C B:ASP45 4.7 12.5 1.0
CA B:TYR50 4.7 16.5 1.0
CB B:TYR50 4.8 17.4 1.0
CB B:GLN53 4.9 19.6 1.0
CA B:ASP47 4.9 20.8 1.0
O B:HOH2089 4.9 23.1 0.5

Calcium binding site 3 out of 4 in 4ct3

Go back to Calcium Binding Sites List in 4ct3
Calcium binding site 3 out of 4 in the Methylmercury Chloride Derivative Structure of the Lytic Chapk Domain of the Endolysin Lysk From Staphylococcus Aureus Bacteriophage K


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Methylmercury Chloride Derivative Structure of the Lytic Chapk Domain of the Endolysin Lysk From Staphylococcus Aureus Bacteriophage K within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca1168

b:14.7
occ:1.00
O C:HIS51 2.3 12.8 1.0
OD1 C:ASP45 2.3 16.8 1.0
O C:TYR49 2.3 12.3 1.0
OD1 C:ASP47 2.4 14.4 1.0
O C:HOH2073 2.4 11.1 1.0
OD2 C:ASP56 2.5 14.5 1.0
OD1 C:ASP56 2.7 12.7 1.0
CG C:ASP56 2.9 14.9 1.0
CG C:ASP47 3.4 15.0 1.0
CG C:ASP45 3.4 16.3 1.0
C C:HIS51 3.5 11.9 1.0
C C:TYR49 3.6 13.0 1.0
OD2 C:ASP47 3.8 17.7 1.0
N C:TYR49 4.0 13.3 1.0
OD2 C:ASP45 4.1 16.4 1.0
OH C:TYR32 4.2 13.5 1.0
N C:HIS51 4.2 12.4 1.0
C C:TYR50 4.3 12.1 1.0
CA C:ASP45 4.4 15.3 1.0
CA C:HIS51 4.4 11.8 1.0
CB C:ASP45 4.4 15.8 1.0
CA C:TYR49 4.4 13.0 1.0
N C:GLN53 4.4 12.8 1.0
CB C:ASP56 4.4 14.5 1.0
N C:ALA52 4.4 12.0 1.0
N C:ASP47 4.4 15.2 1.0
N C:ALA46 4.5 15.3 1.0
N C:GLY48 4.5 13.4 1.0
N C:TYR50 4.5 12.4 1.0
CA C:ALA52 4.5 12.3 1.0
CG C:GLN53 4.6 14.6 1.0
O C:HOH2085 4.6 14.9 1.0
O C:TYR50 4.6 11.7 1.0
CB C:TYR50 4.7 13.8 1.0
CA C:TYR50 4.7 12.9 1.0
CB C:ASP47 4.7 14.0 1.0
C C:ASP45 4.8 15.5 1.0
CB C:GLN53 4.8 14.1 1.0
CA C:ASP47 4.9 14.0 1.0

Calcium binding site 4 out of 4 in 4ct3

Go back to Calcium Binding Sites List in 4ct3
Calcium binding site 4 out of 4 in the Methylmercury Chloride Derivative Structure of the Lytic Chapk Domain of the Endolysin Lysk From Staphylococcus Aureus Bacteriophage K


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Methylmercury Chloride Derivative Structure of the Lytic Chapk Domain of the Endolysin Lysk From Staphylococcus Aureus Bacteriophage K within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca1169

b:14.5
occ:1.00
O D:TYR49 2.3 11.5 1.0
O D:HIS51 2.3 12.8 1.0
OD1 D:ASP45 2.3 16.6 1.0
OD1 D:ASP47 2.3 13.3 1.0
O D:HOH2068 2.3 11.8 1.0
OD2 D:ASP56 2.5 15.1 1.0
OD1 D:ASP56 2.8 13.5 1.0
CG D:ASP56 3.0 15.0 1.0
CG D:ASP47 3.4 14.1 1.0
CG D:ASP45 3.4 16.1 1.0
C D:TYR49 3.5 12.5 1.0
C D:HIS51 3.5 12.6 1.0
OD2 D:ASP47 3.8 15.0 1.0
N D:TYR49 4.0 12.5 1.0
OD2 D:ASP45 4.1 17.1 1.0
N D:HIS51 4.1 12.8 1.0
OH D:TYR32 4.2 15.3 1.0
C D:TYR50 4.2 13.2 1.0
CA D:TYR49 4.3 12.4 1.0
CA D:HIS51 4.4 12.6 1.0
CA D:ASP45 4.4 15.7 1.0
N D:ASP47 4.4 15.8 1.0
CB D:ASP45 4.4 16.4 1.0
N D:TYR50 4.4 12.3 1.0
N D:GLN53 4.5 12.5 1.0
N D:ALA52 4.5 12.3 1.0
N D:GLY48 4.5 13.4 1.0
CB D:ASP56 4.5 14.6 1.0
N D:ALA46 4.5 17.3 1.0
CG D:GLN53 4.6 14.9 1.0
O D:TYR50 4.6 13.4 1.0
O D:HOH2081 4.6 16.5 1.0
CA D:ALA52 4.6 12.3 1.0
CA D:TYR50 4.6 13.4 1.0
CB D:TYR50 4.6 13.9 1.0
CB D:ASP47 4.7 13.8 1.0
C D:ASP45 4.8 16.6 1.0
CB D:GLN53 4.9 13.8 1.0
CA D:ASP47 4.9 14.8 1.0
C D:GLY48 5.0 12.0 1.0
CB D:TYR49 5.0 12.3 1.0

Reference:

M.Sanz-Gaitero, R.Keary, C.Garcia-Doval, A.Coffey, M.J.Van Raaij. Crystal Structure of the Lytic Chapk Domain of the Endolysin Lysk From Staphylococcus Aureus Bacteriophage K. Virol.J. V. 11 133 2014.
ISSN: ISSN 1743-422X
PubMed: 25064136
DOI: 10.1186/1743-422X-11-133
Page generated: Sat Dec 12 04:42:47 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy