Atomistry » Cadmium » PDB 3zr9-4efp » 4dki
Atomistry »
  Cadmium »
    PDB 3zr9-4efp »
      4dki »

Cadmium in PDB 4dki: Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole

Enzymatic activity of Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole

All present enzymatic activity of Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole:
3.4.16.4;

Protein crystallography data

The structure of Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole, PDB code: 4dki was solved by A.L.Lovering, M.C.Gretes, N.C.J.Strynadka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 53.29 / 2.90
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 80.847, 103.471, 186.500, 90.00, 90.00, 90.00
R / Rfree (%) 17.3 / 23.6

Other elements in 4dki:

The structure of Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole also contains other interesting chemical elements:

Chlorine (Cl) 4 atoms

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole (pdb code 4dki). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 7 binding sites of Cadmium where determined in the Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole, PDB code: 4dki:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5; 6; 7;

Cadmium binding site 1 out of 7 in 4dki

Go back to Cadmium Binding Sites List in 4dki
Cadmium binding site 1 out of 7 in the Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd705

b:43.5
occ:1.00
 OE1 A:GLU145 2.2 25.6 1.0
ND1 A:HIS143 2.4 45.4 1.0
OE2 B:GLU145 2.4 41.1 1.0
CL A:CL708 2.5 41.3 1.0
OE1 B:GLU145 2.7 31.6 1.0
CD B:GLU145 2.9 51.5 1.0
CD A:GLU145 3.1 52.5 1.0
CE1 A:HIS143 3.2 44.7 1.0
CG A:HIS143 3.5 43.7 1.0
CG A:GLU145 3.8 42.0 1.0
CB A:HIS143 3.8 40.9 1.0
OE2 A:GLU145 3.8 26.2 1.0
CD B:CD703 3.9 41.0 1.0
OD1 A:ASN307 4.1 55.3 1.0
O B:ILE144 4.3 38.4 1.0
ND1 B:HIS143 4.4 40.6 1.0
CG2 A:VAL302 4.4 42.9 1.0
CG B:GLU145 4.4 43.6 1.0
NE2 A:HIS143 4.4 45.1 1.0
CD2 A:HIS143 4.6 45.1 1.0
CG B:HIS143 4.9 38.6 1.0
CE1 B:HIS143 4.9 40.0 1.0
OG1 A:THR300 5.0 50.4 1.0

Cadmium binding site 2 out of 7 in 4dki

Go back to Cadmium Binding Sites List in 4dki
Cadmium binding site 2 out of 7 in the Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd706

b:0.8
occ:1.00
 NE2 A:HIS232 2.8 0.4 1.0
CD2 A:HIS232 3.6 0.5 1.0
CE1 A:HIS232 3.9 0.5 1.0
NZ A:LYS229 4.4 0.8 1.0
O A:LYS229 4.7 93.2 1.0
CG A:HIS232 4.8 0.9 1.0
ND1 A:HIS232 4.9 0.4 1.0

Cadmium binding site 3 out of 7 in 4dki

Go back to Cadmium Binding Sites List in 4dki
Cadmium binding site 3 out of 7 in the Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd707

b:60.3
occ:1.00
 OD2 B:ASP209 2.2 77.5 1.0
OD1 B:ASP209 2.2 71.7 1.0
O A:GLY135 2.4 49.5 1.0
NE2 A:HIS311 2.4 53.6 1.0
CL A:CL709 2.4 47.6 1.0
CG B:ASP209 2.5 71.1 1.0
CD2 A:HIS311 3.3 52.6 1.0
C A:GLY135 3.4 49.4 1.0
CE1 A:HIS311 3.4 53.8 1.0
CA A:GLY135 3.7 47.1 1.0
CB B:ASP209 4.0 59.8 1.0
NE2 A:GLN137 4.3 52.4 1.0
CG A:HIS311 4.4 50.5 1.0
ND1 A:HIS311 4.5 53.4 1.0
CG A:GLN137 4.6 50.8 1.0
N A:MET136 4.6 44.2 1.0
CD A:GLN137 4.7 64.9 1.0
CA B:ASP209 4.9 58.4 1.0
CB B:GLN207 4.9 66.2 1.0
OG1 B:THR210 4.9 70.2 1.0
C B:ASP209 5.0 60.2 1.0

Cadmium binding site 4 out of 7 in 4dki

Go back to Cadmium Binding Sites List in 4dki
Cadmium binding site 4 out of 7 in the Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd703

b:41.0
occ:1.00
 OE1 B:GLU145 2.2 31.6 1.0
OE2 A:GLU145 2.3 26.2 1.0
ND1 B:HIS143 2.3 40.6 1.0
CL B:CL707 2.4 52.0 1.0
OE1 A:GLU145 2.8 25.6 1.0
CD A:GLU145 2.9 52.5 1.0
CD B:GLU145 3.1 51.5 1.0
CE1 B:HIS143 3.2 40.0 1.0
CG B:HIS143 3.3 38.6 1.0
OD1 B:ASN307 3.4 61.2 1.0
CB B:HIS143 3.6 34.9 1.0
CG B:GLU145 3.8 43.6 1.0
CD A:CD705 3.9 43.5 1.0
OE2 B:GLU145 3.9 41.1 1.0
ND1 A:HIS143 4.1 45.4 1.0
CG A:GLU145 4.4 42.0 1.0
NE2 B:HIS143 4.4 40.3 1.0
CD2 B:HIS143 4.5 40.3 1.0
O A:ILE144 4.5 36.7 1.0
CG B:ASN307 4.6 77.6 1.0
CE1 A:HIS143 4.7 44.7 1.0
CG A:HIS143 4.8 43.7 1.0
CG2 B:VAL302 4.8 35.9 1.0
OG1 B:THR300 4.9 27.0 1.0

Cadmium binding site 5 out of 7 in 4dki

Go back to Cadmium Binding Sites List in 4dki
Cadmium binding site 5 out of 7 in the Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd704

b:46.6
occ:1.00
 OD1 A:ASP209 2.2 66.8 1.0
CL B:CL708 2.3 44.7 1.0
NE2 B:HIS311 2.3 44.0 1.0
O B:GLY135 2.3 35.3 1.0
OD2 A:ASP209 2.4 68.8 1.0
CG A:ASP209 2.6 64.2 1.0
CE1 B:HIS311 3.1 44.4 1.0
C B:GLY135 3.3 37.0 1.0
CD2 B:HIS311 3.5 43.2 1.0
CA B:GLY135 3.6 36.2 1.0
NE2 B:GLN137 3.8 59.5 1.0
CB A:ASP209 4.2 51.3 1.0
ND1 B:HIS311 4.3 44.3 1.0
CG B:HIS311 4.5 41.6 1.0
N B:MET136 4.5 32.3 1.0
CD B:GLN137 4.6 59.5 1.0
CG B:GLN137 4.6 41.2 1.0
CB A:GLN207 4.7 52.7 1.0
NH2 B:ARG110 4.9 82.8 1.0
CG A:GLN207 4.9 62.3 1.0
N B:GLY135 5.0 37.7 1.0

Cadmium binding site 6 out of 7 in 4dki

Go back to Cadmium Binding Sites List in 4dki
Cadmium binding site 6 out of 7 in the Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 6 of Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd705

b:0.3
occ:1.00
 NE2 B:HIS232 2.5 85.3 1.0
CE1 B:HIS232 2.7 84.1 1.0
CD2 B:HIS232 3.8 83.3 1.0
ND1 B:HIS232 4.0 81.6 1.0
CG B:HIS232 4.5 78.9 1.0

Cadmium binding site 7 out of 7 in 4dki

Go back to Cadmium Binding Sites List in 4dki
Cadmium binding site 7 out of 7 in the Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 7 of Structural Insights Into the Anti- Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd706

b:0.3
occ:1.00
 OD2 B:ASP573 2.4 90.0 1.0
OD1 B:ASP573 2.5 91.2 1.0
CG B:ASP573 2.8 89.8 1.0
OD1 B:ASN569 3.6 0.6 1.0
CB B:ASP573 4.3 81.7 1.0
CG B:ASN569 4.4 1.0 1.0
CB B:ASN569 4.5 74.0 1.0
NZ B:LYS456 4.7 97.3 1.0
O B:ASN569 4.7 75.6 1.0

Reference:

A.L.Lovering, M.C.Gretes, S.S.Safadi, F.Danel, L.De Castro, M.G.Page, N.C.Strynadka. Structural Insights Into the Anti-Methicillin-Resistant Staphylococcus Aureus (Mrsa) Activity of Ceftobiprole. J.Biol.Chem. V. 287 32096 2012.
ISSN: ISSN 0021-9258
PubMed: 22815485
DOI: 10.1074/JBC.M112.355644
Page generated: Sat Dec 12 08:24:25 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy