Atomistry » Cobalt » PDB 3igz-3mcr » 3ka9
Atomistry »
  Cobalt »
    PDB 3igz-3mcr »
      3ka9 »

Cobalt in PDB 3ka9: Frog M-Ferritin, Eeh Mutant, with Cobalt

Enzymatic activity of Frog M-Ferritin, Eeh Mutant, with Cobalt

All present enzymatic activity of Frog M-Ferritin, Eeh Mutant, with Cobalt:
1.16.3.1;

Protein crystallography data

The structure of Frog M-Ferritin, Eeh Mutant, with Cobalt, PDB code: 3ka9 was solved by T.Tosha, H.L.Ng, E.Theil, T.Alber, O.Bhattasali, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.45
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 183.452, 183.452, 183.452, 90.00, 90.00, 90.00
R / Rfree (%) 12.9 / 16.5

Other elements in 3ka9:

The structure of Frog M-Ferritin, Eeh Mutant, with Cobalt also contains other interesting chemical elements:

Magnesium (Mg) 5 atoms
Chlorine (Cl) 5 atoms

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Frog M-Ferritin, Eeh Mutant, with Cobalt (pdb code 3ka9). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 7 binding sites of Cobalt where determined in the Frog M-Ferritin, Eeh Mutant, with Cobalt, PDB code: 3ka9:
Jump to Cobalt binding site number: 1; 2; 3; 4; 5; 6; 7;

Cobalt binding site 1 out of 7 in 3ka9

Go back to Cobalt Binding Sites List in 3ka9
Cobalt binding site 1 out of 7 in the Frog M-Ferritin, Eeh Mutant, with Cobalt


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Frog M-Ferritin, Eeh Mutant, with Cobalt within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co176

b:12.7
occ:0.25
 NE2 A:HIS169 2.2 11.8 1.0
CL A:CL185 2.3 12.6 0.2
CL A:CL187 2.3 16.7 0.1
CE1 A:HIS169 3.1 12.9 1.0
CD2 A:HIS169 3.3 12.3 1.0
ND1 A:HIS169 4.3 13.4 1.0
CG A:HIS169 4.4 11.4 1.0
O A:HOH243 4.6 43.3 1.0

Cobalt binding site 2 out of 7 in 3ka9

Go back to Cobalt Binding Sites List in 3ka9
Cobalt binding site 2 out of 7 in the Frog M-Ferritin, Eeh Mutant, with Cobalt


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Frog M-Ferritin, Eeh Mutant, with Cobalt within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co177

b:14.7
occ:1.00
 OE1 A:GLU58 1.9 16.2 1.0
OE1 A:GLU23 2.0 13.0 1.0
O A:HOH376 2.0 12.2 1.0
ND1 A:HIS61 2.0 13.7 1.0
O A:HOH381 2.2 22.7 1.0
CE1 A:HIS61 3.0 17.4 1.0
CD A:GLU58 3.0 17.8 1.0
CD A:GLU23 3.0 10.9 1.0
CG A:HIS61 3.1 11.9 1.0
OE2 A:GLU23 3.2 13.8 1.0
OE2 A:GLU58 3.3 28.9 1.0
CB A:HIS61 3.5 10.7 1.0
O A:HOH426 3.9 20.8 1.0
OE2 A:GLU137 4.0 24.6 1.0
CG1 A:VAL106 4.1 13.1 1.0
NE2 A:HIS61 4.1 17.7 1.0
CD2 A:HIS61 4.2 15.6 1.0
CG A:GLU58 4.3 14.2 1.0
CG A:GLU23 4.3 10.8 1.0
CA A:GLU58 4.4 10.4 1.0
CB A:GLU58 4.6 10.7 1.0
CB A:GLU23 4.7 9.6 1.0
CD2 A:TYR133 5.0 12.9 1.0

Cobalt binding site 3 out of 7 in 3ka9

Go back to Cobalt Binding Sites List in 3ka9
Cobalt binding site 3 out of 7 in the Frog M-Ferritin, Eeh Mutant, with Cobalt


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Frog M-Ferritin, Eeh Mutant, with Cobalt within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co178

b:15.7
occ:1.00
 OE2 A:GLU136 1.9 20.5 1.0
O A:HOH355 2.1 18.9 1.0
NE2 A:HIS140 2.1 12.4 1.0
O A:HOH390 2.1 19.3 1.0
OE2 A:GLU57 2.2 18.5 1.0
OE1 A:GLU57 2.3 15.6 1.0
CD A:GLU57 2.5 17.1 1.0
CD A:GLU136 3.0 18.0 1.0
CE1 A:HIS140 3.1 12.2 1.0
CD2 A:HIS140 3.1 12.6 1.0
CG A:GLU136 3.3 15.4 1.0
CG A:GLU57 4.0 14.0 1.0
OE1 A:GLU136 4.1 21.1 1.0
ND1 A:HIS140 4.2 12.0 1.0
CG A:HIS140 4.2 10.7 1.0
O A:HOH427 4.3 26.4 1.0
O A:HOH201 4.4 34.8 1.0
CE1 A:HIS54 4.5 16.3 1.0
O A:HOH398 4.6 22.2 1.0
O A:HOH428 4.7 29.9 1.0
CB A:GLU136 4.9 14.8 1.0
O A:HOH348 4.9 18.0 1.0
CB A:GLU57 4.9 11.1 1.0

Cobalt binding site 4 out of 7 in 3ka9

Go back to Cobalt Binding Sites List in 3ka9
Cobalt binding site 4 out of 7 in the Frog M-Ferritin, Eeh Mutant, with Cobalt


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 4 of Frog M-Ferritin, Eeh Mutant, with Cobalt within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co179

b:23.9
occ:1.00
 OE2 A:GLU60 1.9 31.5 1.0
O A:HOH450 2.2 27.6 1.0
O A:HOH449 2.2 23.8 1.0
OE1 A:GLU63 2.3 23.3 1.0
OE1 A:GLU60 2.4 29.1 1.0
CD A:GLU60 2.5 23.1 1.0
CD A:GLU63 3.1 21.7 1.0
OE2 A:GLU63 3.2 30.8 1.0
CG A:GLU60 4.0 20.0 1.0
O A:HOH441 4.2 32.9 1.0
O A:HOH280 4.5 41.6 1.0
CG A:GLU63 4.5 18.8 1.0
CA A:GLU60 5.0 12.7 1.0
CB A:GLU60 5.0 14.0 1.0
CB A:GLU63 5.0 13.3 1.0

Cobalt binding site 5 out of 7 in 3ka9

Go back to Cobalt Binding Sites List in 3ka9
Cobalt binding site 5 out of 7 in the Frog M-Ferritin, Eeh Mutant, with Cobalt


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 5 of Frog M-Ferritin, Eeh Mutant, with Cobalt within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co180

b:12.0
occ:0.16
 O A:HOH323 2.1 13.8 1.0
O A:HOH378 2.1 13.7 1.0
O A:HOH292 3.5 71.5 1.0
OE2 A:GLU130 3.8 13.1 1.0
O A:HOH337 4.3 20.5 1.0
OE1 A:GLU130 4.3 17.6 1.0
O A:HOH343 4.3 16.1 1.0
CD A:GLU130 4.5 12.7 1.0

Cobalt binding site 6 out of 7 in 3ka9

Go back to Cobalt Binding Sites List in 3ka9
Cobalt binding site 6 out of 7 in the Frog M-Ferritin, Eeh Mutant, with Cobalt


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 6 of Frog M-Ferritin, Eeh Mutant, with Cobalt within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co181

b:20.0
occ:0.16
 O A:HOH405 1.7 27.9 1.0
O A:HOH302 1.9 11.4 0.3
OD1 A:ASP127 3.7 18.0 1.0
OG A:SER131 4.2 21.4 1.0
OE1 A:GLU130 4.3 17.6 1.0
O A:HOH255 4.4 33.0 1.0
CG A:ASP127 4.8 13.5 1.0
O A:HOH448 4.8 20.3 1.0

Cobalt binding site 7 out of 7 in 3ka9

Go back to Cobalt Binding Sites List in 3ka9
Cobalt binding site 7 out of 7 in the Frog M-Ferritin, Eeh Mutant, with Cobalt


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 7 of Frog M-Ferritin, Eeh Mutant, with Cobalt within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co182

b:30.9
occ:0.50
 NE2 A:HIS45 1.9 22.4 0.5
OE2 A:GLU49 2.0 25.1 0.5
O A:HOH305 2.1 48.0 1.0
O A:HOH253 2.1 41.6 1.0
O A:HOH304 2.2 39.5 1.0
CE1 A:HIS45 2.8 22.7 0.5
CD2 A:HIS45 3.0 22.5 0.5
CD A:GLU49 3.0 22.1 0.5
OE2 A:GLU49 3.4 27.7 0.5
CD A:GLU49 3.5 22.2 0.5
CG A:GLU49 3.5 17.3 0.5
CG A:GLU49 3.5 15.8 0.5
O A:HOH293 3.7 45.2 1.0
ND1 A:HIS45 3.9 22.3 0.5
CG A:HIS45 4.0 17.9 0.5
OE1 A:GLU49 4.1 23.5 0.5
OE1 A:GLU49 4.2 27.1 0.5
O A:HOH268 4.6 34.5 1.0
O A:HOH406 4.8 27.8 1.0
CB A:GLU49 4.8 10.5 0.5
O A:HOH212 4.9 41.5 1.0

Reference:

T.Tosha, H.L.Ng, E.Theil, T.Alber, O.Bhattasali. Frog M-Ferritin, Eeh Mutant, with Cobalt To Be Published.
Page generated: Tue Jul 30 16:12:56 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy