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Cobalt in PDB 7x9z: Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co

Enzymatic activity of Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co

All present enzymatic activity of Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co:
1.16.3.2;

Protein crystallography data

The structure of Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co, PDB code: 7x9z was solved by L.Yu, Z.Guanghua, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 53.34 / 2.29
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 54.517, 65.809, 91.064, 90, 90, 90
R / Rfree (%) 18.8 / 24.6

Cobalt Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 11;

Binding sites:

The binding sites of Cobalt atom in the Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co (pdb code 7x9z). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 11 binding sites of Cobalt where determined in the Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co, PDB code: 7x9z:
Jump to Cobalt binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Cobalt binding site 1 out of 11 in 7x9z

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Cobalt binding site 1 out of 11 in the Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co201

b:24.3
occ:1.00
 O A:HOH304 2.0 16.9 1.0
OE1 A:GLU19 2.1 17.3 1.0
ND1 A:HIS55 2.2 16.4 1.0
OE1 A:GLU52 2.2 15.4 1.0
O A:HOH308 2.5 15.1 1.0
CD A:GLU19 3.0 16.8 1.0
CE1 A:HIS55 3.1 19.8 1.0
OE2 A:GLU19 3.2 17.4 1.0
CG A:HIS55 3.3 16.0 1.0
CD A:GLU52 3.3 15.4 1.0
CO A:CO204 3.4 28.2 1.0
CB A:HIS55 3.6 17.2 1.0
OE2 A:GLU52 3.7 17.9 1.0
OE1 A:GLN129 3.7 16.6 1.0
NE2 A:HIS55 4.2 19.1 1.0
CD2 A:HIS55 4.3 13.9 1.0
CG A:GLU19 4.4 17.2 1.0
CG1 A:VAL99 4.5 8.3 1.0
CG A:GLU52 4.6 15.4 1.0
CA A:GLU52 4.6 15.2 1.0
OE2 A:GLU132 4.6 19.6 1.0
CB A:GLU52 4.7 15.1 1.0
CB A:GLU19 4.8 14.7 1.0
CD A:GLN129 4.9 20.4 1.0
O A:GLU52 5.0 14.0 1.0

Cobalt binding site 2 out of 11 in 7x9z

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Cobalt binding site 2 out of 11 in the Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co202

b:28.3
occ:1.00
 OE1 A:GLU131 2.0 23.7 1.0
OE1 B:GLU131 2.0 20.1 1.0
OE2 B:GLU128 2.1 25.4 1.0
OE2 A:GLU128 2.2 19.9 1.0
OE1 B:GLU128 2.4 21.1 1.0
OE1 A:GLU128 2.4 22.7 1.0
CD B:GLU128 2.5 19.9 1.0
CD A:GLU128 2.6 20.3 1.0
CD B:GLU131 3.1 19.2 1.0
CD A:GLU131 3.1 20.9 1.0
OE2 B:GLU131 3.5 16.6 1.0
OE2 A:GLU131 3.6 25.5 1.0
O B:HOH307 3.7 25.4 1.0
O A:HOH310 3.9 21.1 1.0
CG B:GLU128 4.0 19.4 1.0
CO A:CO203 4.1 30.9 1.0
CO B:CO202 4.1 33.0 1.0
O A:HOH313 4.1 22.9 1.0
CG A:GLU128 4.2 20.0 1.0
CG B:GLU131 4.3 15.6 1.0
O A:HOH318 4.3 26.8 1.0
CG A:GLU131 4.3 17.4 1.0
O B:HOH313 4.4 29.5 1.0
CB B:GLU131 4.8 15.8 1.0
CB B:GLU128 4.8 13.5 1.0
OE2 B:GLU51 4.8 20.1 1.0
CA B:GLU128 4.8 18.5 1.0
CB A:GLU131 4.9 15.4 1.0
CB A:GLU128 5.0 19.0 1.0

Cobalt binding site 3 out of 11 in 7x9z

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Cobalt binding site 3 out of 11 in the Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co203

b:30.9
occ:1.00
 OE1 A:GLU128 2.3 22.7 1.0
O A:HOH311 2.4 17.6 1.0
OE2 B:GLU131 2.4 16.6 1.0
O A:HOH310 2.4 21.1 1.0
OE2 A:GLU51 2.5 19.7 1.0
OE1 A:GLU132 2.5 23.2 1.0
OE1 A:GLU51 2.7 22.7 1.0
CD A:GLU51 2.9 16.6 1.0
CD A:GLU132 3.3 18.8 1.0
CD B:GLU131 3.4 19.2 1.0
CG A:GLU132 3.4 19.2 1.0
CD A:GLU128 3.5 20.3 1.0
OE1 B:GLU131 3.7 20.1 1.0
CG A:GLU128 4.0 20.0 1.0
CO A:CO202 4.1 28.3 1.0
OE1 A:GLU131 4.2 23.7 1.0
CG A:GLU51 4.4 20.6 1.0
NE2 A:GLN48 4.4 17.4 1.0
OE1 A:GLN135 4.4 31.3 1.0
OE1 A:GLN48 4.5 19.3 1.0
OE2 A:GLU128 4.5 19.9 1.0
OE2 A:GLU132 4.6 19.6 1.0
O A:HOH312 4.6 17.7 1.0
CG B:GLU131 4.6 15.6 1.0
CB A:GLU132 4.8 16.3 1.0
NE2 A:HIS55 4.9 19.1 1.0
O A:HOH318 4.9 26.8 1.0
CD A:GLN48 4.9 15.8 1.0
CE1 A:HIS55 5.0 19.8 1.0

Cobalt binding site 4 out of 11 in 7x9z

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Cobalt binding site 4 out of 11 in the Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 4 of Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co204

b:28.2
occ:1.00
 OE2 A:GLU52 2.0 17.9 1.0
O A:HOH304 2.0 16.9 1.0
OE2 A:GLU132 2.1 19.6 1.0
OE2 A:GLU96 2.2 19.3 1.0
OE1 A:GLU96 2.7 17.1 1.0
CD A:GLU96 2.7 19.6 1.0
CD A:GLU52 2.9 15.4 1.0
OE1 A:GLU52 3.1 15.4 1.0
CD A:GLU132 3.2 18.8 1.0
CO A:CO201 3.4 24.3 1.0
NE2 A:GLN48 3.7 17.4 1.0
OE1 A:GLU132 3.7 23.2 1.0
OE1 A:GLN129 4.0 16.6 1.0
CG A:GLU96 4.2 18.0 1.0
CG A:GLU52 4.3 15.4 1.0
CE1 A:HIS55 4.4 19.8 1.0
CG A:GLU132 4.4 19.2 1.0
CE2 A:TYR26 4.4 13.9 1.0
OH A:TYR26 4.5 28.3 1.0
ND1 A:HIS55 4.5 16.4 1.0
CB A:GLU132 4.5 16.3 1.0
NE2 A:GLN129 4.6 15.2 1.0
CD A:GLN129 4.7 20.4 1.0
CD A:GLN48 4.9 15.8 1.0
O A:HOH308 4.9 15.1 1.0
CZ A:TYR26 4.9 20.2 1.0

Cobalt binding site 5 out of 11 in 7x9z

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Cobalt binding site 5 out of 11 in the Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 5 of Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co205

b:76.2
occ:1.00
 OE1 B:GLU138 2.3 44.4 1.0
CE1 A:HIS43 3.0 47.9 1.0
ND1 A:HIS43 3.2 42.7 1.0
CD B:GLU138 3.5 39.9 1.0
CO A:CO206 3.6 89.5 1.0
NZ A:LYS47 3.9 45.9 1.0
OD2 B:ASP134 4.0 41.7 1.0
CE A:LYS47 4.1 29.1 1.0
NE2 A:HIS43 4.2 52.8 1.0
CG B:GLU138 4.4 37.9 1.0
OE2 B:GLU138 4.4 40.8 1.0
CG A:HIS43 4.6 36.8 1.0
CD A:LYS47 4.7 41.8 1.0

Cobalt binding site 6 out of 11 in 7x9z

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Cobalt binding site 6 out of 11 in the Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 6 of Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co206

b:89.5
occ:1.00
 OE2 A:GLU40 2.4 56.5 1.0
OE1 A:GLU40 2.5 56.0 1.0
ND1 A:HIS43 2.7 42.7 1.0
CD A:GLU40 2.8 51.7 1.0
OE1 B:GLU138 3.0 44.4 1.0
OE2 B:GLU138 3.2 40.8 1.0
CG A:HIS43 3.4 36.8 1.0
CB A:HIS43 3.4 19.3 1.0
CD B:GLU138 3.5 39.9 1.0
CO A:CO205 3.6 76.2 1.0
CE1 A:HIS43 3.7 47.9 1.0
CG A:GLU40 4.3 33.7 1.0
NZ A:LYS47 4.4 45.9 1.0
CD2 A:HIS43 4.6 34.2 1.0
O A:GLU40 4.7 24.8 1.0
CA A:GLU40 4.7 25.7 1.0
NE2 A:HIS43 4.7 52.8 1.0
CD1 A:TRP44 4.8 29.0 1.0
NE1 A:TRP44 4.9 31.8 1.0
CA A:HIS43 4.9 22.0 1.0
CG B:GLU138 4.9 37.9 1.0
CB A:GLU40 5.0 27.7 1.0

Cobalt binding site 7 out of 11 in 7x9z

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Cobalt binding site 7 out of 11 in the Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 7 of Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co201

b:22.8
occ:1.00
 OE1 B:GLU19 2.0 16.3 1.0
ND1 B:HIS55 2.1 14.6 1.0
O B:HOH305 2.1 13.6 1.0
O B:HOH301 2.2 11.2 1.0
OE2 B:GLU52 2.2 12.8 1.0
CD B:GLU19 3.0 14.7 1.0
CE1 B:HIS55 3.0 12.2 1.0
CG B:HIS55 3.1 13.2 1.0
CD B:GLU52 3.2 13.8 1.0
OE2 B:GLU19 3.3 14.2 1.0
CO B:CO203 3.3 29.7 1.0
CB B:HIS55 3.5 12.9 1.0
NE2 B:GLN129 3.6 14.4 1.0
OE1 B:GLU52 3.7 14.0 1.0
NE2 B:HIS55 4.1 19.9 1.0
CD2 B:HIS55 4.2 15.5 1.0
CG B:GLU19 4.3 16.4 1.0
CG B:GLU52 4.5 12.3 1.0
CG1 B:VAL99 4.5 13.4 1.0
CA B:GLU52 4.6 15.0 1.0
CB B:GLU52 4.6 13.8 1.0
CB B:GLU19 4.8 11.6 1.0
OE2 B:GLU132 4.8 22.7 1.0
OE1 B:GLU132 4.8 18.7 1.0
CD B:GLN129 4.9 13.0 1.0

Cobalt binding site 8 out of 11 in 7x9z

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Cobalt binding site 8 out of 11 in the Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 8 of Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co202

b:33.0
occ:1.00
 OE1 B:GLU128 2.4 21.1 1.0
OE2 A:GLU131 2.4 25.5 1.0
O B:HOH304 2.4 11.5 1.0
OE2 B:GLU51 2.4 20.1 1.0
O B:HOH307 2.5 25.4 1.0
OE1 B:GLU51 2.5 19.5 1.0
CD B:GLU51 2.8 18.3 1.0
OE2 B:GLU132 2.8 22.7 1.0
CG B:GLU132 3.4 24.3 1.0
CD A:GLU131 3.4 20.9 1.0
CD B:GLU132 3.5 20.6 1.0
CD B:GLU128 3.6 19.9 1.0
OE1 A:GLU131 3.8 23.7 1.0
CO A:CO202 4.1 28.3 1.0
OE1 B:GLN135 4.1 26.6 1.0
CG B:GLU128 4.2 19.4 1.0
OE1 B:GLU131 4.2 20.1 1.0
CG B:GLU51 4.3 16.9 1.0
NE2 B:GLN48 4.4 13.0 1.0
OE1 B:GLN48 4.4 16.2 1.0
OE2 B:GLU128 4.5 25.4 1.0
OE1 B:GLU132 4.7 18.7 1.0
NE2 B:HIS55 4.7 19.9 1.0
CG A:GLU131 4.7 17.4 1.0
O B:HOH313 4.8 29.5 1.0
CE1 B:HIS55 4.8 12.2 1.0
CB B:GLU132 4.9 16.9 1.0
CD B:GLN48 4.9 18.2 1.0

Cobalt binding site 9 out of 11 in 7x9z

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Cobalt binding site 9 out of 11 in the Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 9 of Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co203

b:29.7
occ:1.00
 O B:HOH301 2.0 11.2 1.0
OE1 B:GLU52 2.0 14.0 1.0
OE1 B:GLU132 2.0 18.7 1.0
OE2 B:GLU96 2.2 21.7 1.0
OE1 B:GLU96 2.6 15.5 1.0
CD B:GLU96 2.7 14.5 1.0
CD B:GLU52 2.9 13.8 1.0
CD B:GLU132 3.0 20.6 1.0
OE2 B:GLU52 3.0 12.8 1.0
CO B:CO201 3.3 22.8 1.0
OE2 B:GLU132 3.4 22.7 1.0
NE2 B:GLN48 3.7 13.0 1.0
NE2 B:GLN129 3.8 14.4 1.0
CE1 B:HIS55 4.1 12.2 1.0
CG B:GLU96 4.2 14.2 1.0
ND1 B:HIS55 4.2 14.6 1.0
OH B:TYR26 4.3 23.5 1.0
CG B:GLU52 4.3 12.3 1.0
CG B:GLU132 4.3 24.3 1.0
CE2 B:TYR26 4.4 18.9 1.0
OE1 B:GLN129 4.5 14.5 1.0
CB B:GLU132 4.5 16.9 1.0
CD B:GLN129 4.6 13.0 1.0
O B:HOH305 4.6 13.6 1.0
CZ B:TYR26 4.8 26.1 1.0
CD B:GLN48 4.9 18.2 1.0

Cobalt binding site 10 out of 11 in 7x9z

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Cobalt binding site 10 out of 11 in the Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 10 of Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co204

b:70.0
occ:1.00
 O A:HOH302 2.3 38.4 1.0
NE2 B:HIS43 2.4 44.7 1.0
OE1 A:GLU138 2.6 43.9 1.0
CD2 B:HIS43 3.0 39.4 1.0
CD A:GLU138 3.6 34.2 1.0
CE1 B:HIS43 3.6 44.1 1.0
OE2 A:GLU138 4.0 37.1 1.0
OD1 A:ASP134 4.2 38.0 1.0
OD1 A:ASP141 4.3 43.0 1.0
CG B:HIS43 4.3 36.5 1.0
CE B:LYS47 4.3 42.0 1.0
CO B:CO205 4.4 86.5 1.0
CD B:LYS47 4.5 34.9 1.0
ND1 B:HIS43 4.6 39.0 1.0
NZ B:LYS47 4.6 41.3 1.0
O A:HOH301 4.7 36.5 1.0
CG A:GLU138 4.8 29.7 1.0
CB A:GLU138 4.8 25.5 1.0
CA A:GLU138 4.9 29.3 1.0

Reference:

L.Yu, Z.Guanghua. Thermotoga Maritima Ferritin Variant-Tm-E(G40E) with Co To Be Published.
Page generated: Tue Apr 11 13:31:12 2023

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