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Cobalt in PDB 3ojj: Structure of Co-Substituted Homoprotocatechuate 2,3-Dioxygenase From B.Fuscum at 1.72 Ang Resolution

Enzymatic activity of Structure of Co-Substituted Homoprotocatechuate 2,3-Dioxygenase From B.Fuscum at 1.72 Ang Resolution

All present enzymatic activity of Structure of Co-Substituted Homoprotocatechuate 2,3-Dioxygenase From B.Fuscum at 1.72 Ang Resolution:
1.13.11.15;

Protein crystallography data

The structure of Structure of Co-Substituted Homoprotocatechuate 2,3-Dioxygenase From B.Fuscum at 1.72 Ang Resolution, PDB code: 3ojj was solved by A.J.Fielding, E.G.Kovaleva, E.R.Farquhar, J.D.Lipscomb, L.Que Jr., with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.62 / 1.72
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 110.539, 152.075, 96.491, 90.00, 90.00, 90.00
R / Rfree (%) 14.7 / 17.6

Other elements in 3ojj:

The structure of Structure of Co-Substituted Homoprotocatechuate 2,3-Dioxygenase From B.Fuscum at 1.72 Ang Resolution also contains other interesting chemical elements:

Chlorine (Cl) 4 atoms
Calcium (Ca) 1 atom

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Structure of Co-Substituted Homoprotocatechuate 2,3-Dioxygenase From B.Fuscum at 1.72 Ang Resolution (pdb code 3ojj). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 4 binding sites of Cobalt where determined in the Structure of Co-Substituted Homoprotocatechuate 2,3-Dioxygenase From B.Fuscum at 1.72 Ang Resolution, PDB code: 3ojj:
Jump to Cobalt binding site number: 1; 2; 3; 4;

Cobalt binding site 1 out of 4 in 3ojj

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Cobalt binding site 1 out of 4 in the Structure of Co-Substituted Homoprotocatechuate 2,3-Dioxygenase From B.Fuscum at 1.72 Ang Resolution


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Structure of Co-Substituted Homoprotocatechuate 2,3-Dioxygenase From B.Fuscum at 1.72 Ang Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co500

b:15.4
occ:1.00
 OE1 A:GLU267 2.1 14.5 1.0
O A:HOH649 2.1 8.0 1.0
NE2 A:HIS155 2.1 13.2 1.0
O A:HOH651 2.2 8.4 1.0
NE2 A:HIS214 2.2 12.5 1.0
O A:HOH650 2.3 11.7 1.0
CE1 A:HIS155 3.0 11.9 1.0
CE1 A:HIS214 3.1 12.6 1.0
CD2 A:HIS155 3.1 14.5 1.0
CD A:GLU267 3.2 14.6 1.0
CD2 A:HIS214 3.2 13.9 1.0
OE2 A:GLU267 3.6 14.8 1.0
NE2 A:HIS200 3.8 13.2 1.0
ND1 A:HIS155 4.2 12.7 1.0
OH A:TYR257 4.2 12.4 1.0
ND1 A:HIS214 4.2 13.7 1.0
CG A:HIS155 4.2 14.3 1.0
CG A:HIS214 4.3 13.6 1.0
O A:HOH655 4.3 17.2 1.0
ND2 A:ASN157 4.4 16.7 1.0
CG A:GLU267 4.5 12.6 1.0
CE1 A:HIS200 4.5 15.5 1.0
CB A:GLU267 4.6 12.6 1.0
CB A:ALA216 4.6 13.4 1.0
CB A:ASN157 4.6 13.7 1.0
CE1 A:TYR257 4.6 11.4 1.0
CZ A:TYR257 4.9 10.4 1.0
CD2 A:HIS200 4.9 15.6 1.0

Cobalt binding site 2 out of 4 in 3ojj

Go back to Cobalt Binding Sites List in 3ojj
Cobalt binding site 2 out of 4 in the Structure of Co-Substituted Homoprotocatechuate 2,3-Dioxygenase From B.Fuscum at 1.72 Ang Resolution


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Structure of Co-Substituted Homoprotocatechuate 2,3-Dioxygenase From B.Fuscum at 1.72 Ang Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co500

b:13.5
occ:1.00
 OE1 B:GLU267 2.0 11.9 1.0
O B:HOH689 2.1 6.3 1.0
O B:HOH691 2.1 13.3 1.0
NE2 B:HIS214 2.1 11.1 1.0
NE2 B:HIS155 2.2 9.3 1.0
O B:HOH690 2.2 11.2 1.0
CE1 B:HIS214 3.0 10.4 1.0
CD B:GLU267 3.1 10.7 1.0
CE1 B:HIS155 3.1 9.6 1.0
CD2 B:HIS155 3.2 10.8 1.0
CD2 B:HIS214 3.2 10.2 1.0
OE2 B:GLU267 3.5 12.7 1.0
NE2 B:HIS200 3.8 13.8 1.0
ND1 B:HIS214 4.2 12.9 1.0
OH B:TYR257 4.2 11.1 1.0
ND1 B:HIS155 4.3 11.1 1.0
CG B:HIS214 4.3 11.2 1.0
CG B:HIS155 4.3 10.7 1.0
CG B:GLU267 4.4 10.4 1.0
O B:HOH693 4.4 17.0 1.0
ND2 B:ASN157 4.4 12.5 1.0
CE1 B:HIS200 4.5 10.8 1.0
CB B:GLU267 4.5 10.7 1.0
CE1 B:TYR257 4.6 8.9 1.0
CB B:ASN157 4.6 11.6 1.0
CB B:ALA216 4.6 11.1 1.0
CZ B:TYR257 4.9 10.9 1.0
CD2 B:HIS200 5.0 13.0 1.0

Cobalt binding site 3 out of 4 in 3ojj

Go back to Cobalt Binding Sites List in 3ojj
Cobalt binding site 3 out of 4 in the Structure of Co-Substituted Homoprotocatechuate 2,3-Dioxygenase From B.Fuscum at 1.72 Ang Resolution


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Structure of Co-Substituted Homoprotocatechuate 2,3-Dioxygenase From B.Fuscum at 1.72 Ang Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Co500

b:14.0
occ:1.00
 OE1 C:GLU267 2.1 11.8 1.0
NE2 C:HIS214 2.1 10.9 1.0
O C:HOH636 2.1 5.2 1.0
O C:HOH637 2.2 11.7 1.0
NE2 C:HIS155 2.2 10.0 1.0
O C:HOH638 2.3 12.6 1.0
CE1 C:HIS214 3.0 13.6 1.0
CE1 C:HIS155 3.1 12.8 1.0
CD2 C:HIS214 3.1 12.3 1.0
CD C:GLU267 3.2 14.5 1.0
CD2 C:HIS155 3.2 14.7 1.0
OE2 C:GLU267 3.6 15.7 1.0
NE2 C:HIS200 3.9 12.6 1.0
ND1 C:HIS214 4.1 12.2 1.0
OH C:TYR257 4.2 12.3 1.0
CG C:HIS214 4.2 11.0 1.0
ND1 C:HIS155 4.3 13.4 1.0
CG C:HIS155 4.3 11.5 1.0
ND2 C:ASN157 4.4 14.6 1.0
O C:HOH639 4.4 14.1 1.0
CG C:GLU267 4.4 11.6 1.0
CE1 C:TYR257 4.5 10.7 1.0
CB C:GLU267 4.5 11.0 1.0
CE1 C:HIS200 4.6 12.6 1.0
CB C:ASN157 4.6 13.7 1.0
CB C:ALA216 4.6 11.4 1.0
CZ C:TYR257 4.8 12.0 1.0
CG C:ASN157 4.9 14.2 1.0
CD2 C:HIS200 5.0 12.4 1.0

Cobalt binding site 4 out of 4 in 3ojj

Go back to Cobalt Binding Sites List in 3ojj
Cobalt binding site 4 out of 4 in the Structure of Co-Substituted Homoprotocatechuate 2,3-Dioxygenase From B.Fuscum at 1.72 Ang Resolution


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 4 of Structure of Co-Substituted Homoprotocatechuate 2,3-Dioxygenase From B.Fuscum at 1.72 Ang Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Co500

b:13.8
occ:1.00
 OE1 D:GLU267 2.1 12.9 1.0
NE2 D:HIS214 2.1 9.4 1.0
O D:HOH673 2.1 6.5 1.0
NE2 D:HIS155 2.2 11.5 1.0
O D:HOH675 2.2 11.0 1.0
O D:HOH674 2.2 10.5 1.0
CE1 D:HIS214 3.0 10.4 1.0
CE1 D:HIS155 3.0 11.8 1.0
CD D:GLU267 3.1 13.2 1.0
CD2 D:HIS214 3.2 12.6 1.0
CD2 D:HIS155 3.2 9.9 1.0
OE2 D:GLU267 3.5 14.5 1.0
NE2 D:HIS200 3.9 11.9 1.0
OH D:TYR257 4.1 11.4 1.0
ND1 D:HIS214 4.2 10.9 1.0
ND1 D:HIS155 4.2 12.5 1.0
CG D:HIS214 4.3 10.4 1.0
CG D:HIS155 4.3 11.3 1.0
O D:HOH677 4.4 14.8 1.0
ND2 D:ASN157 4.4 13.0 1.0
CG D:GLU267 4.4 11.8 1.0
CE1 D:HIS200 4.6 14.9 1.0
CB D:ASN157 4.6 13.0 1.0
CE1 D:TYR257 4.6 10.0 1.0
CB D:GLU267 4.6 10.9 1.0
CB D:ALA216 4.6 11.8 1.0
CZ D:TYR257 4.8 10.9 1.0
CG D:ASN157 5.0 14.8 1.0
CD2 D:HIS200 5.0 13.7 1.0

Reference:

A.J.Fielding, E.G.Kovaleva, E.R.Farquhar, J.D.Lipscomb, L.Que. A Hyperactive Cobalt-Substituted Extradiol-Cleaving Catechol Dioxygenase. J.Biol.Inorg.Chem. V. 16 341 2011.
ISSN: ISSN 0949-8257
PubMed: 21153851
DOI: 10.1007/S00775-010-0732-0
Page generated: Tue Jul 30 16:23:04 2024

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