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Cobalt in PDB 7zd2: Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions.

Enzymatic activity of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions.

All present enzymatic activity of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions.:
3.3.1.1;

Protein crystallography data

The structure of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions., PDB code: 7zd2 was solved by P.H.Malecki, M.Gawel, K.Brzezinski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.32 / 2.16
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 177.15, 134.21, 109.61, 90, 106.08, 90
R / Rfree (%) 18 / 22.7

Other elements in 7zd2:

The structure of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions. also contains other interesting chemical elements:

Potassium (K) 4 atoms
Chlorine (Cl) 1 atom

Cobalt Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 15;

Binding sites:

The binding sites of Cobalt atom in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions. (pdb code 7zd2). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 15 binding sites of Cobalt where determined in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions., PDB code: 7zd2:
Jump to Cobalt binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Cobalt binding site 1 out of 15 in 7zd2

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Cobalt binding site 1 out of 15 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co505

b:39.6
occ:0.45
 O A:ASP139 2.1 29.8 1.0
NE2 A:HIS323 2.2 42.2 1.0
SG A:CYS85 2.3 27.6 1.0
OD1 A:ASP139 2.4 33.2 1.0
C A:ASP139 2.8 28.1 1.0
CG A:ASP139 2.9 28.3 1.0
CD2 A:HIS323 3.1 32.4 1.0
CB A:CYS85 3.2 29.2 1.0
CB A:ASP139 3.2 28.6 1.0
CE1 A:HIS323 3.3 39.9 1.0
CA A:ASP139 3.6 25.6 1.0
O5' A:ADN502 3.6 35.8 1.0
N A:GLY140 3.7 24.4 1.0
NE2 A:HIS61 3.7 29.4 1.0
OD2 A:ASP139 3.8 30.9 1.0
CE1 A:HIS61 3.9 26.8 1.0
CA A:GLY140 4.0 26.5 1.0
O A:CYS85 4.2 30.8 1.0
O A:HOH722 4.2 35.5 1.0
O A:HOH658 4.2 39.4 1.0
CG A:HIS323 4.3 43.1 1.0
ND1 A:HIS323 4.3 43.1 1.0
O A:HOH796 4.4 37.0 1.0
CA A:CYS85 4.5 30.3 1.0
CD2 A:HIS61 4.5 24.8 1.0
C A:CYS85 4.6 32.8 1.0
N A:ASP139 4.6 26.3 1.0
ND1 A:HIS61 4.8 25.1 1.0
C5' A:ADN502 4.9 34.1 1.0

Cobalt binding site 2 out of 15 in 7zd2

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Cobalt binding site 2 out of 15 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co506

b:67.2
occ:0.95
 O A:HOH840 2.0 48.0 1.0
O A:HOH908 2.0 41.4 1.0
O A:HOH898 2.3 54.5 1.0
NE2 A:HIS400 2.4 49.1 1.0
O A:HOH1020 2.6 62.7 1.0
O A:HOH989 2.9 57.6 1.0
CE1 A:HIS400 3.3 53.1 1.0
CD2 A:HIS400 3.4 40.3 1.0
O A:HOH851 3.6 42.6 1.0
O A:HOH929 3.7 47.6 1.0
O A:HOH770 4.0 57.1 1.0
O A:HOH945 4.0 49.8 1.0
OE1 A:GLN404 4.2 36.7 1.0
ND1 A:HIS400 4.4 50.3 1.0
CG A:HIS400 4.5 43.1 1.0
OE1 A:GLU421 4.5 53.0 1.0
O A:HOH739 4.7 42.3 1.0
O A:HOH657 4.7 27.4 0.6
CD A:GLN404 4.9 35.4 1.0
O A:HOH822 5.0 32.2 1.0

Cobalt binding site 3 out of 15 in 7zd2

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Cobalt binding site 3 out of 15 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co507

b:56.6
occ:0.83
 O A:HOH634 2.0 45.2 1.0
OD2 A:ASP174 2.2 56.2 1.0
O D:HOH740 2.3 51.4 1.0
NE2 A:HIS170 2.6 48.3 1.0
O A:HOH952 2.6 44.1 1.0
O A:HOH847 3.0 55.7 1.0
CG A:ASP174 3.4 51.2 1.0
CD2 A:HIS170 3.4 41.2 1.0
CE1 A:HIS170 3.6 50.8 1.0
O D:TYR453 3.7 42.6 1.0
OD1 A:ASP174 3.9 56.8 1.0
O D:HOH736 4.3 54.0 1.0
CB A:ASP174 4.5 42.3 1.0
O A:HOH1017 4.6 38.8 0.5
CG A:HIS170 4.6 43.1 1.0
ND1 A:HIS170 4.7 47.0 1.0
C D:TYR453 4.7 34.0 1.0
O D:GLU452 4.8 34.8 1.0

Cobalt binding site 4 out of 15 in 7zd2

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Cobalt binding site 4 out of 15 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 4 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co508

b:73.8
occ:0.69
 ND1 A:HIS170 2.9 47.0 1.0
O A:HOH835 3.1 46.6 1.0
O D:HOH911 3.2 52.1 1.0
O A:HOH958 3.2 56.2 1.0
O D:HOH841 3.4 50.5 1.0
O D:HOH996 3.6 54.3 1.0
CE1 A:HIS170 3.7 50.8 1.0
CG A:HIS170 3.8 43.1 1.0
O A:HOH1049 4.0 44.7 1.0
CB A:HIS170 4.0 31.4 1.0
CA A:HIS170 4.2 33.3 1.0
O A:HOH1041 4.4 45.9 1.0
O D:ILE454 4.5 39.9 1.0
CD1 A:LEU173 4.7 37.7 1.0
NE2 A:HIS170 4.8 48.3 1.0
CD2 A:HIS170 4.8 41.2 1.0
O A:HIS170 5.0 30.9 1.0
O A:HOH971 5.0 35.8 1.0

Cobalt binding site 5 out of 15 in 7zd2

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Cobalt binding site 5 out of 15 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 5 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co505

b:53.1
occ:0.55
 O B:ASP139 2.1 38.8 1.0
NE2 B:HIS323 2.2 52.9 1.0
SG B:CYS85 2.3 38.4 1.0
OD1 B:ASP139 2.5 44.2 1.0
C B:ASP139 2.9 38.8 1.0
CG B:ASP139 3.0 41.4 1.0
CD2 B:HIS323 3.0 45.7 1.0
CB B:CYS85 3.2 38.9 1.0
CE1 B:HIS323 3.3 55.6 1.0
CB B:ASP139 3.3 35.8 1.0
NE2 B:HIS61 3.6 38.2 1.0
CA B:ASP139 3.7 37.5 1.0
O5' B:ADN502 3.7 46.4 1.0
N B:GLY140 3.8 36.1 1.0
CE1 B:HIS61 3.8 32.7 1.0
OD2 B:ASP139 3.9 42.2 1.0
CA B:GLY140 4.0 38.9 1.0
O B:CYS85 4.1 37.3 1.0
O B:HOH649 4.2 43.0 1.0
CG B:HIS323 4.3 50.2 1.0
O B:HOH791 4.3 44.8 1.0
ND1 B:HIS323 4.3 51.7 1.0
CA B:CYS85 4.4 42.3 1.0
CD2 B:HIS61 4.5 35.4 1.0
C B:CYS85 4.5 39.5 1.0
O B:HOH769 4.5 44.5 1.0
N B:ASP139 4.7 38.5 1.0
ND1 B:HIS61 4.7 32.6 1.0
C5' B:ADN502 5.0 34.6 1.0

Cobalt binding site 6 out of 15 in 7zd2

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Cobalt binding site 6 out of 15 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 6 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co506

b:77.8
occ:1.00
 O B:HOH849 2.4 61.0 1.0
NE2 B:HIS400 2.4 66.0 1.0
O B:HOH880 2.5 60.5 1.0
O B:HOH873 2.5 64.4 1.0
O B:HOH874 2.7 63.2 1.0
CD2 B:HIS400 3.2 59.3 1.0
OE2 B:GLU421 3.4 77.3 1.0
CE1 B:HIS400 3.5 70.5 1.0
OE1 B:GLN404 3.8 69.8 1.0
CG B:HIS400 4.4 64.7 1.0
CD B:GLU421 4.5 71.8 1.0
ND1 B:HIS400 4.5 74.4 1.0
O B:HOH808 4.5 53.2 1.0
CD B:GLN404 4.6 70.1 1.0
O B:HOH762 4.6 61.0 1.0
O B:HOH923 4.8 66.8 1.0
O B:HOH798 4.8 55.4 1.0
OE1 B:GLU421 4.9 62.2 1.0

Cobalt binding site 7 out of 15 in 7zd2

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Cobalt binding site 7 out of 15 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 7 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co507

b:82.7
occ:1.00
 OD2 B:ASP174 2.1 64.6 1.0
NE2 B:HIS170 2.8 55.4 1.0
O C:HOH898 2.8 45.7 1.0
O C:HOH1015 3.0 51.0 1.0
CG B:ASP174 3.3 58.5 1.0
CD2 B:HIS170 3.6 49.7 1.0
O C:TYR453 3.8 48.4 1.0
OD1 B:ASP174 3.8 63.9 1.0
CE1 B:HIS170 3.8 55.2 1.0
O C:HOH845 4.0 54.4 1.0
CB B:ASP174 4.4 50.5 1.0
O C:GLU452 4.6 47.7 1.0
C C:TYR453 4.7 43.7 1.0
CG B:HIS170 4.8 53.5 1.0
ND1 B:HIS170 4.9 63.5 1.0

Cobalt binding site 8 out of 15 in 7zd2

Go back to Cobalt Binding Sites List in 7zd2
Cobalt binding site 8 out of 15 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 8 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co508

b:77.7
occ:1.00
 NE2 B:HIS360 2.5 43.1 1.0
O B:HOH898 2.6 54.2 1.0
CD2 B:HIS360 3.1 36.9 1.0
O A:HOH965 3.2 52.3 1.0
CE1 B:HIS360 3.6 45.2 1.0
O B:HOH964 4.0 45.2 1.0
CG B:HIS360 4.3 41.5 1.0
ND1 B:HIS360 4.5 44.3 1.0

Cobalt binding site 9 out of 15 in 7zd2

Go back to Cobalt Binding Sites List in 7zd2
Cobalt binding site 9 out of 15 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 9 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Co507

b:41.3
occ:0.45
 NE2 C:HIS323 2.2 44.1 1.0
O C:ASP139 2.2 33.2 1.0
SG C:CYS85 2.4 33.3 1.0
OD1 C:ASP139 2.5 38.2 1.0
C C:ASP139 2.9 29.8 1.0
CD2 C:HIS323 3.0 33.7 1.0
CG C:ASP139 3.0 33.3 1.0
CB C:CYS85 3.2 30.6 1.0
CE1 C:HIS323 3.3 45.6 1.0
CB C:ASP139 3.4 26.3 1.0
NE2 C:HIS61 3.6 30.0 1.0
N C:GLY140 3.7 27.2 1.0
CA C:ASP139 3.8 27.1 1.0
CE1 C:HIS61 3.9 31.4 1.0
OD2 C:ASP139 3.9 38.3 1.0
O C:HOH892 3.9 39.6 1.0
CA C:GLY140 3.9 27.6 1.0
O5' C:ADN502 3.9 51.1 1.0
O C:HOH635 4.1 35.9 1.0
O C:HOH700 4.2 42.4 1.0
O C:CYS85 4.2 32.9 1.0
CG C:HIS323 4.2 41.1 1.0
ND1 C:HIS323 4.3 44.0 1.0
CA C:CYS85 4.5 30.6 1.0
CD2 C:HIS61 4.5 27.5 1.0
C C:CYS85 4.6 33.2 1.0
N C:ASP139 4.8 29.1 1.0
ND1 C:HIS61 4.8 25.8 1.0
C5' C:ADN502 5.0 43.4 1.0

Cobalt binding site 10 out of 15 in 7zd2

Go back to Cobalt Binding Sites List in 7zd2
Cobalt binding site 10 out of 15 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 10 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Co508

b:62.2
occ:0.85
 O C:HOH793 2.0 41.0 1.0
O C:HOH917 2.1 50.0 1.0
O C:HOH797 2.2 47.3 1.0
NE2 C:HIS400 2.4 51.6 1.0
O C:HOH1001 2.4 50.7 1.0
O C:HOH944 2.6 60.8 1.0
CE1 C:HIS400 3.3 51.8 1.0
CD2 C:HIS400 3.3 44.0 1.0
O C:HOH855 3.8 42.9 1.0
O C:HOH946 3.9 48.5 1.0
OE1 C:GLN404 4.1 36.1 1.0
ND1 C:HIS400 4.4 46.5 1.0
O C:HOH787 4.4 39.9 1.0
CG C:HIS400 4.4 42.0 1.0
OE1 C:GLU421 4.6 58.3 1.0
O C:HOH865 4.6 50.5 1.0
CD C:GLN404 4.8 44.4 1.0

Reference:

P.H.Malecki, M.Gawel, K.Brzezinski. Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CO2+ Ions. To Be Published.
Page generated: Tue Apr 25 19:34:04 2023

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