Cadmium in PDB 7zd0: Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions

All present enzymatic activity of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions:
3.3.1.1;

The structure of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions, PDB code: 7zd0 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)	44.10 / 1.87
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	176.97, 134.16, 108.88, 90, 106.06, 90
R / Rfree (%)	14.7 / 16.2

The structure of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions also contains other interesting chemical elements:

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

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 21;

Binding sites:

The binding sites of Cadmium atom in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions (pdb code 7zd0). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 21 binding sites of Cadmium where determined in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions, PDB code: 7zd0:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Cadmium binding site 1 out of 21 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd508 b:31.0 occ:0.90 OD1 A:ASP139 2.3 28.9 1.0 NE2 A:HIS323 2.4 27.5 1.0 O A:ASP139 2.5 29.0 1.0 SG A:CYS85 2.5 29.9 1.0 O A:HOH601 2.5 38.2 1.0 O A:HOH834 2.6 37.0 1.0 CD2 A:HIS323 3.2 31.4 1.0 CB A:CYS85 3.3 28.0 1.0 CG A:ASP139 3.3 34.0 1.0 C A:ASP139 3.3 27.0 1.0 CE1 A:HIS323 3.4 38.9 1.0 O5' A:ADN502 3.5 29.5 1.0 CB A:ASP139 3.6 30.1 1.0 O A:CYS85 3.8 33.2 1.0 O A:HOH769 4.0 41.2 1.0 CA A:ASP139 4.1 32.8 1.0 NE2 A:HIS61 4.1 30.7 1.0 O A:HOH772 4.1 36.0 1.0 CE1 A:HIS61 4.1 26.0 1.0 N A:GLY140 4.1 27.3 1.0 CA A:GLY140 4.3 28.5 1.0 C A:CYS85 4.3 39.9 1.0 OD2 A:ASP139 4.4 37.1 1.0 CG A:HIS323 4.4 35.2 1.0 CA A:CYS85 4.4 35.4 1.0 ND1 A:HIS323 4.4 34.7 1.0 C5' A:ADN502 4.9 28.5 1.0

Cadmium binding site 2 out of 21 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd509 b:49.8 occ:0.65 O D:TYR453 2.5 37.7 1.0 NE2 A:HIS170 2.6 51.0 1.0 O D:HOH860 2.6 48.3 1.0 O D:HOH931 2.6 63.3 1.0 O A:HOH942 2.7 59.8 1.0 O A:HOH1013 3.1 61.9 1.0 CD2 A:HIS170 3.4 41.7 1.0 C D:TYR453 3.5 34.6 1.0 CE1 A:HIS170 3.7 45.8 1.0 CA D:TYR453 4.2 34.5 1.0 O D:GLU452 4.5 34.9 1.0 N D:ILE454 4.5 33.0 1.0 CG A:HIS170 4.6 39.7 1.0 CA D:ILE454 4.7 34.5 1.0 ND1 A:HIS170 4.7 44.2 1.0 CG D:TYR453 4.8 34.2 1.0 O A:HOH989 4.9 68.2 1.0 CD2 D:TYR453 4.9 31.9 1.0 CD1 D:TYR453 5.0 35.8 1.0

Cadmium binding site 3 out of 21 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd510 b:73.6 occ:0.35 NE2 A:HIS400 2.7 60.4 1.0 O A:HOH973 3.1 60.0 1.0 O A:HOH944 3.2 56.7 1.0 CE1 A:HIS400 3.2 63.8 1.0 O A:HOH882 3.9 45.0 1.0 CD2 A:HIS400 3.9 51.2 1.0 OE1 A:GLU421 4.2 71.1 1.0 OE1 A:GLN404 4.4 59.8 1.0 ND1 A:HIS400 4.5 58.8 1.0 CG A:HIS400 4.9 52.8 1.0 O A:HOH893 4.9 44.9 1.0

Cadmium binding site 4 out of 21 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd511 b:100.2 occ:0.45 O A:HOH729 2.7 68.9 1.0 OD1 A:ASP358 2.7 66.6 1.0 OD2 A:ASP358 3.0 78.6 1.0 CG A:ASP358 3.2 70.1 1.0 CB A:HIS360 3.6 64.7 1.0 CD2 A:HIS360 3.8 65.1 1.0 CG A:HIS360 4.0 66.4 1.0 N A:HIS360 4.3 58.2 1.0 CA A:HIS360 4.6 54.1 1.0 CB A:ASP358 4.8 63.7 1.0 O A:HOH965 5.0 68.0 1.0 NE2 A:HIS360 5.0 72.4 1.0

Cadmium binding site 5 out of 21 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd512 b:91.3 occ:0.50 O A:HOH605 2.8 58.2 1.0 O A:HOH950 3.0 60.0 1.0 O A:HOH646 3.1 63.2 1.0 OE1 A:GLU403 3.4 60.8 1.0 O A:HOH1037 3.5 58.9 1.0 O A:HOH946 3.8 46.5 1.0 O A:HOH1061 4.4 57.0 1.0 CD A:GLU403 4.5 63.9 1.0 CG2 A:ILE399 4.9 33.8 1.0 OE2 A:GLU403 5.0 58.5 1.0

Cadmium binding site 6 out of 21 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 6 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions within 5.0Å range: probe atom residue distance (Å) B Occ B:Cd505 b:39.7 occ:0.85 NE2 B:HIS323 2.4 36.5 1.0 OD1 B:ASP139 2.5 39.3 1.0 O B:ASP139 2.5 35.8 1.0 O B:HOH605 2.6 43.1 1.0 SG B:CYS85 2.6 40.1 1.0 O B:HOH733 2.7 45.0 1.0 CB B:CYS85 3.3 35.4 1.0 C B:ASP139 3.3 34.3 1.0 CG B:ASP139 3.3 40.3 1.0 CE1 B:HIS323 3.4 43.4 1.0 CD2 B:HIS323 3.4 40.9 1.0 CB B:ASP139 3.6 34.3 1.0 O5' B:ADN502 3.6 33.6 1.0 O B:CYS85 3.9 42.0 1.0 O B:HOH665 4.0 36.7 0.5 CA B:ASP139 4.1 35.7 1.0 NE2 B:HIS61 4.1 35.8 1.0 O B:HOH758 4.1 45.8 1.0 N B:GLY140 4.1 36.6 1.0 CE1 B:HIS61 4.2 34.7 1.0 CA B:GLY140 4.3 40.3 1.0 C B:CYS85 4.3 47.8 1.0 OD2 B:ASP139 4.4 52.6 1.0 CA B:CYS85 4.4 42.8 1.0 ND1 B:HIS323 4.5 39.4 1.0 CG B:HIS323 4.5 38.2 1.0 C5' B:ADN502 4.9 30.4 1.0 CD2 B:HIS61 5.0 37.8 1.0 N B:ASP139 5.0 36.1 1.0

Cadmium binding site 7 out of 21 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 7 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions within 5.0Å range: probe atom residue distance (Å) B Occ B:Cd506 b:92.1 occ:0.45 CE1 B:HIS400 2.8 64.8 1.0 NE2 B:HIS400 3.2 69.0 1.0 OE1 B:GLN404 4.0 70.9 1.0 ND1 B:HIS400 4.1 65.9 1.0 O B:HOH752 4.4 63.3 1.0 CD2 B:HIS400 4.6 63.9 1.0 CG B:HIS400 5.0 58.7 1.0

Cadmium binding site 8 out of 21 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 8 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions within 5.0Å range: probe atom residue distance (Å) B Occ B:Cd507 b:58.6 occ:0.45 CD B:CD507 0.0 58.6 0.5 O C:TYR453 2.5 53.0 1.0 CD B:CD507 2.5 74.8 0.3 NE2 B:HIS170 2.7 60.2 1.0 O C:HOH953 2.9 67.1 1.0 CD2 B:HIS170 3.4 55.7 1.0 C C:TYR453 3.6 45.4 1.0 CE1 B:HIS170 3.8 60.8 1.0 CA C:TYR453 4.3 42.4 1.0 O C:GLU452 4.6 44.3 1.0 CG B:HIS170 4.7 51.1 1.0 N C:ILE454 4.7 41.4 1.0 CG C:TYR453 4.7 46.4 1.0 CD1 C:TYR453 4.8 50.3 1.0 CA C:ILE454 4.8 44.7 1.0 ND1 B:HIS170 4.9 59.8 1.0 CD2 C:TYR453 4.9 38.0 1.0

Cadmium binding site 9 out of 21 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 9 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions within 5.0Å range: probe atom residue distance (Å) B Occ B:Cd507 b:74.8 occ:0.30 CD B:CD507 0.0 74.8 0.3 CD B:CD507 2.5 58.6 0.5 O C:HOH953 2.8 67.1 1.0 OD1 B:ASP174 3.0 77.6 1.0 CG B:ASP174 3.3 76.7 1.0 NE2 B:HIS170 3.4 60.2 1.0 OD2 B:ASP174 3.8 75.4 1.0 CB B:ASP174 3.9 53.5 1.0 O B:HOH883 4.1 67.7 1.0 CE1 B:HIS170 4.1 60.8 1.0 CD2 B:HIS170 4.2 55.7 1.0 O C:TYR453 4.4 53.0 1.0 O C:GLU452 4.9 44.3 1.0

Cadmium binding site 10 out of 21 in the Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 10 of Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions within 5.0Å range: probe atom residue distance (Å) B Occ B:Cd508 b:96.1 occ:0.45 O B:HOH869 3.0 75.2 1.0 OE1 B:GLU403 3.2 68.0 1.0 O B:HOH918 3.3 67.4 1.0 CD B:GLU403 4.4 71.5 1.0 CD2 B:HIS400 4.7 63.9 1.0 OE2 B:GLU403 4.8 68.3 1.0 CG2 B:ILE399 4.9 44.8 1.0

P.H.Malecki, M.Gawel, K.Brzezinski. Crystal Structure of Pseudomonas Aeruginosa S-Adenosyl-L-Homocysteine Hydrolase Inhibited By CD2+ Ions To Be Published.