Cadmium in PDB 8x8f: Crystal Structure of Lipoxygenase From Enhygromyxa Salina

The structure of Crystal Structure of Lipoxygenase From Enhygromyxa Salina, PDB code: 8x8f was solved by J.W.Kim, P.W.Seo, J.S.Kim, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.61 / 2.80
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	164.726, 248.59, 164.089, 90, 119.86, 90
R / Rfree (%)	22.7 / 25.4

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>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40; Page 5, Binding sites: 41 - 48;

Binding sites:

The binding sites of Cadmium atom in the Crystal Structure of Lipoxygenase From Enhygromyxa Salina (pdb code 8x8f). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 48 binding sites of Cadmium where determined in the Crystal Structure of Lipoxygenase From Enhygromyxa Salina, PDB code: 8x8f:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Cadmium binding site 1 out of 48 in the Crystal Structure of Lipoxygenase From Enhygromyxa Salina


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 Lipoxygenase From Enhygromyxa Salina within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd701 b:69.1 occ:1.00 O A:ILE650 2.5 43.6 1.0 NE2 A:HIS346 2.6 38.4 1.0 NE2 A:HIS351 2.8 39.2 1.0 NE2 A:HIS527 2.9 37.1 1.0 OD1 A:ASN531 3.1 42.3 1.0 CE1 A:HIS346 3.2 38.6 1.0 C A:ILE650 3.3 43.8 1.0 OXT A:ILE650 3.3 43.7 1.0 CG A:ASN531 3.4 41.7 1.0 CD2 A:HIS351 3.4 39.1 1.0 CD2 A:HIS527 3.6 36.6 1.0 CB A:ASN531 3.6 41.2 1.0 CD2 A:HIS346 3.7 38.0 1.0 CE1 A:HIS527 3.9 37.0 1.0 CE1 A:HIS351 3.9 39.4 1.0 ND2 A:ASN531 4.2 41.9 1.0 ND1 A:HIS346 4.4 38.8 1.0 CA A:ASN531 4.5 41.0 1.0 NE2 A:GLN534 4.6 41.2 1.0 CG A:HIS346 4.7 37.9 1.0 CG A:HIS351 4.7 38.4 1.0 CA A:ILE650 4.7 43.5 1.0 CG2 A:ILE648 4.8 27.3 1.0 CG A:HIS527 4.9 36.8 1.0 N A:ILE650 4.9 42.1 1.0 ND1 A:HIS351 4.9 38.9 1.0 ND1 A:HIS527 5.0 37.3 1.0

Cadmium binding site 2 out of 48 in the Crystal Structure of Lipoxygenase From Enhygromyxa Salina


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 Lipoxygenase From Enhygromyxa Salina within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd702 b:45.9 occ:1.00 OD1 A:ASP11 2.7 34.4 1.0 OD2 A:ASP11 2.7 34.5 1.0 O A:HOH860 2.8 28.5 1.0 O A:HOH820 2.9 44.1 1.0 O A:HOH841 2.9 27.5 1.0 CD2 A:HIS368 2.9 43.6 1.0 CG A:ASP11 3.1 34.1 1.0 CG A:HIS368 3.6 44.1 1.0 NE2 A:HIS368 3.9 45.1 1.0 CB A:HIS368 4.0 43.0 1.0 CG A:ARG13 4.3 41.7 1.0 CB A:ASP11 4.5 34.8 1.0 OE1 A:GLN16 4.6 57.1 1.0 CG2 A:THR6 4.7 42.4 1.0 CD A:PRO12 4.7 52.2 1.0 O B:HOH823 4.7 30.1 1.0 ND1 A:HIS368 4.7 45.7 1.0 O A:ARG13 4.8 44.0 1.0 CE1 A:HIS368 4.8 46.4 1.0 CG A:PRO12 5.0 52.5 1.0 NH1 A:ARG17 5.0 45.0 1.0

Cadmium binding site 3 out of 48 in the Crystal Structure of Lipoxygenase From Enhygromyxa Salina


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 Lipoxygenase From Enhygromyxa Salina within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd703 b:96.9 occ:1.00 NE2 A:HIS583 3.0 54.4 1.0 O A:HOH883 3.6 28.1 1.0 CD2 A:HIS583 3.8 54.2 1.0 CE1 A:HIS583 3.9 54.8 1.0 O A:GLY580 4.0 45.4 1.0 CD A:LYS535 4.5 41.3 1.0 OD1 A:ASP536 4.6 51.0 1.0 OD2 A:ASP536 4.7 52.3 1.0 CD1 A:PHE532 4.8 37.3 1.0 CG A:HIS583 4.9 54.5 1.0 CA A:GLY581 4.9 39.0 1.0 ND1 A:HIS583 4.9 54.5 1.0

Cadmium binding site 4 out of 48 in the Crystal Structure of Lipoxygenase From Enhygromyxa Salina


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 Lipoxygenase From Enhygromyxa Salina within 5.0Å range: probe atom residue distance (Å) B Occ A:Cd704 b:132.1 occ:1.00 ND1 A:HIS412 3.2 43.4 1.0 O A:HOH869 3.9 43.8 1.0 CE1 A:HIS412 4.1 43.4 1.0 CG A:HIS412 4.1 43.2 1.0 CB A:HIS412 4.3 43.4 1.0 CD A:PRO35 4.7 55.7 1.0

Cadmium binding site 5 out of 48 in the Crystal Structure of Lipoxygenase From Enhygromyxa Salina


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 Lipoxygenase From Enhygromyxa Salina within 5.0Å range: probe atom residue distance (Å) B Occ B:Cd701 b:75.5 occ:1.00 NE2 B:HIS346 2.6 43.9 1.0 O B:ILE650 2.6 45.1 1.0 OXT B:ILE650 2.7 43.2 1.0 NE2 B:HIS527 2.8 37.9 1.0 NE2 B:HIS351 2.8 45.3 1.0 ND2 B:ASN531 3.0 39.5 1.0 C B:ILE650 3.0 44.0 1.0 CG B:ASN531 3.3 39.0 1.0 CD2 B:HIS351 3.4 44.4 1.0 CE1 B:HIS346 3.4 43.9 1.0 CD2 B:HIS527 3.5 37.2 1.0 CB B:ASN531 3.5 37.4 1.0 CD2 B:HIS346 3.6 43.1 1.0 CE1 B:HIS527 3.8 37.8 1.0 CE1 B:HIS351 4.0 45.0 1.0 OD1 B:ASN531 4.1 39.4 1.0 OE1 B:GLN534 4.5 44.2 1.0 CA B:ASN531 4.5 36.8 1.0 CA B:ILE650 4.5 44.6 1.0 ND1 B:HIS346 4.6 43.6 1.0 CG B:HIS351 4.7 44.4 1.0 CG B:HIS527 4.7 36.8 1.0 CG B:HIS346 4.7 42.8 1.0 ND1 B:HIS527 4.8 37.8 1.0 CG2 B:ILE648 4.8 30.8 1.0 ND1 B:HIS351 4.9 45.8 1.0

Cadmium binding site 6 out of 48 in the Crystal Structure of Lipoxygenase From Enhygromyxa Salina


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 Lipoxygenase From Enhygromyxa Salina within 5.0Å range: probe atom residue distance (Å) B Occ B:Cd702 b:51.9 occ:1.00 OD2 B:ASP11 2.7 38.0 1.0 OD1 B:ASP11 2.7 38.7 1.0 O B:HOH844 2.8 42.5 1.0 O B:HOH842 2.9 34.8 1.0 CD2 B:HIS368 3.0 74.1 1.0 CG B:ASP11 3.1 38.7 1.0 NE2 B:HIS368 3.5 75.4 1.0 CG B:HIS368 3.7 73.8 1.0 CB B:HIS368 4.3 72.3 1.0 CE1 B:HIS368 4.4 78.8 1.0 ND1 B:HIS368 4.4 77.5 1.0 CD B:PRO12 4.6 49.8 1.0 CB B:ASP11 4.6 39.7 1.0 CB B:ARG13 4.7 55.7 1.0 O B:ARG13 4.7 55.9 1.0 CG2 B:THR6 4.8 45.5 1.0 CG B:PRO12 4.8 50.0 1.0 N B:ARG13 4.8 54.9 1.0 CG B:ARG13 5.0 55.3 1.0 NH1 B:ARG17 5.0 63.0 1.0

Cadmium binding site 7 out of 48 in the Crystal Structure of Lipoxygenase From Enhygromyxa Salina


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 Lipoxygenase From Enhygromyxa Salina within 5.0Å range: probe atom residue distance (Å) B Occ B:Cd703 b:85.2 occ:1.00 NE2 B:HIS583 2.9 59.9 1.0 O B:HOH856 3.1 57.9 1.0 CD2 B:HIS583 3.6 58.8 1.0 CE1 B:HIS583 3.9 58.4 1.0 O B:GLY580 4.3 53.3 1.0 OD2 B:ASP536 4.3 68.6 1.0 CD B:LYS535 4.5 49.7 1.0 OD1 B:ASP536 4.5 69.3 1.0 CG B:HIS583 4.8 59.3 1.0 CD1 B:PHE532 4.8 40.0 1.0 CG B:ASP536 4.9 68.7 1.0 ND1 B:HIS583 4.9 58.6 1.0

Cadmium binding site 8 out of 48 in the Crystal Structure of Lipoxygenase From Enhygromyxa Salina


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 Lipoxygenase From Enhygromyxa Salina within 5.0Å range: probe atom residue distance (Å) B Occ B:Cd704 b:133.1 occ:1.00 ND1 B:HIS412 3.2 44.4 1.0 CG B:HIS412 3.8 43.3 1.0 CB B:HIS412 3.9 42.7 1.0 CA B:GLU409 4.1 69.0 1.0 CE1 B:HIS412 4.1 44.2 1.0 CB B:GLU409 4.3 72.4 1.0 O B:GLU409 4.5 68.3 1.0 NE2 B:GLN413 4.5 41.4 1.0 OE1 B:GLU409 4.6 76.3 1.0 O B:ILE408 4.7 56.4 1.0 C B:GLU409 4.8 67.8 1.0 CD2 B:HIS412 4.8 43.8 1.0 NE2 B:HIS412 4.9 43.9 1.0 N B:GLU409 5.0 68.3 1.0

Cadmium binding site 9 out of 48 in the Crystal Structure of Lipoxygenase From Enhygromyxa Salina


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 Lipoxygenase From Enhygromyxa Salina within 5.0Å range: probe atom residue distance (Å) B Occ C:Cd701 b:64.1 occ:1.00 O C:ILE650 2.7 36.4 1.0 NE2 C:HIS346 2.7 41.1 1.0 NE2 C:HIS351 2.7 40.9 1.0 NE2 C:HIS527 2.8 41.9 1.0 ND2 C:ASN531 2.9 32.2 1.0 OXT C:ILE650 2.9 36.0 1.0 C C:ILE650 3.2 37.0 1.0 CG C:ASN531 3.4 32.0 1.0 CE1 C:HIS346 3.5 42.4 1.0 CD2 C:HIS351 3.5 40.9 1.0 CD2 C:HIS527 3.7 41.5 1.0 CE1 C:HIS527 3.8 42.5 1.0 CE1 C:HIS351 3.8 40.5 1.0 CD2 C:HIS346 3.8 39.6 1.0 CB C:ASN531 3.9 30.9 1.0 OD1 C:ASN531 4.2 32.6 1.0 CG2 C:ILE648 4.7 33.3 1.0 ND1 C:HIS346 4.7 42.4 1.0 CA C:ILE650 4.7 38.7 1.0 CG C:HIS351 4.7 40.6 1.0 ND1 C:HIS351 4.8 40.8 1.0 CG C:HIS346 4.9 40.1 1.0 ND1 C:HIS527 4.9 42.6 1.0 CG C:HIS527 4.9 41.5 1.0 CA C:ASN531 4.9 31.2 1.0

Cadmium binding site 10 out of 48 in the Crystal Structure of Lipoxygenase From Enhygromyxa Salina


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 Lipoxygenase From Enhygromyxa Salina within 5.0Å range: probe atom residue distance (Å) B Occ C:Cd702 b:47.2 occ:1.00 OD1 C:ASP11 2.7 28.4 1.0 ND1 C:HIS368 2.8 50.3 1.0 OD2 C:ASP11 2.8 28.3 1.0 O C:HOH803 2.9 69.8 1.0 CG C:ASP11 3.1 28.3 1.0 CE1 C:HIS368 3.4 51.7 1.0 CG C:HIS368 3.7 50.2 1.0 CB C:HIS368 4.1 47.8 1.0 O C:ARG13 4.3 43.0 1.0 NH1 C:ARG17 4.4 36.6 1.0 NE2 C:HIS368 4.4 51.6 1.0 CB C:ARG13 4.4 43.2 1.0 CG2 C:THR6 4.6 41.5 1.0 CD C:PRO12 4.6 62.1 1.0 CD2 C:HIS368 4.6 51.6 1.0 CB C:ASP11 4.6 28.4 1.0 N C:ARG13 4.7 43.2 1.0 OE1 C:GLN16 4.7 57.5 1.0 C C:ARG13 4.9 43.3 1.0 CA C:ARG13 4.9 43.8 1.0

J.W.Kim, P.W.Seo. Crystal Structure of Lipoxygenase From Enhygromyxa Salina To Be Published.