Zinc in PDB 3siy: Crystal Structure of A DUF1989 Family Protein (TM1040_0329) From Silicibacter Sp. TM1040 at 1.35 A Resolution

The structure of Crystal Structure of A DUF1989 Family Protein (TM1040_0329) From Silicibacter Sp. TM1040 at 1.35 A Resolution, PDB code: 3siy was solved by Joint Center For Structural Genomics (Jcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	58.80 / 1.35
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	118.907, 48.132, 144.732, 90.00, 98.44, 90.00
R / Rfree (%)	13.7 / 17.2

The structure of Crystal Structure of A DUF1989 Family Protein (TM1040_0329) From Silicibacter Sp. TM1040 at 1.35 A Resolution also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Chlorine	(Cl)	8 atoms

The binding sites of Zinc atom in the Crystal Structure of A DUF1989 Family Protein (TM1040_0329) From Silicibacter Sp. TM1040 at 1.35 A Resolution (pdb code 3siy). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of A DUF1989 Family Protein (TM1040_0329) From Silicibacter Sp. TM1040 at 1.35 A Resolution, PDB code: 3siy:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal Structure of A DUF1989 Family Protein (TM1040_0329) From Silicibacter Sp. TM1040 at 1.35 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of A DUF1989 Family Protein (TM1040_0329) From Silicibacter Sp. TM1040 at 1.35 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn300 b:8.2 occ:1.00 O A:HOH409 2.1 9.3 1.0 SG A:CYS207 2.3 9.9 1.0 SG A:CYS126 2.3 9.6 1.0 SG A:CYS143 2.3 8.2 1.0 CB A:CYS207 3.2 8.6 1.0 CB A:CYS143 3.3 7.9 1.0 CB A:CYS126 3.4 8.2 1.0 CA A:CYS207 3.6 8.4 1.0 CD A:PRO208 3.8 10.4 1.0 OD2 A:ASP66 3.8 9.4 1.0 O A:HOH804 3.9 14.4 1.0 N A:CYS126 3.9 8.4 1.0 N A:CYS143 4.0 8.6 1.0 O A:HOH826 4.2 19.1 1.0 OD1 A:ASP66 4.2 11.9 1.0 CA A:CYS143 4.2 8.0 1.0 CG A:ASP66 4.2 9.4 1.0 CA A:CYS126 4.3 8.7 1.0 N A:PRO208 4.3 10.3 1.0 C A:CYS207 4.4 9.1 1.0 OH A:TYR131 4.5 11.7 1.0 N A:CYS207 4.8 8.2 1.0 N A:MSE209 4.9 11.0 1.0 CG A:PRO208 5.0 12.4 1.0

Zinc binding site 2 out of 4 in the Crystal Structure of A DUF1989 Family Protein (TM1040_0329) From Silicibacter Sp. TM1040 at 1.35 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of A DUF1989 Family Protein (TM1040_0329) From Silicibacter Sp. TM1040 at 1.35 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn300 b:8.4 occ:1.00 O B:HOH410 2.1 10.5 1.0 SG B:CYS143 2.3 8.7 1.0 SG B:CYS207 2.3 10.6 1.0 SG B:CYS126 2.3 9.0 1.0 CB B:CYS143 3.3 8.3 1.0 CB B:CYS207 3.3 8.6 1.0 CB B:CYS126 3.5 8.3 1.0 CA B:CYS207 3.7 8.5 1.0 CD B:PRO208 3.8 11.1 1.0 OD2 B:ASP66 3.8 8.4 1.0 O B:HOH601 3.9 16.9 1.0 N B:CYS126 3.9 8.6 1.0 N B:CYS143 4.0 8.0 1.0 O B:HOH900 4.1 27.5 1.0 CA B:CYS143 4.2 7.3 1.0 CG B:ASP66 4.3 9.7 1.0 OD1 B:ASP66 4.3 13.9 1.0 CA B:CYS126 4.3 8.3 1.0 N B:PRO208 4.3 10.4 1.0 C B:CYS207 4.4 9.0 1.0 OH B:TYR131 4.5 12.3 1.0 N B:CYS207 4.9 8.4 1.0 N B:MSE209 4.9 10.8 1.0 CG B:PRO208 4.9 11.8 1.0

Zinc binding site 3 out of 4 in the Crystal Structure of A DUF1989 Family Protein (TM1040_0329) From Silicibacter Sp. TM1040 at 1.35 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of A DUF1989 Family Protein (TM1040_0329) From Silicibacter Sp. TM1040 at 1.35 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn300 b:9.4 occ:1.00 O C:HOH411 2.1 11.4 1.0 SG C:CYS207 2.3 11.9 1.0 SG C:CYS143 2.3 9.8 1.0 SG C:CYS126 2.3 10.5 1.0 CB C:CYS207 3.2 10.4 1.0 CB C:CYS143 3.3 8.6 1.0 CB C:CYS126 3.4 9.3 1.0 CA C:CYS207 3.6 9.8 1.0 OD2 C:ASP66 3.9 10.5 1.0 CD C:PRO208 3.9 12.2 1.0 N C:CYS126 3.9 8.5 1.0 O C:HOH937 3.9 20.9 1.0 N C:CYS143 4.0 9.6 1.0 O C:HOH739 4.2 28.5 1.0 CA C:CYS143 4.2 8.8 1.0 CA C:CYS126 4.2 9.4 1.0 CG C:ASP66 4.3 12.1 1.0 OD1 C:ASP66 4.4 16.3 1.0 N C:PRO208 4.4 11.5 1.0 C C:CYS207 4.4 11.2 1.0 OH C:TYR131 4.5 13.3 1.0 N C:CYS207 4.8 9.2 1.0 N C:MSE209 5.0 14.2 1.0

Zinc binding site 4 out of 4 in the Crystal Structure of A DUF1989 Family Protein (TM1040_0329) From Silicibacter Sp. TM1040 at 1.35 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of A DUF1989 Family Protein (TM1040_0329) From Silicibacter Sp. TM1040 at 1.35 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn300 b:9.2 occ:1.00 O D:HOH412 2.1 10.2 1.0 SG D:CYS207 2.3 11.1 1.0 SG D:CYS143 2.3 9.1 1.0 SG D:CYS126 2.3 10.3 1.0 CB D:CYS207 3.2 9.8 1.0 CB D:CYS143 3.3 8.6 1.0 CB D:CYS126 3.5 10.1 1.0 CA D:CYS207 3.7 10.0 1.0 CD D:PRO208 3.8 11.0 1.0 O D:HOH651 3.9 14.9 1.0 OD2 D:ASP66 3.9 10.9 1.0 N D:CYS126 3.9 8.6 1.0 N D:CYS143 4.0 9.4 1.0 OD1 D:ASP66 4.2 14.7 1.0 O D:HOH725 4.2 19.4 1.0 CG D:ASP66 4.2 10.4 1.0 CA D:CYS143 4.2 8.6 1.0 CA D:CYS126 4.3 9.1 1.0 N D:PRO208 4.3 11.0 1.0 C D:CYS207 4.4 10.6 1.0 OH D:TYR131 4.5 11.8 1.0 N D:CYS207 4.9 9.1 1.0 N D:MSE209 4.9 12.1 1.0 CG D:PRO208 4.9 11.9 1.0

Joint Center For Structural Genomics (Jcsg), Joint Center For Structural Genomics (Jcsg). N/A N/A.