Zinc in PDB 5fgs: Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group

The structure of Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group, PDB code: 5fgs was solved by P.Chaurasia, S.Pratap, I.Von Ossowski, A.Palva, V.Krishnan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.17 / 2.00
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	57.070, 74.343, 116.777, 90.00, 90.00, 90.00
R / Rfree (%)	21.7 / 25

The binding sites of Zinc atom in the Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group (pdb code 5fgs). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 9 binding sites of Zinc where determined in the Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group, PDB code: 5fgs:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Zinc binding site 1 out of 9 in the Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group


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 C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:37.6 occ:1.00 OD2 A:ASP283 2.1 31.3 1.0 OD1 A:ASP283 2.4 30.2 1.0 CG A:ASP283 2.6 30.5 1.0 CB A:ASP283 4.0 28.9 1.0 OG1 A:THR266 4.2 22.6 1.0 CG2 A:THR266 4.8 22.4 1.0 N A:ASP283 4.9 25.1 1.0 CA A:ASP283 4.9 27.1 1.0 CB A:ASN281 4.9 25.7 1.0

Zinc binding site 2 out of 9 in the Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group


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 C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn402 b:82.8 occ:1.00 OD2 A:ASP277 2.3 49.0 1.0 CG A:ASP277 3.5 46.7 1.0 OG A:SER298 3.6 52.2 1.0 CA A:SER298 3.9 52.9 1.0 O A:PRO297 4.0 49.2 1.0 CB A:SER298 4.2 53.0 1.0 OD1 A:ASP277 4.3 49.3 1.0 CB A:ASP277 4.4 42.3 1.0 N A:SER298 4.7 50.4 1.0 C A:PRO297 4.7 49.2 1.0 C A:SER298 4.8 55.8 1.0 ZN A:ZN403 4.9 79.7 1.0

Zinc binding site 3 out of 9 in the Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group


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 C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn403 b:79.7 occ:1.00 OD1 A:ASP277 2.4 49.3 1.0 OD1 C:ASP204 2.6 72.3 1.0 CG A:ASP277 3.3 46.7 1.0 CG C:ASP204 3.4 68.2 1.0 OD2 C:ASP204 3.5 70.7 1.0 OD2 A:ASP277 3.6 49.0 1.0 OG C:SER203 4.4 64.0 1.0 OG A:SER298 4.6 52.2 1.0 CB A:ASP277 4.7 42.3 1.0 CB C:ASP204 4.8 64.0 1.0 ZN A:ZN402 4.9 82.8 1.0

Zinc binding site 4 out of 9 in the Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group


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 C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn401 b:92.8 occ:1.00 OD2 B:ASP204 2.5 77.2 1.0 OD1 D:ASP277 2.6 65.4 1.0 OD1 B:ASP204 2.8 79.4 1.0 CG B:ASP204 3.0 75.9 1.0 CG D:ASP277 3.7 62.7 1.0 OD2 D:ASP277 4.1 64.8 1.0 CB B:ASP204 4.5 71.6 1.0 CB D:ASP277 4.9 59.2 1.0

Zinc binding site 5 out of 9 in the Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn402 b:45.9 occ:1.00 OE2 B:GLU191 2.0 32.7 1.0 CD B:GLU191 2.7 30.2 1.0 OE1 B:GLU191 2.8 29.6 1.0 CG B:GLU191 4.1 27.8 1.0 O B:HOH559 4.8 45.0 1.0 O B:HOH565 4.9 47.4 1.0

Zinc binding site 6 out of 9 in the Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn403 b:86.2 occ:1.00 CD B:LYS249 2.8 42.5 1.0 N B:LYS249 3.0 24.9 1.0 CB B:ASP248 3.2 22.4 1.0 OE1 B:GLU222 3.6 21.9 1.0 CB B:LYS249 3.7 33.3 1.0 CA B:ASP248 3.7 21.5 1.0 CG B:LYS249 3.8 38.2 1.0 C B:ASP248 3.8 22.4 1.0 O B:HOH540 3.9 40.6 1.0 CA B:LYS249 3.9 28.4 1.0 NZ B:LYS249 3.9 46.8 1.0 CE B:LYS249 3.9 46.1 1.0 OE2 B:GLU194 4.0 24.8 1.0 CG B:ASP248 4.0 23.7 1.0 OD2 B:ASP248 4.4 25.2 1.0 CB B:GLU222 4.7 23.1 1.0 CD B:GLU194 4.7 26.0 1.0 OD1 B:ASP248 4.8 21.9 1.0 CD B:GLU222 4.8 22.3 1.0

Zinc binding site 7 out of 9 in the Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn401 b:80.4 occ:1.00 OD2 D:ASP283 2.4 68.4 1.0 CG D:ASP283 3.2 64.9 1.0 OD1 D:ASP283 3.3 61.3 1.0 CB D:ASP283 4.6 64.2 1.0 OG1 D:THR266 5.0 59.1 1.0

Zinc binding site 8 out of 9 in the Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn402 b:58.2 occ:1.00 OD2 D:ASP292 1.9 63.8 1.0 NZ D:LYS185 2.1 68.0 1.0 CG D:ASP292 2.6 61.5 1.0 OD1 D:ASP292 2.8 59.8 1.0 CE D:LYS185 3.2 63.1 1.0 CD D:LYS185 3.9 62.0 1.0 CB D:ASP292 4.1 59.2 1.0

Zinc binding site 9 out of 9 in the Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Crystal Structure of C-Terminal Domain of Shaft Pilin Spaa From Lactobacillus Rhamnosus Gg - P21212 Space Group within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn403 b:73.2 occ:1.00 OD2 D:ASP212 2.2 67.5 1.0 CG D:ASP212 3.1 64.8 1.0 CG D:GLN216 3.2 79.7 1.0 OD1 D:ASP212 3.3 64.7 1.0 CB D:GLN216 3.5 73.4 1.0 OD2 D:ASP214 3.6 80.7 1.0 CB D:ASP214 4.0 76.0 1.0 CG D:ASP214 4.3 79.3 1.0 CB D:ASP212 4.4 62.7 1.0 CD D:GLN216 4.5 82.8 1.0 CA D:GLN216 4.8 69.0 1.0 N D:GLN216 4.9 67.2 1.0 CA D:ASP214 5.0 72.0 1.0 N D:ASP214 5.0 69.3 1.0

P.Chaurasia, S.Pratap, I.Von Ossowski, A.Palva, V.Krishnan. New Insights About Pilus Formation in Gut-Adapted Lactobacillus Rhamnosus Gg From the Crystal Structure of the Spaa Backbone-Pilin Subunit Sci Rep V. 6 28664 2016.
ISSN: ESSN 2045-2322
PubMed: 27349405
DOI: 10.1038/SREP28664