Bromine in PDB 6pdk: The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System

The structure of The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System, PDB code: 6pdk was solved by B.Y.Matsuyama, C.S.Farah, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	21.87 / 1.90
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	67.532, 67.532, 149.386, 90.00, 90.00, 120.00
R / Rfree (%)	19.5 / 24.9

The structure of The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System also contains other interesting chemical elements:

Chlorine

(Cl)

4 atoms

Pages:

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

Binding sites:

The binding sites of Bromine atom in the The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System (pdb code 6pdk). This binding sites where shown within 5.0 Angstroms radius around Bromine atom.
In total 11 binding sites of Bromine where determined in the The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System, PDB code: 6pdk:
Jump to Bromine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Bromine binding site 1 out of 11 in the The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 1 of The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System within 5.0Å range: probe atom residue distance (Å) B Occ A:Br405 b:67.3 occ:1.00 N A:GLN208 3.5 37.6 1.0 CA A:PRO207 3.8 36.2 1.0 O A:HOH543 4.0 41.7 1.0 C A:PRO207 4.2 38.8 1.0 CB A:GLN208 4.3 43.4 1.0 CB A:PRO207 4.4 40.2 1.0 CA A:GLN208 4.5 37.4 1.0 O A:LYS206 4.9 37.6 1.0

Bromine binding site 2 out of 11 in the The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 2 of The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System within 5.0Å range: probe atom residue distance (Å) B Occ A:Br406 b:61.7 occ:1.00 O A:HOH634 2.9 40.7 1.0 O A:HOH570 3.4 34.6 1.0 OG1 A:THR153 3.4 34.7 1.0 CG A:ARG91 3.9 30.6 1.0 NE A:ARG91 4.1 26.9 1.0 CD A:ARG91 4.1 31.8 1.0 CB A:THR153 4.2 29.1 1.0 CG2 A:THR153 4.3 27.9 1.0 O A:HOH618 4.4 47.2 1.0 CB A:ALA147 4.8 27.3 1.0 CA A:ALA147 4.9 21.6 1.0 N A:ARG91 5.0 31.8 1.0

Bromine binding site 3 out of 11 in the The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 3 of The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System within 5.0Å range: probe atom residue distance (Å) B Occ A:Br407 b:68.4 occ:1.00 O A:HOH525 3.3 28.9 1.0 N A:ILE257 3.4 35.4 1.0 CB A:SER177 3.8 32.9 1.0 CA A:ARG256 3.8 41.8 1.0 C A:ARG256 4.1 32.4 1.0 CB A:ILE257 4.2 29.0 1.0 CB A:ARG256 4.2 39.0 1.0 CG1 A:ILE257 4.3 29.4 1.0 CA A:ILE257 4.3 25.1 1.0 CG A:ARG256 4.3 50.0 1.0 OG A:SER177 4.5 42.7 1.0 CD1 A:ILE257 4.6 32.1 1.0 N A:SER177 4.7 29.6 1.0 O A:GLU173 4.7 34.9 1.0 O A:ILE257 4.7 27.9 1.0 CA A:SER177 4.8 27.1 1.0 O A:GLY255 5.0 29.8 1.0

Bromine binding site 4 out of 11 in the The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 4 of The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System within 5.0Å range: probe atom residue distance (Å) B Occ A:Br408 b:89.1 occ:1.00 O A:HOH610 3.2 34.3 1.0 NZ A:LYS262 3.3 41.9 1.0 O A:HOH594 3.3 37.3 1.0 O A:HOH552 3.5 42.9 1.0 CE A:LYS262 3.7 37.5 1.0 CD1 A:TYR243 3.8 41.0 1.0 CD A:ARG245 4.1 42.3 1.0 CG A:ARG245 4.3 43.0 1.0 CA A:TYR243 4.3 38.2 1.0 O A:TYR243 4.5 37.2 1.0 CE1 A:TYR243 4.5 45.6 1.0 OD1 A:ASP198 4.6 45.4 1.0 O A:HOH551 4.6 40.3 1.0 C A:TYR243 4.6 37.6 1.0 CB A:TYR243 4.7 40.9 1.0 CG A:TYR243 4.7 43.0 1.0 O A:ALA242 4.9 38.0 1.0

Bromine binding site 5 out of 11 in the The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 5 of The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System within 5.0Å range: probe atom residue distance (Å) B Occ A:Br409 b:41.2 occ:1.00 NH2 A:ARG256 2.9 53.6 1.0 O A:HOH533 3.2 25.8 1.0 O A:HOH536 3.6 32.0 1.0 O A:HOH611 3.7 33.5 1.0 CB A:SER258 4.0 28.4 1.0 CZ A:ARG256 4.2 54.4 1.0 CA A:SER258 4.3 28.6 1.0 CG2 A:VAL296 4.3 35.2 1.0 O A:VAL296 4.6 29.1 1.0 O A:ILE257 4.7 27.9 1.0 CG A:GLN252 4.7 38.9 1.0 CD1 A:ILE298 4.7 40.4 1.0 CG1 A:ILE298 4.9 38.2 1.0 NH2 A:ARG324 4.9 30.8 1.0 NH1 A:ARG256 4.9 55.0 1.0 O A:SER258 4.9 29.8 1.0 CG2 A:ILE298 5.0 34.7 1.0

Bromine binding site 6 out of 11 in the The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 6 of The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System within 5.0Å range: probe atom residue distance (Å) B Occ A:Br410 b:50.9 occ:1.00 O A:HOH552 3.1 42.9 1.0 O A:HOH607 3.6 46.3 1.0 NH1 A:ARG245 3.7 43.5 1.0 CG1 A:VAL292 4.3 29.7 1.0 CB A:VAL292 4.7 24.7 1.0 CZ A:ARG245 4.8 43.0 1.0 O A:HOH590 4.8 50.4 1.0

Bromine binding site 7 out of 11 in the The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 7 of The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System within 5.0Å range: probe atom residue distance (Å) B Occ A:Br411 b:60.3 occ:1.00 O A:HOH606 2.5 35.0 1.0 CG1 A:VAL273 3.8 47.7 1.0 CG A:ARG157 4.0 39.2 1.0 O A:HOH620 4.1 47.3 1.0 CB A:SER282 4.1 64.0 1.0 O A:HOH519 4.1 63.7 1.0 CD A:LYS309 4.3 35.5 1.0 CB A:ARG157 4.5 39.3 1.0 NE A:ARG157 4.5 62.5 1.0 CD A:ARG157 4.5 49.9 1.0 CB A:ALA288 4.6 40.7 1.0 NZ A:LYS309 4.6 36.3 1.0 CE1 A:PHE156 4.6 36.1 1.0 CE A:LYS309 4.7 37.0 1.0 OG A:SER282 5.0 67.0 1.0

Bromine binding site 8 out of 11 in the The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 8 of The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System within 5.0Å range: probe atom residue distance (Å) B Occ A:Br412 b:54.3 occ:1.00 O A:HOH647 3.1 47.7 1.0 O A:HOH631 3.2 37.9 1.0 CG2 A:THR330 3.9 32.7 1.0 CG A:PRO115 4.3 33.0 1.0 CE2 A:TYR118 4.3 33.1 1.0 CD A:PRO115 4.4 25.7 1.0 CB A:ARG329 4.4 44.5 1.0 OH A:TYR118 4.4 34.2 1.0 CG2 A:VAL326 4.6 29.5 1.0 CA A:VAL326 4.7 29.4 1.0 CZ A:TYR118 4.7 32.6 1.0

Bromine binding site 9 out of 11 in the The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 9 of The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System within 5.0Å range: probe atom residue distance (Å) B Occ A:Br413 b:60.3 occ:1.00 O A:HOH619 3.4 42.1 1.0 CB A:ARG169 3.5 54.4 1.0 N A:ARG169 3.8 48.9 1.0 CA A:ARG169 4.1 54.8 1.0 N A:ASP168 4.1 38.5 1.0 CG2 A:VAL170 4.2 40.2 1.0 CG1 A:VAL167 4.2 33.2 1.0 CA A:VAL167 4.3 31.5 1.0 CG A:ARG169 4.3 60.2 1.0 N A:VAL170 4.4 44.2 1.0 C A:ARG169 4.6 45.5 1.0 C A:VAL167 4.7 36.3 1.0 O A:TYR166 4.7 36.3 1.0 OD1 A:ASP168 4.7 47.6 1.0 CB A:VAL167 4.8 33.4 1.0 C A:ASP168 4.9 43.8 1.0 CG1 A:VAL170 4.9 45.8 1.0 CB A:VAL170 5.0 45.6 1.0

Bromine binding site 10 out of 11 in the The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System


Mono view


Stereo pair view

A full contact list of Bromine with other atoms in the Br binding site number 10 of The Structure of SMLT3025, An Immunity Protein of the Stenotrophomonas Maltophilia Type IV Secretion System within 5.0Å range: probe atom residue distance (Å) B Occ A:Br414 b:95.7 occ:0.33 CD A:PRO127 4.2 42.9 1.0 CG A:PRO127 4.7 37.4 1.0 CE3 A:TRP126 4.9 47.0 1.0

E.Bayer-Santos, W.Cenens, B.Y.Matsuyama, G.U.Oka, G.Di Sessa, I.D.V.Mininel, T.L.Alves, C.S.Farah. The Opportunistic Pathogen Stenotrophomonas Maltophilia Utilizes A Type IV Secretion System For Interbacterial Killing. Plos Pathog. V. 15 07651 2019.
ISSN: ESSN 1553-7374
PubMed: 31513674
DOI: 10.1371/JOURNAL.PPAT.1007651