Nickel in PDB 6a6f: Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1

The structure of Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1, PDB code: 6a6f was solved by I.Dhanasingh, H.S.Jin, D.W.Lee, S.H.Lee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.10
Space group	P 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	64.873, 30.665, 77.955, 90.00, 98.65, 90.00
R / Rfree (%)	16.3 / 22.6

The structure of Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1 also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Nickel atom in the Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1 (pdb code 6a6f). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total 6 binding sites of Nickel where determined in the Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1, PDB code: 6a6f:
Jump to Nickel binding site number: 1; 2; 3; 4; 5; 6;

Nickel binding site 1 out of 6 in the Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni206 b:50.6 occ:1.00 OE2 A:GLU27 2.2 33.4 1.0 NZ A:LYS25 2.4 36.0 1.0 O A:HOH359 2.4 36.1 1.0 O A:HOH366 2.6 34.2 1.0 CD A:GLU27 3.1 27.5 1.0 CE A:LYS25 3.2 32.6 1.0 OE1 A:GLU27 3.3 31.8 1.0 O A:HOH353 3.6 53.8 1.0 CG A:GLU27 4.4 25.9 1.0 CD A:LYS25 4.6 29.3 1.0 CG2 A:ILE130 4.6 33.0 1.0 O A:VAL26 4.7 22.5 1.0 O A:HOH363 4.7 24.1 1.0 CB A:GLU27 4.8 23.1 1.0 O A:ILE130 4.9 32.3 1.0 CA A:ALA131 5.0 27.8 1.0

Nickel binding site 2 out of 6 in the Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 2 of Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni207 b:27.5 occ:1.00 N A:SER-1 1.8 29.9 1.0 ND1 A:HIS0 1.8 25.1 1.0 N A:HIS0 2.2 31.7 1.0 N A:GLY-2 2.3 29.1 1.0 C A:GLY-2 2.7 30.3 1.0 CA A:SER-1 2.8 33.9 1.0 CE1 A:HIS0 2.8 29.0 1.0 CG A:HIS0 2.8 28.4 1.0 C A:SER-1 2.9 32.6 1.0 CA A:GLY-2 2.9 29.4 1.0 CA A:HIS0 3.1 29.4 1.0 CB A:HIS0 3.3 28.0 1.0 SD A:MET1 3.6 36.9 1.0 N A:MET1 3.6 26.9 1.0 C A:HIS0 3.8 29.3 1.0 CB A:SER-1 3.8 36.8 1.0 O A:GLY-2 3.8 35.4 1.0 NE2 A:HIS0 3.9 32.7 1.0 CB B:GLU5 3.9 26.2 1.0 CD2 A:HIS0 3.9 29.4 1.0 O A:SER-1 4.1 35.9 1.0 CD B:GLU5 4.2 37.1 1.0 O A:HOH346 4.3 28.1 1.0 OE1 B:GLU5 4.4 46.0 1.0 CG B:GLU5 4.5 31.1 1.0 OE2 B:GLU5 4.5 43.9 1.0 OG A:SER-1 4.6 48.8 1.0 CA B:GLU5 4.7 22.6 1.0 CG A:MET1 4.8 33.2 1.0 CE A:MET1 4.8 40.3 1.0 CA A:MET1 4.8 26.8 1.0 O A:HIS0 4.8 25.9 1.0 O B:HOH351 5.0 30.5 1.0

Nickel binding site 3 out of 6 in the Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 3 of Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni208 b:22.7 occ:1.00 O A:HOH327 1.7 14.8 1.0 O B:HOH360 1.8 22.7 1.0 NE2 B:HIS57 2.2 23.2 1.0 NE2 A:HIS17 2.2 17.8 1.0 O A:HOH324 2.3 27.4 1.0 O A:HOH402 2.5 41.2 1.0 CD2 A:HIS17 3.0 16.7 1.0 CE1 B:HIS57 3.1 24.2 1.0 CD2 B:HIS57 3.2 22.9 1.0 CE1 A:HIS17 3.3 20.4 1.0 OE1 A:GLU55 3.9 27.5 1.0 OE2 A:GLU55 4.0 29.3 1.0 O B:HOH354 4.1 31.1 1.0 CG A:HIS17 4.2 18.5 1.0 ND1 B:HIS57 4.3 21.9 1.0 O A:HOH399 4.3 27.6 1.0 CG B:HIS57 4.3 22.4 1.0 ND1 A:HIS17 4.4 20.1 1.0 CD A:GLU55 4.4 26.9 1.0 OE1 B:GLU37 4.9 48.3 1.0

Nickel binding site 4 out of 6 in the Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 4 of Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Ni201 b:24.4 occ:1.00 O B:HOH330 1.8 12.1 1.0 O B:HOH303 1.8 22.9 1.0 CE1 A:HIS57 2.2 19.8 1.0 NE2 B:HIS17 2.2 17.9 1.0 O B:HOH316 2.3 25.4 1.0 O A:HOH414 2.5 33.0 1.0 NE2 A:HIS57 2.9 21.4 1.0 CE1 B:HIS17 3.1 21.3 1.0 CD2 B:HIS17 3.3 19.7 1.0 ND1 A:HIS57 3.3 20.5 1.0 OE1 B:GLU55 3.8 25.0 1.0 OE2 B:GLU55 3.8 25.1 1.0 CD2 A:HIS57 4.2 20.9 1.0 O A:HOH310 4.2 30.2 1.0 CD B:GLU55 4.2 26.9 1.0 ND1 B:HIS17 4.3 21.0 1.0 O A:HOH405 4.3 24.9 1.0 CG A:HIS57 4.4 19.7 1.0 CG B:HIS17 4.4 19.6 1.0 NZ B:LYS14 4.6 39.0 1.0 OE2 A:GLU37 4.9 42.4 1.0 O B:GLY56 5.0 25.8 1.0

Nickel binding site 5 out of 6 in the Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 5 of Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Ni209 b:58.5 occ:1.00 O B:HOH332 1.9 38.0 1.0 OE1 B:GLU27 2.2 30.8 1.0 O B:HOH419 2.4 37.0 1.0 NZ B:LYS25 2.6 34.0 1.0 CD B:GLU27 3.2 30.1 1.0 OE2 B:GLU27 3.5 32.8 1.0 CE B:LYS25 3.6 34.8 1.0 O B:HOH420 3.7 72.9 1.0 CG2 B:ILE130 4.4 34.2 1.0 O B:ILE130 4.5 32.5 1.0 CG B:GLU27 4.6 28.6 1.0 O B:HOH417 4.6 49.8 1.0 CA B:ALA131 4.8 27.3 1.0 O B:VAL26 4.8 24.8 1.0 CD B:LYS25 4.9 30.8 1.0 O B:HOH385 4.9 32.2 1.0 O B:HOH301 5.0 54.0 1.0 C B:ILE130 5.0 32.5 1.0

Nickel binding site 6 out of 6 in the Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 6 of Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufu) From Thermophilic Fervidobacterium Islandicum Aw-1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Ni210 b:32.3 occ:1.00 ND1 B:HIS0 1.7 23.0 1.0 N B:SER-1 1.8 44.7 1.0 N B:HIS0 2.0 35.2 1.0 N B:GLY-2 2.4 46.7 1.0 CG B:HIS0 2.7 26.1 1.0 C B:SER-1 2.7 43.2 1.0 CA B:SER-1 2.7 45.2 1.0 C B:GLY-2 2.7 43.3 1.0 CE1 B:HIS0 2.8 26.5 1.0 CA B:HIS0 3.0 28.8 1.0 CB B:HIS0 3.0 26.6 1.0 CA B:GLY-2 3.0 44.0 1.0 SD B:MET1 3.5 43.1 1.0 C B:HIS0 3.7 27.9 1.0 N B:MET1 3.7 27.8 1.0 OE1 A:GLU5 3.8 41.9 1.0 CB A:GLU5 3.8 27.9 1.0 CD2 B:HIS0 3.8 25.7 1.0 CD A:GLU5 3.8 37.8 1.0 O B:GLY-2 3.8 48.1 1.0 CB B:SER-1 3.8 45.5 1.0 O B:SER-1 3.9 48.0 1.0 NE2 B:HIS0 3.9 25.0 1.0 CG A:GLU5 3.9 31.8 1.0 OG B:SER-1 4.0 47.9 1.0 OE2 A:GLU5 4.4 39.9 1.0 CG B:MET1 4.6 38.5 1.0 CA A:GLU5 4.6 23.7 1.0 O B:HIS0 4.6 23.1 1.0 CE B:MET1 4.8 42.3 1.0 CA B:MET1 4.8 30.9 1.0

I.Dhanasingh, H.S.Jin, D.W.Lee, S.H.Lee. Crystal Structure of Putative Iron-Sulfur Cluster Assembly Scaffold Protein For Suf System (Fisufe) From Thermophilic Fervidobacterium Islandicum Aw-1 To Be Published.