Nickel in PDB 2ga0: Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1)

The structure of Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1), PDB code: 2ga0 was solved by C.L.Lawson, B.H.Yung, A.G.Barbour, W.R.Zuckert, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.70
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	241.835, 69.105, 87.578, 90.00, 104.95, 90.00
R / Rfree (%)	21.6 / 27.2

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 14;

Binding sites:

The binding sites of Nickel atom in the Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1) (pdb code 2ga0). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total 14 binding sites of Nickel where determined in the Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1), PDB code: 2ga0:
Jump to Nickel binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Nickel binding site 1 out of 14 in the Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni7 b:41.1 occ:1.00 OD1 A:ASP184 2.0 29.6 1.0 NE2 A:HIS62 2.1 28.1 1.0 O A:HOH234 2.2 31.7 1.0 CG A:ASP184 2.8 21.6 1.0 OD2 A:ASP184 2.9 24.1 1.0 CE A:LYS66 2.9 26.0 1.0 CE1 A:HIS62 2.9 24.1 1.0 CD2 A:HIS62 3.1 23.4 1.0 CD A:LYS66 3.5 25.5 1.0 NZ A:LYS66 3.9 24.7 1.0 OD1 A:ASN180 4.0 17.8 1.0 ND1 A:HIS62 4.1 22.1 1.0 O A:HOH217 4.1 26.1 1.0 CG A:HIS62 4.2 21.6 1.0 CB A:ASP184 4.3 19.3 1.0 O A:ASN180 4.3 18.8 1.0 CA A:ASP184 4.8 19.1 1.0 CG A:ASN180 5.0 18.6 1.0 CG A:LYS66 5.0 22.8 1.0

Nickel binding site 2 out of 14 in the Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 2 of Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni14 b:62.0 occ:1.00 OD2 A:ASP87 2.0 31.0 1.0 NZ A:LYS90 2.1 32.6 1.0 CG A:ASP87 3.0 20.4 1.0 OD1 A:ASP87 3.3 20.8 1.0 CE A:LYS90 3.3 26.1 1.0 OD1 B:ASP150 3.4 24.6 1.0 CG B:ASP150 4.2 23.9 1.0 O A:ALA88 4.3 18.4 1.0 CB A:ASP87 4.4 19.5 1.0 OD2 B:ASP150 4.4 26.6 1.0 CD A:LYS90 4.5 25.2 1.0 C A:ASP87 4.7 18.8 1.0 CA A:ASP87 4.7 18.8 1.0 O B:HOH226 4.8 37.6 1.0 O A:ASP87 4.8 19.1 1.0 NZ B:LYS93 4.9 19.2 1.0 N A:ALA88 5.0 18.5 1.0

Nickel binding site 3 out of 14 in the Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 3 of Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ni2 b:42.9 occ:1.00 OD1 B:ASP184 2.0 28.3 1.0 NE2 B:HIS62 2.1 27.6 1.0 O B:HOH229 2.1 32.4 1.0 CG B:ASP184 2.8 21.5 1.0 OD2 B:ASP184 2.9 21.8 1.0 CE1 B:HIS62 2.9 23.2 1.0 CD2 B:HIS62 3.2 22.3 1.0 ND1 B:HIS62 4.0 21.1 1.0 CG B:HIS62 4.2 19.7 1.0 CB B:ASP184 4.3 19.7 1.0 OD1 B:ASN180 4.3 16.4 1.0 O B:ASN180 4.5 18.9 1.0 CA B:ASP184 4.8 19.1 1.0 CG B:LYS66 4.9 22.3 1.0

Nickel binding site 4 out of 14 in the Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 4 of Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ni4 b:65.0 occ:1.00 OD1 B:ASP87 2.0 32.1 1.0 CG B:ASP87 2.8 21.9 1.0 OD2 B:ASP87 2.9 26.8 1.0 OD1 A:ASP150 3.0 26.8 1.0 OD2 A:ASP150 3.2 26.4 1.0 CG A:ASP150 3.5 24.8 1.0 NZ B:LYS90 3.8 25.4 1.0 CB B:ASP87 4.2 19.6 1.0 CA B:ASP87 4.7 18.9 1.0 O B:ALA88 4.7 18.6 1.0 CD B:LYS90 4.8 24.1 1.0 CE B:LYS90 4.9 25.2 1.0 C B:ASP87 4.9 18.9 1.0

Nickel binding site 5 out of 14 in the Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 5 of Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1) within 5.0Å range: probe atom residue distance (Å) B Occ C:Ni3 b:43.6 occ:1.00 OD1 C:ASP184 2.0 29.5 1.0 NE2 C:HIS62 2.1 30.5 1.0 OD2 C:ASP184 2.7 21.8 1.0 CG C:ASP184 2.7 21.6 1.0 CE1 C:HIS62 3.0 24.2 1.0 CD2 C:HIS62 3.1 23.5 1.0 OD1 C:ASN180 4.0 17.3 1.0 ND1 C:HIS62 4.1 22.0 1.0 CG C:HIS62 4.2 19.7 1.0 CB C:ASP184 4.2 19.0 1.0 O C:ASN180 4.4 18.9 1.0 CA C:ASP184 4.7 19.1 1.0 N C:ASP184 5.0 18.8 1.0 CG C:LYS66 5.0 20.8 1.0 CG C:ASN180 5.0 18.2 1.0

Nickel binding site 6 out of 14 in the Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 6 of Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1) within 5.0Å range: probe atom residue distance (Å) B Occ D:Ni1 b:42.4 occ:1.00 OD1 D:ASP184 2.0 30.0 1.0 NE2 D:HIS62 2.1 28.8 1.0 CG D:ASP184 2.8 22.4 1.0 OD2 D:ASP184 2.8 25.0 1.0 CE1 D:HIS62 2.9 23.8 1.0 CD2 D:HIS62 3.2 22.3 1.0 ND1 D:HIS62 4.1 21.0 1.0 OD1 D:ASN180 4.2 15.6 1.0 CB D:ASP184 4.2 18.7 1.0 O D:HOH216 4.2 27.3 1.0 CG D:HIS62 4.3 20.4 1.0 O D:ASN180 4.4 18.9 1.0 CA D:ASP184 4.7 18.9 1.0 CG2 D:ILE183 4.9 18.1 1.0 N D:ASP184 4.9 18.8 1.0

Nickel binding site 7 out of 14 in the Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 7 of Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1) within 5.0Å range: probe atom residue distance (Å) B Occ D:Ni8 b:67.8 occ:1.00 OD1 D:ASP87 2.0 31.0 1.0 O D:HOH223 3.0 45.5 1.0 CG D:ASP87 3.1 21.6 1.0 OD2 C:ASP150 3.5 21.0 1.0 OD2 D:ASP87 3.5 23.5 1.0 OD1 C:ASP150 4.3 20.7 1.0 CG C:ASP150 4.3 21.5 1.0 CB D:ASP87 4.4 20.1 1.0 CA D:ASP87 4.9 19.0 1.0

Nickel binding site 8 out of 14 in the Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 8 of Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1) within 5.0Å range: probe atom residue distance (Å) B Occ E:Ni5 b:49.0 occ:1.00 OD1 E:ASP184 2.0 31.1 1.0 NE2 E:HIS62 2.0 27.9 1.0 CE1 E:HIS62 2.9 23.6 1.0 CG E:ASP184 3.0 21.8 1.0 CD2 E:HIS62 3.1 22.6 1.0 OD2 E:ASP184 3.3 21.4 1.0 OD1 E:ASN180 3.9 17.5 1.0 ND1 E:HIS62 4.1 21.3 1.0 CG E:HIS62 4.2 20.9 1.0 O E:HOH220 4.3 36.4 1.0 CB E:ASP184 4.4 19.6 1.0 O E:ASN180 4.6 19.0 1.0 CA E:ASP184 4.7 19.1 1.0 CG E:LYS66 4.9 20.9 1.0 CG E:ASN180 5.0 17.8 1.0 N E:ASP184 5.0 18.7 1.0

Nickel binding site 9 out of 14 in the Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 9 of Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1) within 5.0Å range: probe atom residue distance (Å) B Occ E:Ni12 b:74.3 occ:1.00 OD1 E:ASP150 2.0 33.9 1.0 NZ F:LYS90 2.8 22.5 1.0 CG E:ASP150 2.9 23.2 1.0 OD2 F:ASP87 3.2 24.3 1.0 OD2 E:ASP150 3.4 24.0 1.0 OD1 F:ASP87 3.5 22.7 1.0 CG F:ASP87 3.8 20.7 1.0 CB E:ASP150 4.0 21.0 1.0 CE F:LYS90 4.1 23.1 1.0 CA E:ASP150 4.2 19.8 1.0 N E:ASP150 4.6 19.5 1.0

Nickel binding site 10 out of 14 in the Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1)


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 10 of Variable Small Protein 1 of Borrelia Turicatae (Vspa or VSP1) within 5.0Å range: probe atom residue distance (Å) B Occ F:Ni6 b:44.0 occ:1.00 OD1 F:ASP184 2.0 31.5 1.0 NE2 F:HIS62 2.0 28.6 1.0 CE1 F:HIS62 2.8 24.0 1.0 CG F:ASP184 3.0 22.5 1.0 CD2 F:HIS62 3.2 21.2 1.0 OD2 F:ASP184 3.2 25.5 1.0 ND1 F:HIS62 4.0 21.2 1.0 CG F:HIS62 4.2 19.9 1.0 OD1 F:ASN180 4.3 18.8 1.0 CB F:ASP184 4.4 19.9 1.0 O F:HOH219 4.4 17.6 1.0 O F:ASN180 4.5 19.0 1.0 CA F:ASP184 4.8 19.2 1.0 NZ F:LYS66 4.8 28.0 1.0 CG2 F:ILE183 4.9 18.6 1.0 CD F:LYS66 4.9 27.5 1.0

C.L.Lawson, B.H.Yung, A.G.Barbour, W.R.Zuckert. Crystal Structure of Neurotropism-Associated Variable Surface Protein 1 (VSP1) of Borrelia Turicatae. J.Bacteriol. V. 188 4522 2006.
ISSN: ISSN 0021-9193
PubMed: 16740958
DOI: 10.1128/JB.00028-06