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Nickel in PDB 2o8q: Crystal Structure of A Protein with A Cupin-Like Fold and Unknown Function (BXE_C0505) From Burkholderia Xenovorans LB400 at 1.55 A Resolution

Protein crystallography data

The structure of Crystal Structure of A Protein with A Cupin-Like Fold and Unknown Function (BXE_C0505) From Burkholderia Xenovorans LB400 at 1.55 A Resolution, PDB code: 2o8q 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) 29.68 / 1.55
Space group P 42 21 2
Cell size a, b, c (Å), α, β, γ (°) 102.255, 102.255, 74.746, 90.00, 90.00, 90.00
R / Rfree (%) 17 / 19.1

Nickel Binding Sites:

The binding sites of Nickel atom in the Crystal Structure of A Protein with A Cupin-Like Fold and Unknown Function (BXE_C0505) From Burkholderia Xenovorans LB400 at 1.55 A Resolution (pdb code 2o8q). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total 2 binding sites of Nickel where determined in the Crystal Structure of A Protein with A Cupin-Like Fold and Unknown Function (BXE_C0505) From Burkholderia Xenovorans LB400 at 1.55 A Resolution, PDB code: 2o8q:
Jump to Nickel binding site number: 1; 2;

Nickel binding site 1 out of 2 in 2o8q

Go back to Nickel Binding Sites List in 2o8q
Nickel binding site 1 out of 2 in the Crystal Structure of A Protein with A Cupin-Like Fold and Unknown Function (BXE_C0505) From Burkholderia Xenovorans LB400 at 1.55 A Resolution


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 A Protein with A Cupin-Like Fold and Unknown Function (BXE_C0505) From Burkholderia Xenovorans LB400 at 1.55 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni300

b:18.2
occ:1.00
NE2 A:HIS60 2.1 17.9 1.0
NE2 A:HIS58 2.1 18.4 1.0
O A:HOH377 2.1 17.8 1.0
NE2 A:HIS100 2.1 19.7 1.0
O A:HOH346 2.1 19.7 1.0
O A:HOH340 2.2 23.0 1.0
CE1 A:HIS60 3.0 18.2 1.0
CD2 A:HIS58 3.1 18.3 1.0
CE1 A:HIS58 3.1 19.8 1.0
CE1 A:HIS100 3.1 18.0 1.0
CD2 A:HIS100 3.1 19.0 1.0
CD2 A:HIS60 3.2 21.4 1.0
O A:HOH402 3.8 45.2 1.0
O A:HOH350 3.8 23.3 1.0
O A:HOH342 4.0 21.2 1.0
ND1 A:HIS60 4.1 20.4 1.0
ND1 A:HIS58 4.2 18.3 1.0
ND1 A:HIS100 4.2 18.2 1.0
CG A:HIS58 4.2 19.3 1.0
CG A:HIS60 4.2 18.1 1.0
CG A:HIS100 4.2 17.8 1.0
OE1 A:GLN94 4.5 23.6 1.0
O2 A:EDO301 4.6 51.4 1.0
O A:HOH359 4.6 34.9 1.0

Nickel binding site 2 out of 2 in 2o8q

Go back to Nickel Binding Sites List in 2o8q
Nickel binding site 2 out of 2 in the Crystal Structure of A Protein with A Cupin-Like Fold and Unknown Function (BXE_C0505) From Burkholderia Xenovorans LB400 at 1.55 A Resolution


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 A Protein with A Cupin-Like Fold and Unknown Function (BXE_C0505) From Burkholderia Xenovorans LB400 at 1.55 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ni300

b:16.9
occ:1.00
NE2 B:HIS58 2.1 16.8 1.0
NE2 B:HIS60 2.1 18.5 1.0
O B:HOH413 2.1 19.2 1.0
NE2 B:HIS100 2.1 19.1 1.0
O B:HOH362 2.2 20.7 1.0
O B:HOH393 2.2 16.6 1.0
CE1 B:HIS60 3.0 16.8 1.0
CD2 B:HIS58 3.1 17.8 1.0
CE1 B:HIS58 3.1 21.1 1.0
CD2 B:HIS100 3.1 19.0 1.0
CE1 B:HIS100 3.1 21.7 1.0
CD2 B:HIS60 3.1 19.4 1.0
O B:HOH352 3.9 24.6 1.0
O B:HOH344 3.9 19.3 1.0
O B:HOH368 4.0 33.7 1.0
O B:HOH423 4.0 63.0 1.0
ND1 B:HIS60 4.2 18.8 1.0
ND1 B:HIS58 4.2 17.9 1.0
ND1 B:HIS100 4.2 19.4 1.0
CG B:HIS58 4.2 18.3 1.0
CG B:HIS60 4.2 18.2 1.0
CG B:HIS100 4.2 17.2 1.0
OE1 B:GLN94 4.5 22.6 1.0
O B:HOH364 4.6 29.4 1.0
O1 B:EDO301 4.9 51.7 1.0

Reference:

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