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Nickel in PDB 3lop: Crystal Structure of Substrate-Binding Periplasmic Protein (Pbp) From Ralstonia Solanacearum

Protein crystallography data

The structure of Crystal Structure of Substrate-Binding Periplasmic Protein (Pbp) From Ralstonia Solanacearum, PDB code: 3lop was solved by K.Palani, S.K.Burley, S.Swaminathan, New York Sgx Researchcenter For Structural Genomics (Nysgxrc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.72 / 1.55
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 44.110, 64.739, 114.085, 90.00, 90.00, 90.00
R / Rfree (%) 17.9 / 19.5

Nickel Binding Sites:

The binding sites of Nickel atom in the Crystal Structure of Substrate-Binding Periplasmic Protein (Pbp) From Ralstonia Solanacearum (pdb code 3lop). 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 Substrate-Binding Periplasmic Protein (Pbp) From Ralstonia Solanacearum, PDB code: 3lop:
Jump to Nickel binding site number: 1; 2;

Nickel binding site 1 out of 2 in 3lop

Go back to Nickel Binding Sites List in 3lop
Nickel binding site 1 out of 2 in the Crystal Structure of Substrate-Binding Periplasmic Protein (Pbp) From Ralstonia Solanacearum


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 Substrate-Binding Periplasmic Protein (Pbp) From Ralstonia Solanacearum within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni406

b:18.7
occ:1.00
OE2 A:GLU348 2.2 20.9 1.0
CE1 A:HIS344 2.2 13.3 1.0
O A:HOH801 2.3 36.6 1.0
O A:HOH686 2.3 20.5 1.0
OE1 A:GLU348 2.3 16.7 1.0
O A:HOH644 2.3 24.3 1.0
CD A:GLU348 2.5 17.6 1.0
NE2 A:HIS344 3.1 15.9 1.0
ND1 A:HIS344 3.3 15.1 1.0
CG A:GLU348 4.0 15.4 1.0
O A:HOH769 4.2 30.4 1.0
CD2 A:HIS344 4.3 14.2 1.0
CG A:HIS344 4.4 12.2 1.0
O A:HOH439 4.4 32.0 1.0
O A:HOH618 4.7 23.2 1.0
O A:HOH748 4.9 8.9 1.0
CB A:GLU348 5.0 13.1 1.0

Nickel binding site 2 out of 2 in 3lop

Go back to Nickel Binding Sites List in 3lop
Nickel binding site 2 out of 2 in the Crystal Structure of Substrate-Binding Periplasmic Protein (Pbp) From Ralstonia Solanacearum


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 Substrate-Binding Periplasmic Protein (Pbp) From Ralstonia Solanacearum within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni407

b:18.4
occ:1.00
O A:HOH528 2.2 15.3 1.0
O A:HOH560 2.2 22.5 1.0
O A:HOH483 2.3 12.8 1.0
CE1 A:HIS371 2.3 16.4 1.0
O A:HOH710 2.4 26.5 1.0
O A:HOH654 2.4 32.3 1.0
NE2 A:HIS371 3.0 17.6 1.0
ND1 A:HIS371 3.4 16.6 1.0
O A:GLY357 3.8 7.9 1.0
OG1 A:THR359 4.2 9.5 1.0
CD2 A:HIS371 4.3 16.1 1.0
O A:HOH802 4.3 31.9 1.0
O A:HOH451 4.5 9.9 1.0
CG A:HIS371 4.5 14.2 1.0
C A:GLY357 5.0 7.8 1.0

Reference:

K.Palani, S.K.Burley, S.Swaminathan. Crystal Structure of Substrate-Binding Periplasmic Protein (Pbp) From Ralstonia Solanacearum To Be Published.
Page generated: Fri Sep 25 08:27:07 2020
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