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Nickel in PDB 2fff: Open Form of A Class A Transpeptidase Domain

Protein crystallography data

The structure of Open Form of A Class A Transpeptidase Domain, PDB code: 2fff was solved by A.L.Lovering, N.C.J.Strynadka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.00 / 2.23
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 131.661, 78.043, 60.315, 90.00, 113.02, 90.00
R / Rfree (%) 18.3 / 24.6

Nickel Binding Sites:

The binding sites of Nickel atom in the Open Form of A Class A Transpeptidase Domain (pdb code 2fff). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total only one binding site of Nickel was determined in the Open Form of A Class A Transpeptidase Domain, PDB code: 2fff:

Nickel binding site 1 out of 1 in 2fff

Go back to Nickel Binding Sites List in 2fff
Nickel binding site 1 out of 1 in the Open Form of A Class A Transpeptidase Domain


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Open Form of A Class A Transpeptidase Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ni901

b:68.7
occ:1.00
ND1 B:HIS682 1.8 40.6 1.0
CE1 B:HIS682 2.5 43.8 1.0
O B:HOH169 2.7 41.8 1.0
O B:HOH183 2.8 54.6 1.0
CG B:HIS682 3.0 40.5 1.0
CB B:HIS682 3.6 38.7 1.0
NE2 B:HIS682 3.7 40.3 1.0
O B:THR417 3.7 33.9 1.0
OD1 B:ASP680 3.7 39.9 1.0
CD2 B:HIS682 3.9 40.9 1.0
OD2 B:ASP680 4.1 39.7 1.0
CG B:ASP680 4.4 38.0 1.0
C B:THR417 4.9 33.3 1.0

Reference:

A.L.Lovering, L.De Castro, D.Lim, N.C.Strynadka. Structural Analysis of An "Open" Form of PBP1B From Streptococcus Pneumoniae. Protein Sci. V. 15 1701 2006.
ISSN: ISSN 0961-8368
PubMed: 16751607
DOI: 10.1110/PS.062112106
Page generated: Thu Oct 29 06:17:04 2020
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