Atomistry » Cobalt » PDB 4j2m-4ngl » 4liv
Atomistry »
  Cobalt »
    PDB 4j2m-4ngl »
      4liv »

Cobalt in PDB 4liv: Structure of Ycfd, A Ribosomal Oxygenase From Escherichia Coli in Complex with Cobalt and Succinic Acid.

Protein crystallography data

The structure of Structure of Ycfd, A Ribosomal Oxygenase From Escherichia Coli in Complex with Cobalt and Succinic Acid., PDB code: 4liv was solved by N.C.Brissett, A.J.Doherty, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 53.04 / 2.70
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 75.010, 75.010, 209.000, 90.00, 90.00, 90.00
R / Rfree (%) 19.5 / 25

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Structure of Ycfd, A Ribosomal Oxygenase From Escherichia Coli in Complex with Cobalt and Succinic Acid. (pdb code 4liv). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total only one binding site of Cobalt was determined in the Structure of Ycfd, A Ribosomal Oxygenase From Escherichia Coli in Complex with Cobalt and Succinic Acid., PDB code: 4liv:

Cobalt binding site 1 out of 1 in 4liv

Go back to Cobalt Binding Sites List in 4liv
Cobalt binding site 1 out of 1 in the Structure of Ycfd, A Ribosomal Oxygenase From Escherichia Coli in Complex with Cobalt and Succinic Acid.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Structure of Ycfd, A Ribosomal Oxygenase From Escherichia Coli in Complex with Cobalt and Succinic Acid. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co501

b:43.7
occ:1.00
OD2 A:ASP161 2.0 57.1 1.0
NE2 A:HIS159 2.0 44.5 1.0
NE2 A:HIS221 2.1 33.8 1.0
O2 A:SIN502 2.3 39.8 1.0
O1 A:SIN502 2.4 39.9 1.0
CE1 A:HIS159 2.5 37.5 1.0
C1 A:SIN502 2.7 39.3 1.0
CD2 A:HIS221 3.1 33.6 1.0
CG A:ASP161 3.1 52.9 1.0
CE1 A:HIS221 3.2 30.1 1.0
CD2 A:HIS159 3.3 37.4 1.0
OD1 A:ASP161 3.6 60.7 1.0
ND1 A:HIS159 3.8 25.3 1.0
CG A:HIS159 4.2 25.8 1.0
C2 A:SIN502 4.2 36.6 1.0
CG A:HIS221 4.2 32.8 1.0
ND1 A:HIS221 4.2 31.3 1.0
CB A:ASP161 4.3 39.9 1.0
C3 A:SIN502 4.9 30.7 1.0

Reference:

R.Chowdhury, R.Sekirnik, N.C.Brissett, T.Krojer, C.H.Ho, S.S.Ng, I.J.Clifton, W.Ge, N.J.Kershaw, G.C.Fox, J.R.Muniz, M.Vollmar, C.Phillips, E.S.Pilka, K.L.Kavanagh, F.Von Delft, U.Oppermann, M.A.Mcdonough, A.J.Doherty, C.J.Schofield. Ribosomal Oxygenases Are Structurally Conserved From Prokaryotes to Humans. Nature V. 509 422 2014.
ISSN: ISSN 0028-0836
PubMed: 24814345
DOI: 10.1038/NATURE13263
Page generated: Sun Dec 13 10:45:10 2020

Last articles

Zn in 7O75
Zn in 7O73
Zn in 7O4I
Zn in 7O72
Zn in 7O4J
Zn in 7NVR
Zn in 7NVY
Zn in 7NVZ
Zn in 7NW0
Zn in 7O4K
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy