Lead in PDB 2o3c: Crystal Structure of Zebrafish Ape

The structure of Crystal Structure of Zebrafish Ape, PDB code: 2o3c was solved by M.M.Georgiadis, R.K.Gaur, S.Delaplane, J.Svenson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.30
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	54.660, 117.780, 85.840, 90.00, 98.34, 90.00
R / Rfree (%)	19.9 / 23.6

The binding sites of Lead atom in the Crystal Structure of Zebrafish Ape (pdb code 2o3c). This binding sites where shown within 5.0 Angstroms radius around Lead atom.
In total 3 binding sites of Lead where determined in the Crystal Structure of Zebrafish Ape, PDB code: 2o3c:
Jump to Lead binding site number: 1; 2; 3;

Lead binding site 1 out of 3 in the Crystal Structure of Zebrafish Ape


Mono view


Stereo pair view

A full contact list of Lead with other atoms in the Pb binding site number 1 of Crystal Structure of Zebrafish Ape within 5.0Å range: probe atom residue distance (Å) B Occ A:Pb402 b:40.6 occ:0.15 O A:ASP63 2.2 17.9 1.0 O A:HOH453 2.5 23.1 1.0 O A:HOH438 2.6 16.2 1.0 OD1 A:ASP63 2.7 25.0 1.0 CG A:ASP63 3.4 22.8 1.0 C A:ASP63 3.4 20.1 1.0 CB A:ALA67 3.4 23.3 1.0 CB A:ASP63 3.7 21.5 1.0 O A:HOH504 3.8 28.2 1.0 NZ A:LYS71 3.9 38.0 1.0 O A:VAL62 4.0 15.1 1.0 O A:GLY64 4.2 18.5 1.0 CA A:ASP63 4.2 19.3 1.0 OH A:TYR261 4.2 37.2 1.0 OD2 A:ASP63 4.2 22.2 1.0 N A:GLY64 4.4 20.2 1.0 CE A:LYS71 4.5 36.9 1.0 CA A:GLY64 4.5 17.5 1.0 CA A:ALA67 4.7 23.4 1.0 N A:TRP68 4.7 22.6 1.0 C A:GLY64 4.8 19.7 1.0 O A:GLY298 4.8 20.6 1.0 O A:HOH495 4.9 17.2 1.0 C A:ALA67 4.9 23.6 1.0 C A:VAL62 5.0 17.0 1.0

Lead binding site 2 out of 3 in the Crystal Structure of Zebrafish Ape


Mono view


Stereo pair view

A full contact list of Lead with other atoms in the Pb binding site number 2 of Crystal Structure of Zebrafish Ape within 5.0Å range: probe atom residue distance (Å) B Occ B:Pb403 b:65.1 occ:0.15 OD2 B:ASP63 2.6 34.6 1.0 O B:HOH473 2.6 32.7 1.0 O B:HOH514 2.8 25.6 1.0 OE1 B:GLU89 3.1 26.8 1.0 OE2 B:GLU89 3.4 25.5 1.0 O B:HOH443 3.6 24.6 1.0 CD B:GLU89 3.6 25.2 1.0 CG B:ASP63 3.7 30.6 1.0 NZ B:LYS91 4.3 25.8 1.0 OD1 B:ASP63 4.5 33.5 1.0 OD2 B:ASP300 4.6 18.0 1.0 CB B:ASP63 4.6 26.0 1.0

Lead binding site 3 out of 3 in the Crystal Structure of Zebrafish Ape


Mono view


Stereo pair view

A full contact list of Lead with other atoms in the Pb binding site number 3 of Crystal Structure of Zebrafish Ape within 5.0Å range: probe atom residue distance (Å) B Occ C:Pb401 b:36.8 occ:0.15 OE1 C:GLU89 2.3 26.9 1.0 O C:HOH464 2.4 31.3 1.0 OD2 C:ASP63 2.4 31.9 1.0 O C:HOH424 2.5 19.1 1.0 O C:HOH454 2.5 29.3 1.0 CD C:GLU89 3.3 23.7 1.0 CG C:ASP63 3.3 30.0 1.0 OE2 C:GLU89 3.5 21.5 1.0 NZ C:LYS91 3.7 23.6 1.0 CB C:ASP63 3.9 27.4 1.0 CA C:ASP63 4.0 25.8 1.0 OD1 C:ASP63 4.1 31.4 1.0 OD2 C:ASP300 4.2 26.9 1.0 O C:HOH433 4.3 41.0 1.0 OD1 C:ASP300 4.5 26.9 1.0 CG C:GLU89 4.6 23.6 1.0 CG C:ASP300 4.7 26.9 1.0 C C:ASP63 4.8 26.1 1.0 OD1 C:ASN61 4.9 19.9 1.0

M.M.Georgiadis, M.Luo, R.K.Gaur, S.Delaplane, X.Li, M.R.Kelley. Evolution of the Redox Function in Mammalian Apurinic/Apyrimidinic Endonuclease Mutat.Res. V. 643 54 2008.
ISSN: ISSN 0027-5107
PubMed: 18579163
DOI: 10.1016/J.MRFMMM.2008.04.008