Nickel in PDB 4a8p: Crystal Structure of Putrescine Transcarbamylase From Enterococcus Faecalis with N5-(Phosphonoacetyl)-L-Ornithine

All present enzymatic activity of Crystal Structure of Putrescine Transcarbamylase From Enterococcus Faecalis with N5-(Phosphonoacetyl)-L-Ornithine:
2.1.3.6;

The structure of Crystal Structure of Putrescine Transcarbamylase From Enterococcus Faecalis with N5-(Phosphonoacetyl)-L-Ornithine, PDB code: 4a8p was solved by L.M.Polo, F.Gil-Ortiz, V.Rubio, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.00 / 2.00
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	81.520, 81.710, 82.280, 105.43, 102.80, 100.75
R / Rfree (%)	19.593 / 23.732

The binding sites of Nickel atom in the Crystal Structure of Putrescine Transcarbamylase From Enterococcus Faecalis with N5-(Phosphonoacetyl)-L-Ornithine (pdb code 4a8p). 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 Putrescine Transcarbamylase From Enterococcus Faecalis with N5-(Phosphonoacetyl)-L-Ornithine, PDB code: 4a8p:
Jump to Nickel binding site number: 1; 2;

Nickel binding site 1 out of 2 in the Crystal Structure of Putrescine Transcarbamylase From Enterococcus Faecalis with N5-(Phosphonoacetyl)-L-Ornithine


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 Putrescine Transcarbamylase From Enterococcus Faecalis with N5-(Phosphonoacetyl)-L-Ornithine within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni1341 b:34.6 occ:1.00 O A:HOH2130 2.2 14.7 1.0 NE2 C:HIS69 2.2 51.3 1.0 NE2 A:HIS69 2.2 26.6 1.0 NE2 B:HIS69 2.3 19.8 1.0 O A:HOH2050 2.5 47.4 1.0 O A:HOH2046 2.7 44.6 1.0 CE1 C:HIS69 3.1 49.1 1.0 CD2 A:HIS69 3.1 25.9 1.0 CD2 B:HIS69 3.2 18.6 1.0 CD2 C:HIS69 3.3 49.8 1.0 CE1 B:HIS69 3.3 19.5 1.0 CE1 A:HIS69 3.3 26.7 1.0 ND1 C:HIS69 4.3 47.1 1.0 O C:GLY70 4.3 47.1 1.0 O B:GLY70 4.3 35.9 1.0 CG A:HIS69 4.3 25.5 1.0 O A:GLY70 4.3 28.1 1.0 ND1 A:HIS69 4.4 26.2 1.0 CG C:HIS69 4.4 47.5 1.0 ND1 B:HIS69 4.4 19.9 1.0 CG B:HIS69 4.4 18.7 1.0 O B:HOH2040 4.5 24.1 1.0 OE1 B:GLU60 4.5 29.9 1.0 O A:HOH2044 4.5 24.3 1.0 OE1 C:GLU60 4.7 32.1 1.0 OE1 A:GLU60 4.7 32.4 1.0

Nickel binding site 2 out of 2 in the Crystal Structure of Putrescine Transcarbamylase From Enterococcus Faecalis with N5-(Phosphonoacetyl)-L-Ornithine


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 Putrescine Transcarbamylase From Enterococcus Faecalis with N5-(Phosphonoacetyl)-L-Ornithine within 5.0Å range: probe atom residue distance (Å) B Occ D:Ni1341 b:35.8 occ:1.00 NE2 D:HIS69 2.3 38.6 1.0 NE2 F:HIS69 2.3 25.2 1.0 NE2 E:HIS69 2.3 39.6 1.0 O D:HOH2049 2.3 2.0 1.0 CE1 D:HIS69 3.2 37.7 1.0 CE1 F:HIS69 3.2 25.4 1.0 CD2 D:HIS69 3.2 36.8 1.0 CD2 F:HIS69 3.3 24.1 1.0 CE1 E:HIS69 3.3 39.5 1.0 CD2 E:HIS69 3.3 38.2 1.0 O D:GLY70 4.3 39.9 1.0 O F:GLY70 4.3 27.0 1.0 OE2 F:GLU60 4.3 40.4 1.0 O D:HOH2042 4.4 13.1 1.0 ND1 D:HIS69 4.4 37.0 1.0 ND1 F:HIS69 4.4 25.0 1.0 O E:GLY70 4.4 41.4 1.0 OE2 D:GLU60 4.4 35.6 1.0 CG D:HIS69 4.4 36.3 1.0 CG F:HIS69 4.4 24.0 1.0 ND1 E:HIS69 4.4 39.2 1.0 OE2 E:GLU60 4.5 32.2 1.0 CG E:HIS69 4.5 38.6 1.0 O D:HOH2050 4.5 10.9 1.0 O E:HOH2024 4.6 2.0 1.0

L.M.Polo, F.Gil-Ortiz, A.Cantin, V.Rubio. New Insight Into the Transcarbamylase Family: the Structure of Putrescine Transcarbamylase, A Key Catalyst For Fermentative Utilization of Agmatine Plos One V. 7 31528 2012.
ISSN: ISSN 1932-6203
PubMed: 22363663
DOI: 10.1371/JOURNAL.PONE.0031528